Citrus Sinensis ID: 004244

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760------
Protein Sequence
MFAKPLSFWIPKMPIINLQIHRSLSTLSATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLPNSGRSTYGQ
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccccccccccHHHHHHHHHcccccHHHHHHHHHHHcccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHcccHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccHHcccccccccccHHHHEEEHHHHHccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHccccccEHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEEEccc
Coil and Loop (DISEMBL)
mfakplsfwipkmpiinlqiHRSLSTLSATADAVIADKALTLLkrhpyqlnslsseftPEAAFNLLLKTQSDQTLTLKFLkwaqpqpfftpklkcltlHILTKFKLYKSAQTLAQNLAvdlprddgnfVFSCLKETyhlcdstsssaVIDLVVKSYSHLNMIDKAVNIVNLAKvhgfmpgvlSYNAILDSVIRSGRNNWVKFAEEVYNEmgksrvspnvytyNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMglkgiepnliSYNVIINGlckegrlkETKGILNEisrkglvpdevtYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHvrelrpnektYTTLINGFSQHGFLDEAYRLLNEMtkngfmpsIVTYNALIKghctggrveDAVGVLHGMarkglapdvvSYSTIISGFSRSQELDKAFDTKREMVekgvlpdtitySSLIHGLCEQRRITEACELFQEMLsrgmspdeftYTTLINAYctegdipqalrLHDEMiqkgflpdvVTYSVLINGLNKQARTMEAKKLLLKLfydesvpsdvIYNTlienctnieFQNVAALLKGFCMKGLMNEADRVFELMLQrnhmpneaVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMakdgllpnsgrstygq
Flexible Loop (DISEMBL)
mfakplsfwipKMPIINLQIHRSLSTLSATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYnemgksrvspNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGIlneisrkglvpdeVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIisgfsrsqelDKAFDTKREMVekgvlpdtitysSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEmakdgllpnsgrstygq
Low Complexity Region (SEG)
MFAKPLSFWIPKMPIINLQIHRSLSTLSATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLPNSGRSTYGQ
Disordered region (IsUnstruct)
*****LSFWIPKMPIINLQIHRSLSTLSATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEM****************
Disordered Region (DISOPRED)
*********I*************************ADKALTLLKR*********SEFTPEAAFNLLLKTQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLPNSGRSTYGQ
Disordered Region (DISEMBL)
MFAKPLSFWIPKMPIINLQIHRSLSTLSATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLPNSGRSTYGQ
Disordered Region (DISPRO)
*FAKPLSFWIPKMPIINLQIHRSLSTLSATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLPNSGRSTYGQ
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFAKPLSFWIPKMPIINLQIHRSLSTLSATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLPNSGRSTYGQ
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	766	2.2.26 [Sep-21-2011]
Q9FIX3	747	Pentatricopeptide repeat-	yes	no	0.959	0.983	0.677	0.0
Q9LVQ5	1096	Pentatricopeptide repeat-	no	no	0.864	0.604	0.320	4e-96
Q9LFC5	729	Pentatricopeptide repeat-	no	no	0.791	0.831	0.290	5e-88
Q0WVK7	741	Pentatricopeptide repeat-	no	no	0.859	0.887	0.287	4e-87
Q9LFF1	754	Pentatricopeptide repeat-	no	no	0.818	0.831	0.290	1e-85
Q9FJE6	907	Putative pentatricopeptid	no	no	0.762	0.643	0.310	7e-83
Q9LSL9	915	Pentatricopeptide repeat-	no	no	0.668	0.559	0.317	3e-82
Q9LQ14	629	Pentatricopeptide repeat-	no	no	0.699	0.852	0.304	1e-81
Q9CAN0	630	Pentatricopeptide repeat-	no	no	0.714	0.868	0.298	3e-81
P0C894	761	Putative pentatricopeptid	no	no	0.828	0.834	0.286	3e-80

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

 Score = 1064 bits (2751), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 502/741 (67%), Positives = 615/741 (82%), Gaps = 6/741 (0%)

Query: 20  IHRSLSTL-SATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLTLK 78
           I RSLST  S+ +D+++ADKALT LKRHPYQL+ LS+ FTPEAA NLLLK+Q+DQ L LK
Sbjct: 8   IRRSLSTFASSPSDSLLADKALTFLKRHPYQLHHLSANFTPEAASNLLLKSQNDQALILK 67

Query: 79  FLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDD-GNFVFSCLKETY 137
           FL WA P  FFT + KC+TLHILTKFKLYK+AQ LA+++A     D+  + VF  L+ETY
Sbjct: 68  FLNWANPHQFFTLRCKCITLHILTKFKLYKTAQILAEDVAAKTLDDEYASLVFKSLQETY 127

Query: 138 HLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRN 197
            LC STSS  V DLVVKSYS L++IDKA++IV+LA+ HGFMPGVLSYNA+LD+ IRS RN
Sbjct: 128 DLCYSTSS--VFDLVVKSYSRLSLIDKALSIVHLAQAHGFMPGVLSYNAVLDATIRSKRN 185

Query: 198 NWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTY 257
             + FAE V+ EM +S+VSPNV+TYN+LIRGFC  G++++ L  F +ME   CL NVVTY
Sbjct: 186 --ISFAENVFKEMLESQVSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTY 243

Query: 258 NTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISR 317
           NTLIDGYCKL +IDD FKLLR M LKG+EPNLISYNV+INGLC+EGR+KE   +L E++R
Sbjct: 244 NTLIDGYCKLRKIDDGFKLLRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNR 303

Query: 318 KGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNR 377
           +G   DEVTYNTL+ GYCKEGN HQALV+HAEM+R+GL+P+V+TYTSLI+SMCK+GN+NR
Sbjct: 304 RGYSLDEVTYNTLIKGYCKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNR 363

Query: 378 AMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIK 437
           AMEF DQM VR L PNE+TYTTL++GFSQ G+++EAYR+L EM  NGF PS+VTYNALI 
Sbjct: 364 AMEFLDQMRVRGLCPNERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALIN 423

Query: 438 GHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLP 497
           GHC  G++EDA+ VL  M  KGL+PDVVSYST++SGF RS ++D+A   KREMVEKG+ P
Sbjct: 424 GHCVTGKMEDAIAVLEDMKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKP 483

Query: 498 DTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLH 557
           DTITYSSLI G CEQRR  EAC+L++EML  G+ PDEFTYT LINAYC EGD+ +AL+LH
Sbjct: 484 DTITYSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEKALQLH 543

Query: 558 DEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNI 617
           +EM++KG LPDVVTYSVLINGLNKQ+RT EAK+LLLKLFY+ESVPSDV Y+TLIENC+NI
Sbjct: 544 NEMVEKGVLPDVVTYSVLINGLNKQSRTREAKRLLLKLFYEESVPSDVTYHTLIENCSNI 603

Query: 618 EFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLY 677
           EF++V +L+KGFCMKG+M EAD+VFE ML +NH P+   Y+I+IHGH + G+++KAY LY
Sbjct: 604 EFKSVVSLIKGFCMKGMMTEADQVFESMLGKNHKPDGTAYNIMIHGHCRAGDIRKAYTLY 663

Query: 678 KKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKE 737
           K+MV+SGF+ HTVT+I LVKALH  G   EL+ VI ++LRSC LS+AE AKVLVEINH+E
Sbjct: 664 KEMVKSGFLLHTVTVIALVKALHKEGKVNELNSVIVHVLRSCELSEAEQAKVLVEINHRE 723

Query: 738 GNMDAVLNVLTEMAKDGLLPN 758
           GNMD VL+VL EMAKDG LPN
Sbjct: 724 GNMDVVLDVLAEMAKDGFLPN 744

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LVQ5|PP432_ARATH Pentatricopeptide repeat-containing protein At5g55840 OS=Arabidopsis thaliana GN=At5g55840 PE=2 SV=2

 Score =  353 bits (905), Expect = 4e-96,   Method: Compositional matrix adjust.
 Identities = 232/724 (32%), Positives = 355/724 (49%), Gaps = 62/724 (8%)

Query: 75  LTLKFLKWAQPQPFFTP----KLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVF 130
           L LKFLKW   QP        +L C+T HIL + ++Y  A+ + + L+  L     +FVF
Sbjct: 52  LALKFLKWVVKQPGLETDHIVQLVCITTHILVRARMYDPARHILKELS--LMSGKSSFVF 109

Query: 131 SCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDS 190
             L  TY LC+S  S  V D++++ Y    MI  ++ I  L  ++GF P V + NAIL S
Sbjct: 110 GALMTTYRLCNSNPS--VYDILIRVYLREGMIQDSLEIFRLMGLYGFNPSVYTCNAILGS 167

Query: 191 VIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNC 250
           V++SG +  V        EM K ++ P+V T+N+LI   C  G  E       +MEK+  
Sbjct: 168 VVKSGEDVSV---WSFLKEMLKRKICPDVATFNILINVLCAEGSFEKSSYLMQKMEKSGY 224

Query: 251 LANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKG 310
              +VTYNT++  YCK GR   A +LL  M  KG++ ++ +YN++I+ LC+  R+ +   
Sbjct: 225 APTIVTYNTVLHWYCKKGRFKAAIELLDHMKSKGVDADVCTYNMLIHDLCRSNRIAKGYL 284

Query: 311 ILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMC 370
           +L ++ ++ + P+EVTYNTL+NG+  EG +  A  L  EM+  GLSPN VT+ +LI+   
Sbjct: 285 LLRDMRKRMIHPNEVTYNTLINGFSNEGKVLIASQLLNEMLSFGLSPNHVTFNALIDGHI 344

Query: 371 KSGNLNRAMEFFDQMHVRELRPNEK----------------------------------- 395
             GN   A++ F  M  + L P+E                                    
Sbjct: 345 SEGNFKEALKMFYMMEAKGLTPSEVSYGVLLDGLCKNAEFDLARGFYMRMKRNGVCVGRI 404

Query: 396 TYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGM 455
           TYT +I+G  ++GFLDEA  LLNEM+K+G  P IVTY+ALI G C  GR + A  ++  +
Sbjct: 405 TYTGMIDGLCKNGFLDEAVVLLNEMSKDGIDPDIVTYSALINGFCKVGRFKTAKEIVCRI 464

Query: 456 ARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRI 515
            R GL+P+ + YST+I    R   L +A      M+ +G   D  T++ L+  LC+  ++
Sbjct: 465 YRVGLSPNGIIYSTLIYNCCRMGCLKEAIRIYEAMILEGHTRDHFTFNVLVTSLCKAGKV 524

Query: 516 TEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVL 575
            EA E  + M S G+ P+  ++  LIN Y   G+  +A  + DEM + G  P   TY  L
Sbjct: 525 AEAEEFMRCMTSDGILPNTVSFDCLINGYGNSGEGLKAFSVFDEMTKVGHHPTFFTYGSL 584

Query: 576 INGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLM 635
           + GL K     EA+K L  L    +    V+YNT               LL   C  G +
Sbjct: 585 LKGLCKGGHLREAEKFLKSLHAVPAAVDTVMYNT---------------LLTAMCKSGNL 629

Query: 636 NEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKM-VRSGFVPHTVTIIV 694
            +A  +F  M+QR+ +P+   Y  +I G  + G    A    K+   R   +P+ V    
Sbjct: 630 AKAVSLFGEMVQRSILPDSYTYTSLISGLCRKGKTVIAILFAKEAEARGNVLPNKVMYTC 689

Query: 695 LVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDG 754
            V  +  AG  +      E +       D      +++   + G ++   ++L EM    
Sbjct: 690 FVDGMFKAGQWKAGIYFREQMDNLGHTPDIVTTNAMIDGYSRMGKIEKTNDLLPEMGNQN 749

Query: 755 LLPN 758
             PN
Sbjct: 750 GGPN 753

Arabidopsis thaliana (taxid: 3702)

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

 Score =  326 bits (835), Expect = 5e-88,   Method: Compositional matrix adjust.
 Identities = 195/671 (29%), Positives = 338/671 (50%), Gaps = 65/671 (9%)

Query: 59  PEAAFNLLLKTQSDQTLTLKFLKWAQPQPFFTPKLK--CLTLHILTKFKLYKSAQTLAQN 116
           P A   +L + ++D TL  +F+       F  P  K   L+L  +    +     + AQ+
Sbjct: 78  PLAVVEVLYRCRNDLTLGQRFV---DQLGFHFPNFKHTSLSLSAMIHILVRSGRLSDAQS 134

Query: 117 LAVDLPRDDGNF---VFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAK 173
             + + R  G     + + L  T+  C S  S  V DL++++Y     + +A     L +
Sbjct: 135 CLLRMIRRSGVSRLEIVNSLDSTFSNCGSNDS--VFDLLIRTYVQARKLREAHEAFTLLR 192

Query: 174 VHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVG 233
             GF   + + NA++ S++R G   WV+ A  VY E+ +S V  NVYT N+++   C  G
Sbjct: 193 SKGFTVSIDACNALIGSLVRIG---WVELAWGVYQEISRSGVGINVYTLNIMVNALCKDG 249

Query: 234 DLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYN 293
            +E    F S++++     ++VTYNTLI  Y   G +++AF+L+  M  KG  P + +YN
Sbjct: 250 KMEKVGTFLSQVQEKGVYPDIVTYNTLISAYSSKGLMEEAFELMNAMPGKGFSPGVYTYN 309

Query: 294 VIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRN 353
            +INGLCK G+ +  K +  E+ R GL PD  TY +LL   CK+G++ +   + ++M   
Sbjct: 310 TVINGLCKHGKYERAKEVFAEMLRSGLSPDSTTYRSLLMEACKKGDVVETEKVFSDMRSR 369

Query: 354 GLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHG----- 408
            + P++V ++S+++   +SGNL++A+ +F+ +    L P+   YT LI G+ + G     
Sbjct: 370 DVVPDLVCFSSMMSLFTRSGNLDKALMYFNSVKEAGLIPDNVIYTILIQGYCRKGMISVA 429

Query: 409 ------------------------------FLDEAYRLLNEMTKNGFMPSIVTYNALIKG 438
                                          L EA +L NEMT+    P   T   LI G
Sbjct: 430 MNLRNEMLQQGCAMDVVTYNTILHGLCKRKMLGEADKLFNEMTERALFPDSYTLTILIDG 489

Query: 439 HCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPD 498
           HC  G +++A+ +   M  K +  DVV+Y+T++ GF +  ++D A +   +MV K +LP 
Sbjct: 490 HCKLGNLQNAMELFQKMKEKRIRLDVVTYNTLLDGFGKVGDIDTAKEIWADMVSKEILPT 549

Query: 499 TITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHD 558
            I+YS L++ LC +  + EA  ++ EM+S+ + P      ++I  YC  G+        +
Sbjct: 550 PISYSILVNALCSKGHLAEAFRVWDEMISKNIKPTVMICNSMIKGYCRSGNASDGESFLE 609

Query: 559 EMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDES--VPSDVIYNTLIENCTN 616
           +MI +GF+PD ++Y+ LI G  ++    +A  L+ K+  ++   VP    YN+       
Sbjct: 610 KMISEGFVPDCISYNTLIYGFVREENMSKAFGLVKKMEEEQGGLVPDVFTYNS------- 662

Query: 617 IEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDL 676
                   +L GFC +  M EA+ V   M++R   P+ + Y  +I+G     N+ +A+ +
Sbjct: 663 --------ILHGFCRQNQMKEAEVVLRKMIERGVNPDRSTYTCMINGFVSQDNLTEAFRI 714

Query: 677 YKKMVRSGFVP 687
           + +M++ GF P
Sbjct: 715 HDEMLQRGFSP 725

Arabidopsis thaliana (taxid: 3702)

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

 Score =  323 bits (827), Expect = 4e-87,   Method: Compositional matrix adjust.
 Identities = 207/719 (28%), Positives = 353/719 (49%), Gaps = 61/719 (8%)

Query: 50  LNSLSSEFTPEAAFNLLLKTQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKS 109
           L     +F  +    +L+K + D  L L F  WA+ +     +  C+ +H+    K  K 
Sbjct: 78  LKPYECKFKTDHLIWVLMKIKCDYRLVLDFFDWARSRRDSNLESLCIVIHLAVASKDLKV 137

Query: 110 AQTLAQNLAVDLPRDD--GNFV--FSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKA 165
           AQ+L  +   + P+ +   +FV  F  L  TY   D  S   V D+  +      ++ +A
Sbjct: 138 AQSLISSFW-ERPKLNVTDSFVQFFDLLVYTYK--DWGSDPRVFDVFFQVLVDFGLLREA 194

Query: 166 VNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVY-TYNV 224
             +      +G +  V S N  L                        +R+S + Y T   
Sbjct: 195 RRVFEKMLNYGLVLSVDSCNVYL------------------------TRLSKDCYKTATA 230

Query: 225 LIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKG 284
           +I               F E  +     NV +YN +I   C+LGRI +A  LL  M LKG
Sbjct: 231 II--------------VFREFPEVGVCWNVASYNIVIHFVCQLGRIKEAHHLLLLMELKG 276

Query: 285 IEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQAL 344
             P++ISY+ ++NG C+ G L +   ++  + RKGL P+   Y +++   C+   L +A 
Sbjct: 277 YTPDVISYSTVVNGYCRFGELDKVWKLIEVMKRKGLKPNSYIYGSIIGLLCRICKLAEAE 336

Query: 345 VLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGF 404
              +EM+R G+ P+ V YT+LI+  CK G++  A +FF +MH R++ P+  TYT +I+GF
Sbjct: 337 EAFSEMIRQGILPDTVVYTTLIDGFCKRGDIRAASKFFYEMHSRDITPDVLTYTAIISGF 396

Query: 405 SQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDV 464
            Q G + EA +L +EM   G  P  VT+  LI G+C  G ++DA  V + M + G +P+V
Sbjct: 397 CQIGDMVEAGKLFHEMFCKGLEPDSVTFTELINGYCKAGHMKDAFRVHNHMIQAGCSPNV 456

Query: 465 VSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQE 524
           V+Y+T+I G  +  +LD A +   EM + G+ P+  TY+S+++GLC+   I EA +L  E
Sbjct: 457 VTYTTLIDGLCKEGDLDSANELLHEMWKIGLQPNIFTYNSIVNGLCKSGNIEEAVKLVGE 516

Query: 525 MLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQAR 584
             + G++ D  TYTTL++AYC  G++ +A  +  EM+ KG  P +VT++VL+NG      
Sbjct: 517 FEAAGLNADTVTYTTLMDAYCKSGEMDKAQEILKEMLGKGLQPTIVTFNVLMNGFCLHGM 576

Query: 585 TMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFEL 644
             + +KLL  +      P+   +N+L+               K +C++  +  A  +++ 
Sbjct: 577 LEDGEKLLNWMLAKGIAPNATTFNSLV---------------KQYCIRNNLKAATAIYKD 621

Query: 645 MLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGM 704
           M  R   P+   Y+ ++ GH K  N+++A+ L+++M   GF     T  VL+K       
Sbjct: 622 MCSRGVGPDGKTYENLVKGHCKARNMKEAWFLFQEMKGKGFSVSVSTYSVLIKGFLKRKK 681

Query: 705 NEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLPNSGRST 763
             E  +V + + R    +D E+     +  +K    D +++ + E+ ++ L+    R  
Sbjct: 682 FLEAREVFDQMRREGLAADKEIFDFFSDTKYKGKRPDTIVDPIDEIIENYLVDEQLRGA 740

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFF1|PP281_ARATH Pentatricopeptide repeat-containing protein At3g53700, chloroplastic OS=Arabidopsis thaliana GN=MEE40 PE=2 SV=1

 Score =  318 bits (814), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 204/702 (29%), Positives = 353/702 (50%), Gaps = 75/702 (10%)

Query: 67  LKTQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDG 126
           L++Q D +  L+    A  +P F+P+   L   IL   +L +S              DD 
Sbjct: 57  LRSQPDDSAALRLFNLASKKPNFSPE-PALYEEIL--LRLGRSGSF-----------DDM 102

Query: 127 NFVFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVN-LAKVHGFMPGVLSYN 185
             +   +K +   C+  +S+ +I  +++SY+   + D+ +++V+ +    G  P    YN
Sbjct: 103 KKILEDMKSSR--CEMGTSTFLI--LIESYAQFELQDEILSVVDWMIDEFGLKPDTHFYN 158

Query: 186 AILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEM 245
            +L+ ++     N +K  E  + +M    + P+V T+NVLI+  C    L   +    +M
Sbjct: 159 RMLNLLVD---GNSLKLVEISHAKMSVWGIKPDVSTFNVLIKALCRAHQLRPAILMLEDM 215

Query: 246 EKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRL 305
                + +  T+ T++ GY + G +D A ++   M   G   + +S NVI++G CKEGR+
Sbjct: 216 PSYGLVPDEKTFTTVMQGYIEEGDLDGALRIREQMVEFGCSWSNVSVNVIVHGFCKEGRV 275

Query: 306 KETKGILNEISRK-GLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTS 364
           ++    + E+S + G  PD+ T+NTL+NG CK G++  A+ +   M++ G  P+V TY S
Sbjct: 276 EDALNFIQEMSNQDGFFPDQYTFNTLVNGLCKAGHVKHAIEIMDVMLQEGYDPDVYTYNS 335

Query: 365 LINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNG 424
           +I+ +CK G +  A+E  DQM  R+  PN  TY TLI+   +   ++EA  L   +T  G
Sbjct: 336 VISGLCKLGEVKEAVEVLDQMITRDCSPNTVTYNTLISTLCKENQVEEATELARVLTSKG 395

Query: 425 FMPSIVTYNALIKG------H-----------------------------CTGGRVEDAV 449
            +P + T+N+LI+G      H                             C+ G++++A+
Sbjct: 396 ILPDVCTFNSLIQGLCLTRNHRVAMELFEEMRSKGCEPDEFTYNMLIDSLCSKGKLDEAL 455

Query: 450 GVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGL 509
            +L  M   G A  V++Y+T+I GF ++ +  +A +   EM   GV  +++TY++LI GL
Sbjct: 456 NMLKQMELSGCARSVITYNTLIDGFCKANKTREAEEIFDEMEVHGVSRNSVTYNTLIDGL 515

Query: 510 CEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDV 569
           C+ RR+ +A +L  +M+  G  PD++TY +L+  +C  GDI +A  +   M   G  PD+
Sbjct: 516 CKSRRVEDAAQLMDQMIMEGQKPDKYTYNSLLTHFCRGGDIKKAADIVQAMTSNGCEPDI 575

Query: 570 VTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGF 629
           VTY  LI+GL K  R   A KLL  +       +   YN +I+               G 
Sbjct: 576 VTYGTLISGLCKAGRVEVASKLLRSIQMKGINLTPHAYNPVIQ---------------GL 620

Query: 630 CMKGLMNEADRVFELMLQRNHMPNEAV-YDIIIHGHSKVGN-VQKAYDLYKKMVRSGFVP 687
             K    EA  +F  ML++N  P +AV Y I+  G    G  +++A D   +++  GFVP
Sbjct: 621 FRKRKTTEAINLFREMLEQNEAPPDAVSYRIVFRGLCNGGGPIREAVDFLVELLEKGFVP 680

Query: 688 HTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKV 729
              ++ +L + L T  M E L +++  +++  R S+ E++ V
Sbjct: 681 EFSSLYMLAEGLLTLSMEETLVKLVNMVMQKARFSEEEVSMV 722

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJE6|PP437_ARATH Putative pentatricopeptide repeat-containing protein At5g59900 OS=Arabidopsis thaliana GN=At5g59900 PE=3 SV=1

 Score =  309 bits (791), Expect = 7e-83,   Method: Compositional matrix adjust.
 Identities = 190/612 (31%), Positives = 324/612 (52%), Gaps = 28/612 (4%)

Query: 152 VVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMG 211
           V++S   L  + +A  ++   +  G    ++ YN ++D + +  +   V  A  +  ++ 
Sbjct: 233 VIRSLCELKDLSRAKEMIAHMEATGCDVNIVPYNVLIDGLCKKQK---VWEAVGIKKDLA 289

Query: 212 KSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRID 271
              + P+V TY  L+ G C V + E+GL    EM       +    ++L++G  K G+I+
Sbjct: 290 GKDLKPDVVTYCTLVYGLCKVQEFEIGLEMMDEMLCLRFSPSEAAVSSLVEGLRKRGKIE 349

Query: 272 DAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLL 331
           +A  L++ +   G+ PNL  YN +I+ LCK  +  E + + + + + GL P++VTY+ L+
Sbjct: 350 EALNLVKRVVDFGVSPNLFVYNALIDSLCKGRKFHEAELLFDRMGKIGLRPNDVTYSILI 409

Query: 332 NGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELR 391
           + +C+ G L  AL    EMV  GL  +V  Y SLIN  CK G+++ A  F  +M  ++L 
Sbjct: 410 DMFCRRGKLDTALSFLGEMVDTGLKLSVYPYNSLINGHCKFGDISAAEGFMAEMINKKLE 469

Query: 392 PNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGV 451
           P   TYT+L+ G+   G +++A RL +EMT  G  PSI T+  L+ G    G + DAV +
Sbjct: 470 PTVVTYTSLMGGYCSKGKINKALRLYHEMTGKGIAPSIYTFTTLLSGLFRAGLIRDAVKL 529

Query: 452 LHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCE 511
            + MA   + P+ V+Y+ +I G+    ++ KAF+  +EM EKG++PDT +Y  LIHGLC 
Sbjct: 530 FNEMAEWNVKPNRVTYNVMIEGYCEEGDMSKAFEFLKEMTEKGIVPDTYSYRPLIHGLCL 589

Query: 512 QRRITEACELFQEMLSRGMSP-DEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVV 570
             + +EA ++F + L +G    +E  YT L++ +C EG + +AL +  EM+Q+G   D+V
Sbjct: 590 TGQASEA-KVFVDGLHKGNCELNEICYTGLLHGFCREGKLEEALSVCQEMVQRGVDLDLV 648

Query: 571 TYSVLINGLNKQARTMEAKKL---LLKLFYDESV-PSDVIYNTLIENCTNIEFQNVAALL 626
            Y VLI+G  K     + +KL   LLK  +D  + P DVIY ++I+  +           
Sbjct: 649 CYGVLIDGSLKH----KDRKLFFGLLKEMHDRGLKPDDVIYTSMIDAKSKT--------- 695

Query: 627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFV 686
                 G   EA  +++LM+    +PNE  Y  +I+G  K G V +A  L  KM     V
Sbjct: 696 ------GDFKEAFGIWDLMINEGCVPNEVTYTAVINGLCKAGFVNEAEVLCSKMQPVSSV 749

Query: 687 PHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNV 746
           P+ VT    +  L    ++ + +  + N +    L++     +L+    ++G ++    +
Sbjct: 750 PNQVTYGCFLDILTKGEVDMQKAVELHNAILKGLLANTATYNMLIRGFCRQGRIEEASEL 809

Query: 747 LTEMAKDGLLPN 758
           +T M  DG+ P+
Sbjct: 810 ITRMIGDGVSPD 821

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LSL9|PP445_ARATH Pentatricopeptide repeat-containing protein At5g65560 OS=Arabidopsis thaliana GN=At5g65560 PE=2 SV=1

 Score =  306 bits (785), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 170/536 (31%), Positives = 287/536 (53%), Gaps = 24/536 (4%)

Query: 184 YNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFS 243
           YN +L+S+ R G  + +K   +VY EM + +V PN+YTYN ++ G+C +G++E   ++ S
Sbjct: 186 YNTLLNSLARFGLVDEMK---QVYMEMLEDKVCPNIYTYNKMVNGYCKLGNVEEANQYVS 242

Query: 244 EMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEG 303
           ++ +     +  TY +LI GYC+   +D AFK+  +M LKG   N ++Y  +I+GLC   
Sbjct: 243 KIVEAGLDPDFFTYTSLIMGYCQRKDLDSAFKVFNEMPLKGCRRNEVAYTHLIHGLCVAR 302

Query: 304 RLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYT 363
           R+ E   +  ++      P   TY  L+   C      +AL L  EM   G+ PN+ TYT
Sbjct: 303 RIDEAMDLFVKMKDDECFPTVRTYTVLIKSLCGSERKSEALNLVKEMEETGIKPNIHTYT 362

Query: 364 SLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKN 423
            LI+S+C      +A E   QM  + L PN  TY  LING+ + G +++A  ++  M   
Sbjct: 363 VLIDSLCSQCKFEKARELLGQMLEKGLMPNVITYNALINGYCKRGMIEDAVDVVELMESR 422

Query: 424 GFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKA 483
              P+  TYN LIKG+C    V  A+GVL+ M  + + PDVV+Y+++I G  RS   D A
Sbjct: 423 KLSPNTRTYNELIKGYCKSN-VHKAMGVLNKMLERKVLPDVVTYNSLIDGQCRSGNFDSA 481

Query: 484 FDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINA 543
           +     M ++G++PD  TY+S+I  LC+ +R+ EAC+LF  +  +G++P+   YT LI+ 
Sbjct: 482 YRLLSLMNDRGLVPDQWTYTSMIDSLCKSKRVEEACDLFDSLEQKGVNPNVVMYTALIDG 541

Query: 544 YCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKL---LLKLFYDES 600
           YC  G + +A  + ++M+ K  LP+ +T++ LI+GL    +  EA  L   ++K+    +
Sbjct: 542 YCKAGKVDEAHLMLEKMLSKNCLPNSLTFNALIHGLCADGKLKEATLLEEKMVKIGLQPT 601

Query: 601 VPSDVI-----------------YNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFE 643
           V +D I                 +  ++ + T  +       ++ +C +G + +A+ +  
Sbjct: 602 VSTDTILIHRLLKDGDFDHAYSRFQQMLSSGTKPDAHTYTTFIQTYCREGRLLDAEDMMA 661

Query: 644 LMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKAL 699
            M +    P+   Y  +I G+  +G    A+D+ K+M  +G  P   T + L+K L
Sbjct: 662 KMRENGVSPDLFTYSSLIKGYGDLGQTNFAFDVLKRMRDTGCEPSQHTFLSLIKHL 717

Arabidopsis thaliana (taxid: 3702)

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

 Score =  304 bits (779), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 170/559 (30%), Positives = 295/559 (52%), Gaps = 23/559 (4%)

Query: 162 IDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYT 221
           +D AV++         +P ++ +N +L ++ +  + + V    E    M   R+S ++Y+
Sbjct: 61  LDDAVDLFGEMVQSRPLPSIVEFNKLLSAIAKMNKFDLVISLGE---RMQNLRISYDLYS 117

Query: 222 YNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMG 281
           YN+LI  FC    L + L    +M K     ++VT ++L++GYC   RI +A  L+  M 
Sbjct: 118 YNILINCFCRRSQLPLALAVLGKMMKLGYEPDIVTLSSLLNGYCHGKRISEAVALVDQMF 177

Query: 282 LKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLH 341
           +   +PN +++N +I+GL    +  E   +++ +  +G  PD  TY T++NG CK G++ 
Sbjct: 178 VMEYQPNTVTFNTLIHGLFLHNKASEAVALIDRMVARGCQPDLFTYGTVVNGLCKRGDID 237

Query: 342 QALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLI 401
            AL L  +M +  +  +VV YT++I+++C   N+N A+  F +M  + +RPN  TY +LI
Sbjct: 238 LALSLLKKMEKGKIEADVVIYTTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLI 297

Query: 402 NGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLA 461
                +G   +A RLL++M +    P++VT++ALI      G++ +A  +   M ++ + 
Sbjct: 298 RCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSID 357

Query: 462 PDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACEL 521
           PD+ +YS++I+GF     LD+A      M+ K   P+ +TY++LI G C+ +R+ E  EL
Sbjct: 358 PDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVEEGMEL 417

Query: 522 FQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNK 581
           F+EM  RG+  +  TY TLI      GD   A ++  +M+  G  PD++TYS+L++GL K
Sbjct: 418 FREMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPDIITYSILLDGLCK 477

Query: 582 QARTMEAKKLLLKLFYDESVPSDVIYNTLIEN-C------------TNIEFQNV------ 622
             +  +A  +   L   +  P    YN +IE  C             ++  + V      
Sbjct: 478 YGKLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPNVII 537

Query: 623 -AALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMV 681
              ++ GFC KGL  EAD +F  M +   +PN   Y+ +I    + G+   + +L K+M 
Sbjct: 538 YTTMISGFCRKGLKEEADALFREMKEDGTLPNSGTYNTLIRARLRDGDKAASAELIKEMR 597

Query: 682 RSGFVPHTVTIIVLVKALH 700
             GFV    TI +++  LH
Sbjct: 598 SCGFVGDASTISMVINMLH 616

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAN0|PPR99_ARATH Pentatricopeptide repeat-containing protein At1g63130, mitochondrial OS=Arabidopsis thaliana GN=At1g63130 PE=2 SV=1

 Score =  303 bits (776), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 171/572 (29%), Positives = 302/572 (52%), Gaps = 25/572 (4%)

Query: 162 IDKAVNIV-NLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVY 220
           +D AVN+  ++ K   F P ++ ++ +L ++ +  + + V    E    +G   +S N+Y
Sbjct: 62  LDDAVNLFGDMVKSRPF-PSIVEFSKLLSAIAKMNKFDLVISLGEQMQNLG---ISHNLY 117

Query: 221 TYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDM 280
           TY++LI  FC    L + L   ++M K     ++VT N+L++G+C   RI DA  L+  M
Sbjct: 118 TYSILINCFCRRSQLSLALAVLAKMMKLGYEPDIVTLNSLLNGFCHGNRISDAVSLVGQM 177

Query: 281 GLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNL 340
              G +P+  ++N +I+GL +  R  E   +++ +  KG  PD VTY  ++NG CK G++
Sbjct: 178 VEMGYQPDSFTFNTLIHGLFRHNRASEAVALVDRMVVKGCQPDLVTYGIVVNGLCKRGDI 237

Query: 341 HQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTL 400
             AL L  +M +  + P VV Y ++I+++C   N+N A+  F +M  + +RPN  TY +L
Sbjct: 238 DLALSLLKKMEQGKIEPGVVIYNTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSL 297

Query: 401 INGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGL 460
           I     +G   +A RLL++M +    P++VT++ALI      G++ +A  +   M ++ +
Sbjct: 298 IRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSI 357

Query: 461 APDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACE 520
            PD+ +YS++I+GF     LD+A      M+ K   P+ +TY++LI G C+ +R+ E  E
Sbjct: 358 DPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVDEGME 417

Query: 521 LFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLN 580
           LF+EM  RG+  +  TYTTLI+ +    +   A  +  +M+  G LPD++TYS+L++GL 
Sbjct: 418 LFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQMVSDGVLPDIMTYSILLDGLC 477

Query: 581 KQARTMEAKKLLLKLFYDESVPSDVIYNTLIEN-CTNIEFQN------------------ 621
              +   A  +   L   +  P    YN +IE  C   + ++                  
Sbjct: 478 NNGKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPNVV 537

Query: 622 -VAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKM 680
               ++ GFC KGL  EAD +F  M +   +P+   Y+ +I  H + G+   + +L ++M
Sbjct: 538 TYTTMMSGFCRKGLKEEADALFREMKEEGPLPDSGTYNTLIRAHLRDGDKAASAELIREM 597

Query: 681 VRSGFVPHTVTIIVLVKALHTAGMNEELSQVI 712
               FV    TI ++   LH   +++   +++
Sbjct: 598 RSCRFVGDASTIGLVTNMLHDGRLDKSFLKML 629

Arabidopsis thaliana (taxid: 3702)

>sp|P0C894|PP143_ARATH Putative pentatricopeptide repeat-containing protein At2g02150 OS=Arabidopsis thaliana GN=At2g02150 PE=3 SV=1

 Score =  300 bits (768), Expect = 3e-80,   Method: Compositional matrix adjust.
 Identities = 199/694 (28%), Positives = 337/694 (48%), Gaps = 59/694 (8%)

Query: 65  LLLKTQSDQTLTLKFLKWAQPQPFFTPKLK--CLTLHILTKFKLYKSAQTLAQNLAVDLP 122
           +L++ + D  L  KF KW+  +  F   ++  C+  HIL   ++Y  A ++ + +   L 
Sbjct: 114 VLVELKEDPKLAFKFFKWSMTRNGFKHSVESYCIVAHILFCARMYYDANSVLKEMV--LS 171

Query: 123 RDDGNFVFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVL 182
           + D + VF  L  T ++C                                     +PG  
Sbjct: 172 KADCD-VFDVLWSTRNVC-------------------------------------VPGFG 193

Query: 183 SYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFF 242
            ++A+   +I  G    ++ A + +++M + RV P   + N L+  F  +G  +   RFF
Sbjct: 194 VFDALFSVLIDLGM---LEEAIQCFSKMKRFRVFPKTRSCNGLLHRFAKLGKTDDVKRFF 250

Query: 243 SEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKE 302
            +M        V TYN +ID  CK G ++ A  L  +M  +G+ P+ ++YN +I+G  K 
Sbjct: 251 KDMIGAGARPTVFTYNIMIDCMCKEGDVEAARGLFEEMKFRGLVPDTVTYNSMIDGFGKV 310

Query: 303 GRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTY 362
           GRL +T     E+      PD +TYN L+N +CK G L   L  + EM  NGL PNVV+Y
Sbjct: 311 GRLDDTVCFFEEMKDMCCEPDVITYNALINCFCKFGKLPIGLEFYREMKGNGLKPNVVSY 370

Query: 363 TSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTK 422
           ++L+++ CK G + +A++F+  M    L PNE TYT+LI+   + G L +A+RL NEM +
Sbjct: 371 STLVDAFCKEGMMQQAIKFYVDMRRVGLVPNEYTYTSLIDANCKIGNLSDAFRLGNEMLQ 430

Query: 423 NGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDK 482
            G   ++VTY ALI G C   R+++A  +   M   G+ P++ SY+ +I GF +++ +D+
Sbjct: 431 VGVEWNVVTYTALIDGLCDAERMKEAEELFGKMDTAGVIPNLASYNALIHGFVKAKNMDR 490

Query: 483 AFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLIN 542
           A +   E+  +G+ PD + Y + I GLC   +I  A  +  EM   G+  +   YTTL++
Sbjct: 491 ALELLNELKGRGIKPDLLLYGTFIWGLCSLEKIEAAKVVMNEMKECGIKANSLIYTTLMD 550

Query: 543 AYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVP 602
           AY   G+  + L L DEM +      VVT+ VLI+GL K     +A     ++  D  + 
Sbjct: 551 AYFKSGNPTEGLHLLDEMKELDIEVTVVTFCVLIDGLCKNKLVSKAVDYFNRISNDFGLQ 610

Query: 603 SDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIH 662
           ++    T              A++ G C    +  A  +FE M+Q+  +P+   Y  ++ 
Sbjct: 611 ANAAIFT--------------AMIDGLCKDNQVEAATTLFEQMVQKGLVPDRTAYTSLMD 656

Query: 663 GHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLS 722
           G+ K GNV +A  L  KM   G     +    LV  L      ++    +E ++      
Sbjct: 657 GNFKQGNVLEALALRDKMAEIGMKLDLLAYTSLVWGLSHCNQLQKARSFLEEMIGEGIHP 716

Query: 723 DAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLL 756
           D  L   +++ +++ G +D  + + + + K  LL
Sbjct: 717 DEVLCISVLKKHYELGCIDEAVELQSYLMKHQLL 750

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	766
359475386	762	PREDICTED: pentatricopeptide repeat-cont	0.988	0.993	0.699	0.0
224103543	751	predicted protein [Populus trichocarpa]	0.971	0.990	0.695	0.0
15242446	747	pentatricopeptide repeat-containing prot	0.959	0.983	0.677	0.0
297805766	747	EMB2745 [Arabidopsis lyrata subsp. lyrat	0.963	0.987	0.673	0.0
449495714	749	PREDICTED: LOW QUALITY PROTEIN: pentatri	0.964	0.986	0.654	0.0
449438681	749	PREDICTED: pentatricopeptide repeat-cont	0.964	0.986	0.654	0.0
356577033	757	PREDICTED: pentatricopeptide repeat-cont	0.950	0.961	0.634	0.0
255561697	533	pentatricopeptide repeat-containing prot	0.644	0.926	0.747	0.0
297741319	851	unnamed protein product [Vitis vinifera]	0.677	0.609	0.741	0.0
218197600	694	hypothetical protein OsI_21710 [Oryza sa	0.792	0.874	0.490	1e-174

>gi|359475386|ref|XP_003631674.1| PREDICTED: pentatricopeptide repeat-containing protein At5g39710-like [Vitis vinifera]

 Score = 1114 bits (2882), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 532/761 (69%), Positives = 634/761 (83%), Gaps = 4/761 (0%)

Query: 5   PLSFWIPKMPIINLQIHRSLSTLSATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFN 64
           P S+  P +P +     R  S+LS+T+ A++ DKA+TLLK HP+ L+SLSS FTP++A  
Sbjct: 4   PKSYHRPNLPELVSSKAR-FSSLSSTSHALLVDKAITLLKFHPHHLDSLSSRFTPQSASY 62

Query: 65  LLLKTQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRD 124
            LLK+Q DQTLTLKFL WA+  PFF    KCL+LHILT+FKLYK+AQTLAQ LA+     
Sbjct: 63  FLLKSQFDQTLTLKFLTWARNHPFFDSHCKCLSLHILTRFKLYKTAQTLAQELALSASDP 122

Query: 125 DGNFVFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSY 184
            G+ +F CLK++YH+ +S  SSAV DL+VKSYSHLNMID+AVN +NLAK  GFMPGVLSY
Sbjct: 123 SGSSIFQCLKDSYHVYNS--SSAVFDLMVKSYSHLNMIDQAVNTINLAKSSGFMPGVLSY 180

Query: 185 NAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSE 244
           N++LD+++RS R +    AEEVY EM +SRVSPNVYTYN+LIRGFC VG+L+ GL  F E
Sbjct: 181 NSVLDAIVRS-RGSVKLSAEEVYREMIRSRVSPNVYTYNILIRGFCSVGELQKGLGCFGE 239

Query: 245 MEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGR 304
           ME+N CL NVVTYNTLID YCK+GRID+AF LL+ M  KG++PNLISYNVIINGLC+EG 
Sbjct: 240 MERNGCLPNVVTYNTLIDAYCKMGRIDEAFGLLKSMSSKGMQPNLISYNVIINGLCREGS 299

Query: 305 LKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTS 364
           +KE   IL E+  KG  PDEVTYNTLLNGYCKEGN HQALV+HAEMVRNG+SP+VVTYT+
Sbjct: 300 MKEAWEILEEMGYKGFTPDEVTYNTLLNGYCKEGNFHQALVIHAEMVRNGVSPSVVTYTA 359

Query: 365 LINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNG 424
           LINSMCK+ NLNRAMEFFDQM +R LRPNE+TYTTLI+GFS+ G L+EAYR+LNEMT++G
Sbjct: 360 LINSMCKARNLNRAMEFFDQMRIRGLRPNERTYTTLIDGFSRQGLLNEAYRILNEMTESG 419

Query: 425 FMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAF 484
           F PS+VTYNA I GHC   R+E+A+GV+  M  KGLAPDVVSYSTIISGF R  ELD+AF
Sbjct: 420 FSPSVVTYNAFIHGHCVLERMEEALGVVQEMVEKGLAPDVVSYSTIISGFCRKGELDRAF 479

Query: 485 DTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAY 544
             K+EMVEKGV PD +TYSSLI GLCE RR+TEAC+L QEML  G+ PDEFTYTTLINAY
Sbjct: 480 QMKQEMVEKGVSPDAVTYSSLIQGLCEMRRLTEACDLSQEMLDMGLPPDEFTYTTLINAY 539

Query: 545 CTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSD 604
           C EGD+ +AL LHDEMI KGFLPD VTYSVLINGLNKQART EAK+LL KL Y+ESVPSD
Sbjct: 540 CVEGDLNKALHLHDEMIHKGFLPDAVTYSVLINGLNKQARTREAKRLLFKLIYEESVPSD 599

Query: 605 VIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGH 664
           V Y+TLIENC+NIEF++V AL+KGFCMKGLM+EADRVFE M++RNH P EAVY++IIHGH
Sbjct: 600 VTYDTLIENCSNIEFKSVVALIKGFCMKGLMHEADRVFESMVERNHKPGEAVYNVIIHGH 659

Query: 665 SKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDA 724
            + GN+ KA++LYK+M+ SGFVPHTVT+I L+KAL   GMNEE+S+VI + LRSCRL++A
Sbjct: 660 CRGGNLPKAFNLYKEMIHSGFVPHTVTVITLIKALFKEGMNEEMSEVIGDTLRSCRLNEA 719

Query: 725 ELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLPNSGRSTYG 765
           ELAKVLVEINHKEGNM+AVLNVLT+MAKDGLLPNSG++ Y 
Sbjct: 720 ELAKVLVEINHKEGNMEAVLNVLTDMAKDGLLPNSGKTAYA 760

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224103543|ref|XP_002313097.1| predicted protein [Populus trichocarpa] gi|222849505|gb|EEE87052.1| predicted protein [Populus trichocarpa]

 Score = 1101 bits (2848), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 520/748 (69%), Positives = 635/748 (84%), Gaps = 4/748 (0%)

Query: 13  MPIINLQIHRSLSTLSATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSD 72
           M +  LQI+RSLSTLS+  DA++A+KALTLLKR+PY LNS+SS+ TPE A  LLL+TQ+D
Sbjct: 1   MSLPRLQIYRSLSTLSSPTDALLAEKALTLLKRYPYHLNSISSQITPELASYLLLQTQND 60

Query: 73  QTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSC 132
           +TLTLKF+ +A+P  FF P  KC+ LHILTKFKLYK+AQ LAQ+LA +   + GN+ F C
Sbjct: 61  RTLTLKFINFAKPHQFFNPHCKCIALHILTKFKLYKTAQNLAQDLAENSVDEKGNYFFQC 120

Query: 133 LKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVI 192
           LK+TY +C+S  SSAV DLVVKS S+LN I+KA+NIV+LAK++GFMPGVLSYNAILDS++
Sbjct: 121 LKDTYFMCNS--SSAVFDLVVKSCSYLNFIEKALNIVDLAKLNGFMPGVLSYNAILDSIV 178

Query: 193 RSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLA 252
           R  +   V FAE+VY EM  S VS NV++YN+LIRGFC  G+LEMGLRFF EME+N CL 
Sbjct: 179 RCRK--PVIFAEKVYREMIASGVSLNVFSYNILIRGFCAAGNLEMGLRFFEEMERNRCLP 236

Query: 253 NVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGIL 312
           NVVTYNT+I  YCKL RID+AFKLLR MGL+G+EPNL++YN++INGLC+ GR++ET G+L
Sbjct: 237 NVVTYNTVIGAYCKLKRIDEAFKLLRSMGLEGLEPNLLTYNMVINGLCRVGRIEETSGVL 296

Query: 313 NEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKS 372
            E+ RKG  PD VTYNTL+NGYCK GN HQALVLH+EM+RNGL P+VVTYTSLIN+MCK+
Sbjct: 297 AEMDRKGFAPDGVTYNTLVNGYCKVGNFHQALVLHSEMLRNGLPPDVVTYTSLINTMCKA 356

Query: 373 GNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTY 432
           GNLNRAMEFFDQMHVR LRPN  TYT+LINGFSQ GF+DEAYR+ +EM ++GF P+IVTY
Sbjct: 357 GNLNRAMEFFDQMHVRGLRPNGVTYTSLINGFSQKGFMDEAYRIWDEMIRSGFPPTIVTY 416

Query: 433 NALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVE 492
           NAL+ GHC  GR+E+A+G+L GM  KGL+PDVVSYSTII+GF R QELD+AF    EMVE
Sbjct: 417 NALLNGHCVSGRMEEAIGLLRGMEGKGLSPDVVSYSTIIAGFCRYQELDRAFQMNAEMVE 476

Query: 493 KGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQ 552
           KGV PD ITYSSLI GLCEQRR+ EAC+LFQEML++ + PDEFTYT+LIN YC EGD+ +
Sbjct: 477 KGVSPDAITYSSLIQGLCEQRRLNEACDLFQEMLNKSLLPDEFTYTSLINGYCKEGDLNE 536

Query: 553 ALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIE 612
           AL LHDEMI+KGFLPD VTY+VLINGLNKQART EAK+LLLKLFYDES+P+ + Y+TLIE
Sbjct: 537 ALNLHDEMIKKGFLPDTVTYNVLINGLNKQARTREAKRLLLKLFYDESIPNGITYDTLIE 596

Query: 613 NCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQK 672
           +C++IEF++V AL+KGFCMKGLMNEAD+VFE M++RN  PNEAVY++IIHGH + GNV K
Sbjct: 597 SCSDIEFKSVVALIKGFCMKGLMNEADQVFESMIKRNQKPNEAVYNVIIHGHCRDGNVHK 656

Query: 673 AYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVE 732
           A+ LYK+MV  GF+PHTVTII LVKAL++ GM+E+L+ VI +ILRSC+LSDAEL+K LV+
Sbjct: 657 AHKLYKEMVDFGFIPHTVTIIALVKALYSEGMDEQLNLVIRDILRSCKLSDAELSKALVQ 716

Query: 733 INHKEGNMDAVLNVLTEMAKDGLLPNSG 760
           INHKEGN+DAV N+LTEMAKDG LP+  
Sbjct: 717 INHKEGNIDAVFNLLTEMAKDGFLPSGA 744

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15242446|ref|NP_198787.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75170916|sp|Q9FIX3.1|PP407_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At5g39710; AltName: Full=Protein EMBRYO DEFECTIVE 2745 gi|10177971|dbj|BAB11377.1| unnamed protein product [Arabidopsis thaliana] gi|332007083|gb|AED94466.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score = 1064 bits (2751), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 502/741 (67%), Positives = 615/741 (82%), Gaps = 6/741 (0%)

Query: 20  IHRSLSTL-SATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLTLK 78
           I RSLST  S+ +D+++ADKALT LKRHPYQL+ LS+ FTPEAA NLLLK+Q+DQ L LK
Sbjct: 8   IRRSLSTFASSPSDSLLADKALTFLKRHPYQLHHLSANFTPEAASNLLLKSQNDQALILK 67

Query: 79  FLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDD-GNFVFSCLKETY 137
           FL WA P  FFT + KC+TLHILTKFKLYK+AQ LA+++A     D+  + VF  L+ETY
Sbjct: 68  FLNWANPHQFFTLRCKCITLHILTKFKLYKTAQILAEDVAAKTLDDEYASLVFKSLQETY 127

Query: 138 HLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRN 197
            LC STSS  V DLVVKSYS L++IDKA++IV+LA+ HGFMPGVLSYNA+LD+ IRS RN
Sbjct: 128 DLCYSTSS--VFDLVVKSYSRLSLIDKALSIVHLAQAHGFMPGVLSYNAVLDATIRSKRN 185

Query: 198 NWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTY 257
             + FAE V+ EM +S+VSPNV+TYN+LIRGFC  G++++ L  F +ME   CL NVVTY
Sbjct: 186 --ISFAENVFKEMLESQVSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTY 243

Query: 258 NTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISR 317
           NTLIDGYCKL +IDD FKLLR M LKG+EPNLISYNV+INGLC+EGR+KE   +L E++R
Sbjct: 244 NTLIDGYCKLRKIDDGFKLLRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNR 303

Query: 318 KGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNR 377
           +G   DEVTYNTL+ GYCKEGN HQALV+HAEM+R+GL+P+V+TYTSLI+SMCK+GN+NR
Sbjct: 304 RGYSLDEVTYNTLIKGYCKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNR 363

Query: 378 AMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIK 437
           AMEF DQM VR L PNE+TYTTL++GFSQ G+++EAYR+L EM  NGF PS+VTYNALI 
Sbjct: 364 AMEFLDQMRVRGLCPNERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALIN 423

Query: 438 GHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLP 497
           GHC  G++EDA+ VL  M  KGL+PDVVSYST++SGF RS ++D+A   KREMVEKG+ P
Sbjct: 424 GHCVTGKMEDAIAVLEDMKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKP 483

Query: 498 DTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLH 557
           DTITYSSLI G CEQRR  EAC+L++EML  G+ PDEFTYT LINAYC EGD+ +AL+LH
Sbjct: 484 DTITYSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEKALQLH 543

Query: 558 DEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNI 617
           +EM++KG LPDVVTYSVLINGLNKQ+RT EAK+LLLKLFY+ESVPSDV Y+TLIENC+NI
Sbjct: 544 NEMVEKGVLPDVVTYSVLINGLNKQSRTREAKRLLLKLFYEESVPSDVTYHTLIENCSNI 603

Query: 618 EFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLY 677
           EF++V +L+KGFCMKG+M EAD+VFE ML +NH P+   Y+I+IHGH + G+++KAY LY
Sbjct: 604 EFKSVVSLIKGFCMKGMMTEADQVFESMLGKNHKPDGTAYNIMIHGHCRAGDIRKAYTLY 663

Query: 678 KKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKE 737
           K+MV+SGF+ HTVT+I LVKALH  G   EL+ VI ++LRSC LS+AE AKVLVEINH+E
Sbjct: 664 KEMVKSGFLLHTVTVIALVKALHKEGKVNELNSVIVHVLRSCELSEAEQAKVLVEINHRE 723

Query: 738 GNMDAVLNVLTEMAKDGLLPN 758
           GNMD VL+VL EMAKDG LPN
Sbjct: 724 GNMDVVLDVLAEMAKDGFLPN 744

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297805766|ref|XP_002870767.1| EMB2745 [Arabidopsis lyrata subsp. lyrata] gi|297316603|gb|EFH47026.1| EMB2745 [Arabidopsis lyrata subsp. lyrata]

 Score = 1061 bits (2745), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 502/745 (67%), Positives = 617/745 (82%), Gaps = 7/745 (0%)

Query: 20  IHRSLSTL-SATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLTLK 78
           I RSLST  S+ +D+++ADKALT LKRHPYQL+ LS+ FTPEAA NLLLK+Q++Q L LK
Sbjct: 8   IRRSLSTFTSSPSDSLLADKALTFLKRHPYQLHHLSANFTPEAASNLLLKSQNNQELILK 67

Query: 79  FLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVD-LPRDDGNFVFSCLKETY 137
           FL WA P  FFT + KC+TLHILT+FKLYK+AQTLA+++A   L  +D + VF  L+ETY
Sbjct: 68  FLTWANPHQFFTLRCKCITLHILTRFKLYKTAQTLAEDVAAKTLDDEDASLVFRSLQETY 127

Query: 138 HLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRN 197
            LC+STSS  V DLVVKSYS L +IDKA++IV+L++ HGFMPGVLSYNA+LD+ IRS RN
Sbjct: 128 DLCNSTSS--VFDLVVKSYSRLCLIDKALSIVHLSQAHGFMPGVLSYNAVLDATIRSKRN 185

Query: 198 NWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTY 257
             + FAE V+ EM +S+VSPNV+TYN+LIRGFC  G+L++ LRFF  MEK  CL NVVTY
Sbjct: 186 --ISFAENVFKEMLQSQVSPNVFTYNILIRGFCLAGNLDVALRFFDRMEKKGCLPNVVTY 243

Query: 258 NTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISR 317
           NTLIDGYCKL +IDD F+LLR M LKG+EPNLISYNV+INGLC+EGR+KE   +L E+++
Sbjct: 244 NTLIDGYCKLRKIDDGFELLRSMALKGLEPNLISYNVVINGLCREGRMKEISFVLTEMNK 303

Query: 318 KGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNR 377
           +G   DEVTYNTL+ GYCKEGN HQALV+HAEM+R+GLSP+V+TYTSLI+SMCK+GN+NR
Sbjct: 304 RGYSLDEVTYNTLIKGYCKEGNFHQALVMHAEMLRHGLSPSVITYTSLIHSMCKAGNMNR 363

Query: 378 AMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIK 437
           A EF DQM VR L PNE+TYTTL++GFSQ G+++EAYR+L EM  NGF PS+VTYNALI 
Sbjct: 364 ATEFLDQMRVRGLCPNERTYTTLVDGFSQKGYMNEAYRVLKEMIDNGFSPSVVTYNALIN 423

Query: 438 GHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLP 497
           GHC  G++ DA+ VL  M  KGL PDVVSYST++SGF RS ++D+A   KR+MV KG+ P
Sbjct: 424 GHCIAGKMVDAIAVLEDMKEKGLTPDVVSYSTVLSGFCRSYDVDEALRVKRKMVAKGIKP 483

Query: 498 DTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLH 557
           DTITYSSLI G CEQRR  EAC+LF EML  G+ PDEFTYT LINAYC EGD+ +A++LH
Sbjct: 484 DTITYSSLIQGFCEQRRTKEACDLFDEMLRVGLPPDEFTYTALINAYCMEGDLQKAIQLH 543

Query: 558 DEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNI 617
           +EM++KG LPDVVTYSVLINGLNKQART EAK+LLLKLFY+ESVPSDV Y+TLIENC+NI
Sbjct: 544 NEMVEKGVLPDVVTYSVLINGLNKQARTREAKRLLLKLFYEESVPSDVTYHTLIENCSNI 603

Query: 618 EFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLY 677
           EF++V +L+KGFCMKG+M EAD+VFE ML++NH P+   Y+++IHGH + G+++KAY LY
Sbjct: 604 EFKSVVSLIKGFCMKGMMTEADQVFESMLEKNHKPDGTAYNVMIHGHCRGGDIRKAYSLY 663

Query: 678 KKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKE 737
           K+MV+SGF+ HTVT+I LVK LH  G   EL+ VI N+LRSC LS+AE AKVLVEINH+E
Sbjct: 664 KEMVKSGFLLHTVTVIALVKTLHKEGKVNELNSVIANVLRSCELSEAEQAKVLVEINHRE 723

Query: 738 GNMDAVLNVLTEMAKDGLLPNSGRS 762
           GNMD VL+VL EMAKDG LPN G+S
Sbjct: 724 GNMDVVLDVLAEMAKDGFLPN-GKS 747

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449495714|ref|XP_004159923.1| PREDICTED: LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At5g39710-like [Cucumis sativus]

 Score = 1023 bits (2646), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 486/743 (65%), Positives = 603/743 (81%), Gaps = 4/743 (0%)

Query: 17  NLQIHRSLSTLSATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLT 76
           N   + S+ TL ++ DA++ADKA+  L+RHP QL  LSS FTP+A+ NLLLK+Q D +L 
Sbjct: 5   NPHYYSSIFTLCSSGDALLADKAIVYLRRHPEQLTLLSSHFTPQASSNLLLKSQFDSSLV 64

Query: 77  LKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKET 136
           LKFL WA+ Q FF+ + KCL LHILT++KLYK+AQ+LA+ + V+   + G  +F CLK +
Sbjct: 65  LKFLDWARSQQFFSFQCKCLALHILTRYKLYKTAQSLAEEVVVNTVDETGEDLFQCLKNS 124

Query: 137 YHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGR 196
           Y+ C S  SSAV DLVVKS + +N+I+KA++IVNLAK +GFMPGVLSYNAILD+VIR+ +
Sbjct: 125 YYQCKS--SSAVFDLVVKSCARVNLINKALSIVNLAKSYGFMPGVLSYNAILDAVIRTKQ 182

Query: 197 NNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVT 256
           +  VK AE ++ EM +S VSPNVYTYN+LIRGFC  G+LEMGL FF EME+N CL NVVT
Sbjct: 183 S--VKIAEGIFKEMVESGVSPNVYTYNILIRGFCTAGNLEMGLXFFGEMERNGCLPNVVT 240

Query: 257 YNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEIS 316
           YNT+ID YCKL +I +AFKLLR M LKG+ PNLISYNV+INGLC+EG++KET  IL E+S
Sbjct: 241 YNTIIDAYCKLRKIGEAFKLLRLMALKGLNPNLISYNVVINGLCREGQMKETSEILEEMS 300

Query: 317 RKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLN 376
           ++  VPD VT+NTL+NGYC  GN HQALVLHAEMV+NGLSPNVVTYT+LINSMCK+GNLN
Sbjct: 301 KRRYVPDRVTFNTLINGYCNVGNFHQALVLHAEMVKNGLSPNVVTYTTLINSMCKAGNLN 360

Query: 377 RAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALI 436
           RAMEF DQM  R L PN +TYTTLI+GFSQ GFL +AY+++ EM +NGF P+I+TYNALI
Sbjct: 361 RAMEFLDQMRDRGLHPNGRTYTTLIDGFSQQGFLKQAYQIMKEMVENGFTPTIITYNALI 420

Query: 437 KGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVL 496
            GHC  GR+EDA G+L  M  +G  PDVVSYSTIISGF R+QEL+KAF  K EMV KG+ 
Sbjct: 421 NGHCILGRMEDASGLLQEMIERGFIPDVVSYSTIISGFCRNQELEKAFQLKVEMVAKGIS 480

Query: 497 PDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRL 556
           PD  TYSSLI GLC+QRR+ E C+LFQEMLS G+ PDE TYT+LINAYC EGD+ +ALRL
Sbjct: 481 PDVATYSSLIQGLCKQRRLGEVCDLFQEMLSLGLPPDEVTYTSLINAYCIEGDLDKALRL 540

Query: 557 HDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTN 616
           HDEMIQKGF PD+VTY+VLING NKQ+RT EAK+LLLKL Y+ESVP+++ YNTLI+NC N
Sbjct: 541 HDEMIQKGFSPDIVTYNVLINGFNKQSRTKEAKRLLLKLLYEESVPNEITYNTLIDNCNN 600

Query: 617 IEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDL 676
           +EF++  AL+KGFCMKGLMNEADRV E MLQ+ +  NE VY++IIHGHSKVGN++KAY+L
Sbjct: 601 LEFKSALALMKGFCMKGLMNEADRVLESMLQKGYKLNEEVYNVIIHGHSKVGNIEKAYNL 660

Query: 677 YKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHK 736
           YK+M+ SGF PH+VTI+ L K+L+  G   EL+Q+++  L+SCR+++A LAKVL+ IN K
Sbjct: 661 YKEMLHSGFAPHSVTIMALAKSLYHEGKEVELNQLLDYTLKSCRITEAALAKVLIGINSK 720

Query: 737 EGNMDAVLNVLTEMAKDGLLPNS 759
           EGNMDAV NVL +MA  GLLP S
Sbjct: 721 EGNMDAVFNVLKDMALSGLLPYS 743

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449438681|ref|XP_004137116.1| PREDICTED: pentatricopeptide repeat-containing protein At5g39710-like [Cucumis sativus]

 Score = 1023 bits (2645), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 486/743 (65%), Positives = 603/743 (81%), Gaps = 4/743 (0%)

Query: 17  NLQIHRSLSTLSATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLT 76
           N   + S+ TL ++ DA++ADKA+  L+RHP QL  LSS FTP+A+ NLLLK+Q D +L 
Sbjct: 5   NPHYYSSIFTLCSSGDALLADKAIVYLRRHPEQLTLLSSHFTPQASSNLLLKSQFDSSLV 64

Query: 77  LKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKET 136
           LKFL WA+ Q FF+ + KCL LHILT++KLYK+AQ+LA+ + V+   + G  +F CLK +
Sbjct: 65  LKFLDWARSQQFFSFQCKCLALHILTRYKLYKTAQSLAEEVVVNTVDETGEDLFQCLKNS 124

Query: 137 YHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGR 196
           Y+ C S  SSAV DLVVKS + +N+I+KA++IVNLAK +GFMPGVLSYNAILD+VIR+ +
Sbjct: 125 YYQCKS--SSAVFDLVVKSCARVNLINKALSIVNLAKSYGFMPGVLSYNAILDAVIRTKQ 182

Query: 197 NNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVT 256
           +  VK AE ++ EM +S VSPNVYTYN+LIRGFC  G+LEMGL FF EME+N CL NVVT
Sbjct: 183 S--VKIAEGIFKEMVESGVSPNVYTYNILIRGFCTAGNLEMGLFFFGEMERNGCLPNVVT 240

Query: 257 YNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEIS 316
           YNT+ID YCKL +I +AFKLLR M LKG+ PNLISYNV+INGLC+EG++KET  IL E+S
Sbjct: 241 YNTIIDAYCKLRKIGEAFKLLRLMALKGLNPNLISYNVVINGLCREGQMKETSEILEEMS 300

Query: 317 RKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLN 376
           ++  VPD VT+NTL+NGYC  GN HQALVLHAEMV+NGLSPNVVTYT+LINSMCK+GNLN
Sbjct: 301 KRRYVPDRVTFNTLINGYCNVGNFHQALVLHAEMVKNGLSPNVVTYTTLINSMCKAGNLN 360

Query: 377 RAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALI 436
           RAMEF DQM  R L PN +TYTTLI+GFSQ GFL +AY+++ EM +NGF P+I+TYNALI
Sbjct: 361 RAMEFLDQMRDRGLHPNGRTYTTLIDGFSQQGFLKQAYQIMKEMVENGFTPTIITYNALI 420

Query: 437 KGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVL 496
            GHC  GR+EDA G+L  M  +G  PDVVSYSTIISGF R+QEL+KAF  K EMV KG+ 
Sbjct: 421 NGHCILGRMEDASGLLQEMIERGFIPDVVSYSTIISGFCRNQELEKAFQLKVEMVAKGIS 480

Query: 497 PDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRL 556
           PD  TYSSLI GLC+QRR+ E C+LFQEMLS G+ PDE TYT+LINAYC EGD+ +ALRL
Sbjct: 481 PDVATYSSLIQGLCKQRRLGEVCDLFQEMLSLGLPPDEVTYTSLINAYCIEGDLDKALRL 540

Query: 557 HDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTN 616
           HDEMIQKGF PD+VTY+VLING NKQ+RT EAK+LLLKL Y+ESVP+++ YNTLI+NC N
Sbjct: 541 HDEMIQKGFSPDIVTYNVLINGFNKQSRTKEAKRLLLKLLYEESVPNEITYNTLIDNCNN 600

Query: 617 IEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDL 676
           +EF++  AL+KGFCMKGLMNEADRV E MLQ+ +  NE VY++IIHGHSKVGN++KAY+L
Sbjct: 601 LEFKSALALMKGFCMKGLMNEADRVLESMLQKGYKLNEEVYNVIIHGHSKVGNIEKAYNL 660

Query: 677 YKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHK 736
           YK+M+ SGF PH+VTI+ L K+L+  G   EL+Q+++  L+SCR+++A LAKVL+ IN K
Sbjct: 661 YKEMLHSGFAPHSVTIMALAKSLYHEGKEVELNQLLDYTLKSCRITEAALAKVLIGINSK 720

Query: 737 EGNMDAVLNVLTEMAKDGLLPNS 759
           EGNMDAV NVL +MA  GLLP S
Sbjct: 721 EGNMDAVFNVLKDMALSGLLPYS 743

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356577033|ref|XP_003556634.1| PREDICTED: pentatricopeptide repeat-containing protein At5g39710-like [Glycine max]

 Score =  967 bits (2500), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 467/736 (63%), Positives = 577/736 (78%), Gaps = 8/736 (1%)

Query: 33  AVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLTLKFLKWAQPQP----- 87
           ++IADKA+  LKRHP +L SLS  FTP+AA  +LL +QSDQ   L FL WAQ Q      
Sbjct: 13  SLIADKAIAFLKRHPQRLASLSPHFTPQAASYVLLNSQSDQRTLLNFLTWAQAQAQAHNF 72

Query: 88  FFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDST-SSS 146
           FFTP  KCL LHIL +FKLY++A +LA +LA  LP   G  +F  L +T+HLC S  SSS
Sbjct: 73  FFTPHCKCLALHILVRFKLYRTAHSLAADLAATLPDPTGASLFRHLHDTFHLCSSPFSSS 132

Query: 147 AVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKF--AE 204
           AV DLVVKS S L  + KA+ +++LA  HGF P VLSYNA+LD+++R   +N   +  AE
Sbjct: 133 AVFDLVVKSLSRLGFVPKALTLLHLANRHGFAPTVLSYNAVLDALLRRSSSNHRDYDDAE 192

Query: 205 EVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGY 264
            V+ +M ++ VSPNVYTYNV+IRG    GDLE GL F  +MEK     NVVTYNTLID  
Sbjct: 193 RVFRDMVRNGVSPNVYTYNVIIRGVVSQGDLEKGLGFMRKMEKEGISPNVVTYNTLIDAS 252

Query: 265 CKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDE 324
           CK  ++ +A  LLR M + G+  NLISYN +INGLC +GR+ E   ++ E+  KGLVPDE
Sbjct: 253 CKKKKVKEAMALLRAMAVGGVAANLISYNSVINGLCGKGRMSEVGELVEEMRGKGLVPDE 312

Query: 325 VTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQ 384
           VTYNTL+NG+CKEGNLHQ LVL +EMV  GLSPNVVTYT+LIN MCK+GNL+RA+E FDQ
Sbjct: 313 VTYNTLVNGFCKEGNLHQGLVLLSEMVGKGLSPNVVTYTTLINCMCKAGNLSRAVEIFDQ 372

Query: 385 MHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGR 444
           M VR LRPNE+TYTTLI+GF Q G ++EAY++L+EM  +GF PS+VTYNAL+ G+C  GR
Sbjct: 373 MRVRGLRPNERTYTTLIDGFCQKGLMNEAYKVLSEMIVSGFSPSVVTYNALVHGYCFLGR 432

Query: 445 VEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSS 504
           V++AVG+L GM  +GL PDVVSYST+I+GF R +EL KAF  K EMVEKGVLPDT+TYSS
Sbjct: 433 VQEAVGILRGMVERGLPPDVVSYSTVIAGFCRERELGKAFQMKEEMVEKGVLPDTVTYSS 492

Query: 505 LIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKG 564
           LI GLC Q+++ EA +LF+EM+ RG+ PDE TYT+LINAYC +G++ +ALRLHDEM+Q+G
Sbjct: 493 LIQGLCLQQKLVEAFDLFREMMRRGLPPDEVTYTSLINAYCVDGELSKALRLHDEMVQRG 552

Query: 565 FLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAA 624
           FLPD VTYSVLINGLNK+ART  AK+LLLKLFY+ESVP DV YNTLIENC+N EF++V  
Sbjct: 553 FLPDNVTYSVLINGLNKKARTKVAKRLLLKLFYEESVPDDVTYNTLIENCSNNEFKSVEG 612

Query: 625 LLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSG 684
           L+KGFCMKGLMNEADRVF+ MLQRNH PN A+Y+++IHGHS+ GNV KAY+LY ++  S 
Sbjct: 613 LVKGFCMKGLMNEADRVFKTMLQRNHKPNAAIYNLMIHGHSRGGNVHKAYNLYMELEHSS 672

Query: 685 FVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVL 744
           F  HTV +I LVKAL   GMN+ELS++++NILRSCRL+DA++AKVLVE+N KEGNMDAVL
Sbjct: 673 FACHTVAVIALVKALAREGMNDELSRLLQNILRSCRLNDAKVAKVLVEVNFKEGNMDAVL 732

Query: 745 NVLTEMAKDGLLPNSG 760
           NVLTEMAKDGLLP+ G
Sbjct: 733 NVLTEMAKDGLLPDGG 748

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255561697|ref|XP_002521858.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223538896|gb|EEF40494.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  848 bits (2190), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 394/527 (74%), Positives = 463/527 (87%)

Query: 237 MGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVII 296
           MGLRFF EME+N CL NVVTYNT+IDGYCKL R D+AF  LR MGLKG+EPNLI++N+II
Sbjct: 1   MGLRFFKEMERNGCLPNVVTYNTMIDGYCKLKRTDEAFGFLRSMGLKGLEPNLITFNMII 60

Query: 297 NGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLS 356
           NGLC++GRLKET  +L E+SRKG VPDEVTYNTL+NGYCKEGN HQALVLHAEMVRNGLS
Sbjct: 61  NGLCRDGRLKETSEVLVEMSRKGYVPDEVTYNTLVNGYCKEGNFHQALVLHAEMVRNGLS 120

Query: 357 PNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRL 416
           PNVVTYTSLINSMCK+GNLNRAMEFFDQMHVR L PNE+TYTT+INGF+Q G LDEAYR+
Sbjct: 121 PNVVTYTSLINSMCKAGNLNRAMEFFDQMHVRGLCPNERTYTTIINGFAQQGLLDEAYRV 180

Query: 417 LNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSR 476
           LNEMT++GF+PSIVTYNALI GHC  GR+E+A+G+L  M  KG+ PDVVSYSTIISGF+R
Sbjct: 181 LNEMTRSGFIPSIVTYNALINGHCVLGRMEEAIGLLQDMVGKGVLPDVVSYSTIISGFAR 240

Query: 477 SQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFT 536
           +QELD+AF  K EM+ K VLPD +TYSSLI GLCEQRR+TEAC++FQEML+  + PDEFT
Sbjct: 241 NQELDRAFQMKVEMIGKSVLPDAVTYSSLIQGLCEQRRLTEACDMFQEMLTIKLPPDEFT 300

Query: 537 YTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLF 596
           YTTLINAYC EGD+ +AL LHDEMIQKGFLPD VTY+VLINGLNKQAR+ EA++LLLKLF
Sbjct: 301 YTTLINAYCKEGDLNKALHLHDEMIQKGFLPDAVTYNVLINGLNKQARSKEARRLLLKLF 360

Query: 597 YDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAV 656
           YD+S+PS V YNTLIENC NIEF++  AL+KGFCMKGLM+EAD+VFE M+ +NH PNEA+
Sbjct: 361 YDDSIPSAVTYNTLIENCCNIEFKSAVALVKGFCMKGLMDEADQVFESMINKNHKPNEAI 420

Query: 657 YDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENIL 716
           Y++IIHGH ++GNV KAY LYK+MV   FVPHTVT++ LVKAL T GM+ EL++VI +IL
Sbjct: 421 YNVIIHGHCRIGNVLKAYKLYKEMVHVDFVPHTVTVLALVKALFTEGMDGELNEVIGDIL 480

Query: 717 RSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLPNSGRST 763
           RSC+L+DAEL+KVLVEIN KEGNMD V N+LTEMAKDGL+P++G  T
Sbjct: 481 RSCKLTDAELSKVLVEINQKEGNMDMVFNLLTEMAKDGLIPSTGTPT 527

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297741319|emb|CBI32450.3| unnamed protein product [Vitis vinifera]

 Score =  847 bits (2187), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 398/537 (74%), Positives = 463/537 (86%)

Query: 210 MGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGR 269
           M +SRVSPNVYTYN+LIRGFC VG+L+ GL  F EME+N CL NVVTYNTLID YCK+GR
Sbjct: 1   MIRSRVSPNVYTYNILIRGFCSVGELQKGLGCFGEMERNGCLPNVVTYNTLIDAYCKMGR 60

Query: 270 IDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNT 329
           ID+AF LL+ M  KG++PNLISYNVIINGLC+EG +KE   IL E+  KG  PDEVTYNT
Sbjct: 61  IDEAFGLLKSMSSKGMQPNLISYNVIINGLCREGSMKEAWEILEEMGYKGFTPDEVTYNT 120

Query: 330 LLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRE 389
           LLNGYCKEGN HQALV+HAEMVRNG+SP+VVTYT+LINSMCK+ NLNRAMEFFDQM +R 
Sbjct: 121 LLNGYCKEGNFHQALVIHAEMVRNGVSPSVVTYTALINSMCKARNLNRAMEFFDQMRIRG 180

Query: 390 LRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAV 449
           LRPNE+TYTTLI+GFS+ G L+EAYR+LNEMT++GF PS+VTYNA I GHC   R+E+A+
Sbjct: 181 LRPNERTYTTLIDGFSRQGLLNEAYRILNEMTESGFSPSVVTYNAFIHGHCVLERMEEAL 240

Query: 450 GVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGL 509
           GV+  M  KGLAPDVVSYSTIISGF R  ELD+AF  K+EMVEKGV PD +TYSSLI GL
Sbjct: 241 GVVQEMVEKGLAPDVVSYSTIISGFCRKGELDRAFQMKQEMVEKGVSPDAVTYSSLIQGL 300

Query: 510 CEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDV 569
           CE RR+TEAC+L QEML  G+ PDEFTYTTLINAYC EGD+ +AL LHDEMI KGFLPD 
Sbjct: 301 CEMRRLTEACDLSQEMLDMGLPPDEFTYTTLINAYCVEGDLNKALHLHDEMIHKGFLPDA 360

Query: 570 VTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGF 629
           VTYSVLINGLNKQART EAK+LL KL Y+ESVPSDV Y+TLIENC+NIEF++V AL+KGF
Sbjct: 361 VTYSVLINGLNKQARTREAKRLLFKLIYEESVPSDVTYDTLIENCSNIEFKSVVALIKGF 420

Query: 630 CMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT 689
           CMKGLM+EADRVFE M++RNH P EAVY++IIHGH + GN+ KA++LYK+M+ SGFVPHT
Sbjct: 421 CMKGLMHEADRVFESMVERNHKPGEAVYNVIIHGHCRGGNLPKAFNLYKEMIHSGFVPHT 480

Query: 690 VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNV 746
           VT+I L+KAL   GMNEE+S+VI + LRSCRL++AELAKVLVEINHKEGNM+AVLNV
Sbjct: 481 VTVITLIKALFKEGMNEEMSEVIGDTLRSCRLNEAELAKVLVEINHKEGNMEAVLNV 537

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218197600|gb|EEC80027.1| hypothetical protein OsI_21710 [Oryza sativa Indica Group]

 Score =  619 bits (1596), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 300/612 (49%), Positives = 427/612 (69%), Gaps = 5/612 (0%)

Query: 150 DLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNE 209
           D +++SY+ L     A   +  A   G+ P V +YNA+L ++     +  +  A    + 
Sbjct: 87  DALIRSYASLPRPSLAAAALAFAASAGYAPSVPAYNAVLLAL----SDASLPSARRFLSS 142

Query: 210 MGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGR 269
           M +  V+PNVYTYN+L+R  C  G LE  +    +M    C  N VTYNTL+  +C+ G 
Sbjct: 143 MLRHGVAPNVYTYNILVRALCARGRLEEAVGVVGDMRGAGCAPNAVTYNTLVAAFCRAGE 202

Query: 270 IDDAFKLLRDMGLKG-IEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYN 328
           +D A +++  M  +G  +PNL+++N ++NGLCK GR++  + + +E+ R+GL PD V+YN
Sbjct: 203 LDGAERVVSLMREEGNAKPNLVTFNSMVNGLCKAGRMEGARKVFDEMVREGLAPDVVSYN 262

Query: 329 TLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVR 388
           TLL+GYCK G LH++L + +EM + GL P+VVT+TSLI++ CK+GNL +A+    QM  R
Sbjct: 263 TLLSGYCKVGCLHESLAVFSEMTQRGLVPDVVTFTSLIHATCKAGNLEQAVALVAQMRER 322

Query: 389 ELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDA 448
            LR NE T+T LI+GF + GFLD+A   + EM K G  PS+V YNALI G+C  GR++ A
Sbjct: 323 GLRMNEVTFTALIDGFCKKGFLDDALLAVEEMRKCGIQPSVVCYNALINGYCKLGRMDLA 382

Query: 449 VGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHG 508
             ++  M  K + PDVV+YSTIISG+ +   LD AF   ++M++KGVLPD ITYSSLI G
Sbjct: 383 RELIREMEAKRVKPDVVTYSTIISGYCKVGNLDSAFQLNQKMLKKGVLPDAITYSSLIRG 442

Query: 509 LCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPD 568
           LCE++R+ +ACELF+ ML  G+ PDEFTYTTLI+ +C EG++ +AL LHDEMI+KG LPD
Sbjct: 443 LCEEKRLNDACELFENMLQLGVQPDEFTYTTLIDGHCKEGNVEKALSLHDEMIRKGVLPD 502

Query: 569 VVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKG 628
           VVTYSVLINGL+K ART EA +LL KL++++ VP ++ Y+ L+  C+  EF++V ALLKG
Sbjct: 503 VVTYSVLINGLSKSARTKEAHRLLFKLYHEDPVPDNIKYDALMLCCSKAEFKSVVALLKG 562

Query: 629 FCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH 688
           FCMKGLM EAD+V++ ML RN   + +VY I+IHGH + GNV+KA   +K+M+RSGF P+
Sbjct: 563 FCMKGLMKEADKVYQSMLDRNWKLDGSVYSILIHGHCRGGNVRKALSFHKQMLRSGFSPN 622

Query: 689 TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLT 748
           + + I LV+ L   GM  E    I+++L  C L+DAE +K L+++N KEGN+DA+++VL 
Sbjct: 623 STSTISLVRGLFEEGMVVEADNAIQDLLTCCPLADAEASKALIDLNRKEGNVDALIDVLC 682

Query: 749 EMAKDGLLPNSG 760
            MA+DGLLP+SG
Sbjct: 683 GMARDGLLPSSG 694

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

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	766
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.959	0.983	0.677	6e-277
TAIR|locus:2150024	729	AT5G01110 [Arabidopsis thalian	0.904	0.950	0.279	2.9e-80
TAIR|locus:2168078	907	AT5G59900 "AT5G59900" [Arabido	0.802	0.678	0.316	2.6e-79
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.836	0.850	0.296	1.6e-77
TAIR|locus:2139732	566	AT4G11690 [Arabidopsis thalian	0.667	0.902	0.346	1.6e-77
TAIR|locus:2016427	904	AT1G19290 [Arabidopsis thalian	0.742	0.629	0.295	7.1e-77
TAIR|locus:2053552	627	AT2G15630 "AT2G15630" [Arabido	0.761	0.929	0.303	2.4e-76
TAIR|locus:2019085	763	AT1G74580 "AT1G74580" [Arabido	0.763	0.766	0.291	3.9e-76
TAIR|locus:2015213	629	AT1G63150 [Arabidopsis thalian	0.607	0.739	0.331	1.3e-66
TAIR|locus:2015208	630	AT1G63130 [Arabidopsis thalian	0.746	0.907	0.3	2.7e-75

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

 Score = 2662 (942.1 bits), Expect = 6.0e-277, P = 6.0e-277
 Identities = 502/741 (67%), Positives = 615/741 (82%)

Query:    20 IHRSLSTL-SATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLTLK 78
             I RSLST  S+ +D+++ADKALT LKRHPYQL+ LS+ FTPEAA NLLLK+Q+DQ L LK
Sbjct:     8 IRRSLSTFASSPSDSLLADKALTFLKRHPYQLHHLSANFTPEAASNLLLKSQNDQALILK 67

Query:    79 FLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDD-GNFVFSCLKETY 137
             FL WA P  FFT + KC+TLHILTKFKLYK+AQ LA+++A     D+  + VF  L+ETY
Sbjct:    68 FLNWANPHQFFTLRCKCITLHILTKFKLYKTAQILAEDVAAKTLDDEYASLVFKSLQETY 127

Query:   138 HLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRN 197
              LC STSS  V DLVVKSYS L++IDKA++IV+LA+ HGFMPGVLSYNA+LD+ IRS RN
Sbjct:   128 DLCYSTSS--VFDLVVKSYSRLSLIDKALSIVHLAQAHGFMPGVLSYNAVLDATIRSKRN 185

Query:   198 NWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTY 257
               + FAE V+ EM +S+VSPNV+TYN+LIRGFC  G++++ L  F +ME   CL NVVTY
Sbjct:   186 --ISFAENVFKEMLESQVSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTY 243

Query:   258 NTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISR 317
             NTLIDGYCKL +IDD FKLLR M LKG+EPNLISYNV+INGLC+EGR+KE   +L E++R
Sbjct:   244 NTLIDGYCKLRKIDDGFKLLRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNR 303

Query:   318 KGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNR 377
             +G   DEVTYNTL+ GYCKEGN HQALV+HAEM+R+GL+P+V+TYTSLI+SMCK+GN+NR
Sbjct:   304 RGYSLDEVTYNTLIKGYCKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNR 363

Query:   378 AMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIK 437
             AMEF DQM VR L PNE+TYTTL++GFSQ G+++EAYR+L EM  NGF PS+VTYNALI 
Sbjct:   364 AMEFLDQMRVRGLCPNERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALIN 423

Query:   438 GHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLP 497
             GHC  G++EDA+ VL  M  KGL+PDVVSYST++SGF RS ++D+A   KREMVEKG+ P
Sbjct:   424 GHCVTGKMEDAIAVLEDMKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKP 483

Query:   498 DTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLH 557
             DTITYSSLI G CEQRR  EAC+L++EML  G+ PDEFTYT LINAYC EGD+ +AL+LH
Sbjct:   484 DTITYSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEKALQLH 543

Query:   558 DEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNI 617
             +EM++KG LPDVVTYSVLINGLNKQ+RT EAK+LLLKLFY+ESVPSDV Y+TLIENC+NI
Sbjct:   544 NEMVEKGVLPDVVTYSVLINGLNKQSRTREAKRLLLKLFYEESVPSDVTYHTLIENCSNI 603

Query:   618 EFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLY 677
             EF++V +L+KGFCMKG+M EAD+VFE ML +NH P+   Y+I+IHGH + G+++KAY LY
Sbjct:   604 EFKSVVSLIKGFCMKGMMTEADQVFESMLGKNHKPDGTAYNIMIHGHCRAGDIRKAYTLY 663

Query:   678 KKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKE 737
             K+MV+SGF+ HTVT+I LVKALH  G   EL+ VI ++LRSC LS+AE AKVLVEINH+E
Sbjct:   664 KEMVKSGFLLHTVTVIALVKALHKEGKVNELNSVIVHVLRSCELSEAEQAKVLVEINHRE 723

Query:   738 GNMDAVLNVLTEMAKDGLLPN 758
             GNMD VL+VL EMAKDG LPN
Sbjct:   724 GNMDVVLDVLAEMAKDGFLPN 744

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

TAIR|locus:2150024 AT5G01110 [Arabidopsis thaliana (taxid:3702)]

 Score = 806 (288.8 bits), Expect = 2.9e-80, P = 2.9e-80
 Identities = 202/723 (27%), Positives = 363/723 (50%)

Query:     4 KPL-SFWIPKMPIINLQIHRSLSTLSAT---ADAVIADKALTLLKRHPYQLNSLSSEFTP 59
             KPL +      P+       S S+ SA+   +D+ + +K    LK+    + +      P
Sbjct:    19 KPLKNLTTSSSPVFEPSSSSSSSSSSASFSVSDSFLVEKICFSLKQGNNNVRNHLIRLNP 78

Query:    60 EAAFNLLLKTQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTL--AQNL 117
              A   +L + ++D TL  +F+       F  P  K  +L +     +   +  L  AQ+ 
Sbjct:    79 LAVVEVLYRCRNDLTLGQRFV---DQLGFHFPNFKHTSLSLSAMIHILVRSGRLSDAQSC 135

Query:   118 AVDLPRDDGNF---VFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKV 174
              + + R  G     + + L  T+  C S  S  V DL++++Y     + +A     L + 
Sbjct:   136 LLRMIRRSGVSRLEIVNSLDSTFSNCGSNDS--VFDLLIRTYVQARKLREAHEAFTLLRS 193

Query:   175 HGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGD 234
              GF   + + NA++ S++R G   WV+ A  VY E+ +S V  NVYT N+++   C  G 
Sbjct:   194 KGFTVSIDACNALIGSLVRIG---WVELAWGVYQEISRSGVGINVYTLNIMVNALCKDGK 250

Query:   235 LEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNV 294
             +E    F S++++     ++VTYNTLI  Y   G +++AF+L+  M  KG  P + +YN 
Sbjct:   251 MEKVGTFLSQVQEKGVYPDIVTYNTLISAYSSKGLMEEAFELMNAMPGKGFSPGVYTYNT 310

Query:   295 IINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNG 354
             +INGLCK G+ +  K +  E+ R GL PD  TY +LL   CK+G++ +   + ++M    
Sbjct:   311 VINGLCKHGKYERAKEVFAEMLRSGLSPDSTTYRSLLMEACKKGDVVETEKVFSDMRSRD 370

Query:   355 LSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAY 414
             + P++V ++S+++   +SGNL++A+ +F+ +    L P+   YT LI G+ + G +  A 
Sbjct:   371 VVPDLVCFSSMMSLFTRSGNLDKALMYFNSVKEAGLIPDNVIYTILIQGYCRKGMISVAM 430

Query:   415 RLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGF 474
              L NEM + G    +VTYN ++ G C    + +A  + + M  + L PD  + + +I G 
Sbjct:   431 NLRNEMLQQGCAMDVVTYNTILHGLCKRKMLGEADKLFNEMTERALFPDSYTLTILIDGH 490

Query:   475 SRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDE 534
              +   L  A +  ++M EK +  D +TY++L+ G  +   I  A E++ +M+S+ + P  
Sbjct:   491 CKLGNLQNAMELFQKMKEKRIRLDVVTYNTLLDGFGKVGDIDTAKEIWADMVSKEILPTP 550

Query:   535 FTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLK 594
              +Y+ L+NA C++G + +A R+ DEMI K   P V+  + +I G  +     + +  L K
Sbjct:   551 ISYSILVNALCSKGHLAEAFRVWDEMISKNIKPTVMICNSMIKGYCRSGNASDGESFLEK 610

Query:   595 LFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNE 654
             +  +  VP  + YNTLI      E  N++   K F   GL+ + +       Q   +P+ 
Sbjct:   611 MISEGFVPDCISYNTLIYGFVREE--NMS---KAF---GLVKKMEEE-----QGGLVPDV 657

Query:   655 AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIEN 714
               Y+ I+HG  +   +++A  + +KM+  G  P   T   ++    +     E  ++ + 
Sbjct:   658 FTYNSILHGFCRQNQMKEAEVVLRKMIERGVNPDRSTYTCMINGFVSQDNLTEAFRIHDE 717

Query:   715 ILR 717
             +L+
Sbjct:   718 MLQ 720

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2168078 AT5G59900 "AT5G59900" [Arabidopsis thaliana (taxid:3702)]

 Score = 797 (285.6 bits), Expect = 2.6e-79, P = 2.6e-79
 Identities = 204/645 (31%), Positives = 320/645 (49%)

Query:    65 LLLKTQSDQTLTLKFLKWAQPQPFFTPKLK--CLTLHILTKFKLYKSAQTLAQNLAVDL- 121
             +L+ T  D  L L+F  +      F       C+ +H L K  L+  A +L Q L +   
Sbjct:    76 ILIGTIDDPKLGLRFFNFLGLHRGFDHSTASFCILIHALVKANLFWPASSLLQTLLLRAL 135

Query:   122 -PRDDGNFVFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNL--AKVHGFM 178
              P D  N +FSC    Y  C  +SSS+  DL+++ Y     +   V +  +   KV   +
Sbjct:   136 KPSDVFNVLFSC----YEKCKLSSSSS-FDLLIQHYVRSRRVLDGVLVFKMMITKV-SLL 189

Query:   179 PGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMG 238
             P V + +A+L  +++  R+     A E++N+M    + P+VY Y  +IR  C + DL   
Sbjct:   190 PEVRTLSALLHGLVKF-RH--FGLAMELFNDMVSVGIRPDVYIYTGVIRSLCELKDLSRA 246

Query:   239 LRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIING 298
                 + ME   C  N+V YN LIDG CK  ++ +A  + +D+  K ++P++++Y  ++ G
Sbjct:   247 KEMIAHMEATGCDVNIVPYNVLIDGLCKKQKVWEAVGIKKDLAGKDLKPDVVTYCTLVYG 306

Query:   299 LCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPN 358
             LCK    +    +++E+      P E   ++L+ G  K G + +AL L   +V  G+SPN
Sbjct:   307 LCKVQEFEIGLEMMDEMLCLRFSPSEAAVSSLVEGLRKRGKIEEALNLVKRVVDFGVSPN 366

Query:   359 VVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLN 418
             +  Y +LI+S+CK    + A   FD+M    LRPN+ TY+ LI+ F + G LD A   L 
Sbjct:   367 LFVYNALIDSLCKGRKFHEAELLFDRMGKIGLRPNDVTYSILIDMFCRRGKLDTALSFLG 426

Query:   419 EMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQ 478
             EM   G   S+  YN+LI GHC  G +  A G +  M  K L P VV+Y++++ G+    
Sbjct:   427 EMVDTGLKLSVYPYNSLINGHCKFGDISAAEGFMAEMINKKLEPTVVTYTSLMGGYCSKG 486

Query:   479 ELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYT 538
             +++KA     EM  KG+ P   T+++L+ GL     I +A +LF EM    + P+  TY 
Sbjct:   487 KINKALRLYHEMTGKGIAPSIYTFTTLLSGLFRAGLIRDAVKLFNEMAEWNVKPNRVTYN 546

Query:   539 TLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYD 598
              +I  YC EGD+ +A     EM +KG +PD  +Y  LI+GL    +  EAK     +F D
Sbjct:   547 VMIEGYCEEGDMSKAFEFLKEMTEKGIVPDTYSYRPLIHGLCLTGQASEAK-----VFVD 601

Query:   599 ESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYD 658
                  +   N   E C          LL GFC +G + EA  V + M+QR    +   Y 
Sbjct:   602 GLHKGNCELN---EIC-------YTGLLHGFCREGKLEEALSVCQEMVQRGVDLDLVCYG 651

Query:   659 IIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAG 703
             ++I G  K  + +  + L K+M   G  P  V    ++ A    G
Sbjct:   652 VLIDGSLKHKDRKLFFGLLKEMHDRGLKPDDVIYTSMIDAKSKTG 696

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 780 (279.6 bits), Expect = 1.6e-77, P = 1.6e-77
 Identities = 204/688 (29%), Positives = 357/688 (51%)

Query:    67 LKTQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPR--- 123
             L++Q D +  L+    A  +P F+P+   L   IL +     S   + + L  D+     
Sbjct:    57 LRSQPDDSAALRLFNLASKKPNFSPE-PALYEEILLRLGRSGSFDDMKKILE-DMKSSRC 114

Query:   124 DDGNFVFSCLKETY---HLCDSTSSSAVIDLVVKSY-----SH-----LNM-ID-KAVNI 168
             + G   F  L E+Y    L D   S  V+D ++  +     +H     LN+ +D  ++ +
Sbjct:   115 EMGTSTFLILIESYAQFELQDEILS--VVDWMIDEFGLKPDTHFYNRMLNLLVDGNSLKL 172

Query:   169 VNL--AK--VHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNV 224
             V +  AK  V G  P V ++N ++ ++ R+ +   ++ A  +  +M    + P+  T+  
Sbjct:   173 VEISHAKMSVWGIKPDVSTFNVLIKALCRAHQ---LRPAILMLEDMPSYGLVPDEKTFTT 229

Query:   225 LIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLK- 283
             +++G+   GDL+  LR   +M +  C  + V+ N ++ G+CK GR++DA   +++M  + 
Sbjct:   230 VMQGYIEEGDLDGALRIREQMVEFGCSWSNVSVNVIVHGFCKEGRVEDALNFIQEMSNQD 289

Query:   284 GIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQA 343
             G  P+  ++N ++NGLCK G +K    I++ + ++G  PD  TYN++++G CK G + +A
Sbjct:   290 GFFPDQYTFNTLVNGLCKAGHVKHAIEIMDVMLQEGYDPDVYTYNSVISGLCKLGEVKEA 349

Query:   344 LVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLING 403
             + +  +M+    SPN VTY +LI+++CK   +  A E    +  + + P+  T+ +LI G
Sbjct:   350 VEVLDQMITRDCSPNTVTYNTLISTLCKENQVEEATELARVLTSKGILPDVCTFNSLIQG 409

Query:   404 FSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPD 463
                      A  L  EM   G  P   TYN LI   C+ G++++A+ +L  M   G A  
Sbjct:   410 LCLTRNHRVAMELFEEMRSKGCEPDEFTYNMLIDSLCSKGKLDEALNMLKQMELSGCARS 469

Query:   464 VVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQ 523
             V++Y+T+I GF ++ +  +A +   EM   GV  +++TY++LI GLC+ RR+ +A +L  
Sbjct:   470 VITYNTLIDGFCKANKTREAEEIFDEMEVHGVSRNSVTYNTLIDGLCKSRRVEDAAQLMD 529

Query:   524 EMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQA 583
             +M+  G  PD++TY +L+  +C  GDI +A  +   M   G  PD+VTY  LI+GL K  
Sbjct:   530 QMIMEGQKPDKYTYNSLLTHFCRGGDIKKAADIVQAMTSNGCEPDIVTYGTLISGLCKAG 589

Query:   584 RTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFE 643
             R   A KLL       S+    I      N T   +  V   ++G   K    EA  +F 
Sbjct:   590 RVEVASKLL------RSIQMKGI------NLTPHAYNPV---IQGLFRKRKTTEAINLFR 634

Query:   644 LMLQRNHMPNEAV-YDIIIHGHSKVGN-VQKAYDLYKKMVRSGFVPHTVTIIVLVKALHT 701
              ML++N  P +AV Y I+  G    G  +++A D   +++  GFVP   ++ +L + L T
Sbjct:   635 EMLEQNEAPPDAVSYRIVFRGLCNGGGPIREAVDFLVELLEKGFVPEFSSLYMLAEGLLT 694

Query:   702 AGMNEELSQVIENILRSCRLSDAELAKV 729
               M E L +++  +++  R S+ E++ V
Sbjct:   695 LSMEETLVKLVNMVMQKARFSEEEVSMV 722

GO:0005739 "mitochondrion" evidence=ISM

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

GO:0009507 "chloroplast" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA

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

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

GO:0048481 "ovule development" evidence=RCA

TAIR|locus:2139732 AT4G11690 [Arabidopsis thaliana (taxid:3702)]

 Score = 780 (279.6 bits), Expect = 1.6e-77, P = 1.6e-77
 Identities = 182/526 (34%), Positives = 282/526 (53%)

Query:    96 LTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDSTSSSA---VIDLV 152
             + L +L    L+  AQ+L   L V   +    F F+     ++L +S +S     + +++
Sbjct:    44 ILLRLLLSGNLFSHAQSLL--LQVISGKIHSQF-FTSSSLLHYLTESETSKTKFRLYEVI 100

Query:   153 VKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGR-NNWVKFAEEVYNEMG 211
             + SY     ++ +++  N    +GF+PG   +N +L  V+ S   N W  F    +NE  
Sbjct:   101 INSYVQSQSLNLSISYFNEMVDNGFVPGSNCFNYLLTFVVGSSSFNQWWSF----FNE-N 155

Query:   212 KSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRID 271
             KS+V  +VY++ +LI+G C  G++E       E+ +     NVV Y TLIDG CK G I+
Sbjct:   156 KSKVVLDVYSFGILIKGCCEAGEIEKSFDLLIELTEFGFSPNVVIYTTLIDGCCKKGEIE 215

Query:   272 DAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLL 331
              A  L  +MG  G+  N  +Y V+INGL K G  K+   +  ++   G+ P+  TYN ++
Sbjct:   216 KAKDLFFEMGKLGLVANERTYTVLINGLFKNGVKKQGFEMYEKMQEDGVFPNLYTYNCVM 275

Query:   332 NGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELR 391
             N  CK+G    A  +  EM   G+S N+VTY +LI  +C+   LN A +  DQM    + 
Sbjct:   276 NQLCKDGRTKDAFQVFDEMRERGVSCNIVTYNTLIGGLCREMKLNEANKVVDQMKSDGIN 335

Query:   392 PNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGV 451
             PN  TY TLI+GF   G L +A  L  ++   G  PS+VTYN L+ G C  G    A  +
Sbjct:   336 PNLITYNTLIDGFCGVGKLGKALSLCRDLKSRGLSPSLVTYNILVSGFCRKGDTSGAAKM 395

Query:   452 LHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCE 511
             +  M  +G+ P  V+Y+ +I  F+RS  ++KA   +  M E G++PD  TYS LIHG C 
Sbjct:   396 VKEMEERGIKPSKVTYTILIDTFARSDNMEKAIQLRLSMEELGLVPDVHTYSVLIHGFCI 455

Query:   512 QRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVT 571
             + ++ EA  LF+ M+ +   P+E  Y T+I  YC EG   +AL+L  EM +K   P+V +
Sbjct:   456 KGQMNEASRLFKSMVEKNCEPNEVIYNTMILGYCKEGSSYRALKLLKEMEEKELAPNVAS 515

Query:   572 YSVLINGLNKQARTMEAKKLLLKLFYDESV-PSDVIYNTLIENCTN 616
             Y  +I  L K+ ++ EA++L+ K+  D  + PS  I + LI    N
Sbjct:   516 YRYMIEVLCKERKSKEAERLVEKMI-DSGIDPSTSILS-LISRAKN 559

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2016427 AT1G19290 [Arabidopsis thaliana (taxid:3702)]

 Score = 774 (277.5 bits), Expect = 7.1e-77, P = 7.1e-77
 Identities = 172/582 (29%), Positives = 318/582 (54%)

Query:    40 LTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLTLKFLKWAQPQPFFTPKLK--CLT 97
             L +L R+   L+ LS +F+ E   ++L + + +    L+    A  Q  F P  K  C  
Sbjct:    52 LLVLGRYE-ALHDLSLDFSDELLNSILRRLRLNPEACLEIFNLASKQQKFRPDYKAYCKM 110

Query:    98 LHILTKFKLYKSAQT-LAQNLAVDLPRDDGNFVFSCLKETYHLCDSTSSSAVIDLVVKSY 156
             +HIL++ + Y+  ++ L + +A++     G  V+  L   +   + + S  V D+++K Y
Sbjct:   111 VHILSRARNYQQTKSYLCELVALN---HSGFVVWGELVRVFK--EFSFSPTVFDMILKVY 165

Query:   157 SHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVS 216
             +   ++  A+++ +    +G +P +LS N++L +++R G N +V  A  VY++M    VS
Sbjct:   166 AEKGLVKNALHVFDNMGNYGRIPSLLSCNSLLSNLVRKGEN-FV--ALHVYDQMISFEVS 222

Query:   217 PNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLA-NVVTYNTLIDGYCKLGRIDDAFK 275
             P+V+T ++++  +C  G+++  + F  E E +  L  NVVTYN+LI+GY  +G ++   +
Sbjct:   223 PDVFTCSIVVNAYCRSGNVDKAMVFAKETESSLGLELNVVTYNSLINGYAMIGDVEGMTR 282

Query:   276 LLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYC 335
             +LR M  +G+  N+++Y  +I G CK+G ++E + +   +  K LV D+  Y  L++GYC
Sbjct:   283 VLRLMSERGVSRNVVTYTSLIKGYCKKGLMEEAEHVFELLKEKKLVADQHMYGVLMDGYC 342

Query:   336 KEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEK 395
             + G +  A+ +H  M+  G+  N     SLIN  CKSG L  A + F +M+   L+P+  
Sbjct:   343 RTGQIRDAVRVHDNMIEIGVRTNTTICNSLINGYCKSGQLVEAEQIFSRMNDWSLKPDHH 402

Query:   396 TYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGM 455
             TY TL++G+ + G++DEA +L ++M +   +P+++TYN L+KG+   G   D + +   M
Sbjct:   403 TYNTLVDGYCRAGYVDEALKLCDQMCQKEVVPTVMTYNILLKGYSRIGAFHDVLSLWKMM 462

Query:   456 ARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRI 515
              ++G+  D +S ST++    +  + ++A      ++ +G+L DTIT + +I GLC+  ++
Sbjct:   463 LKRGVNADEISCSTLLEALFKLGDFNEAMKLWENVLARGLLTDTITLNVMISGLCKMEKV 522

Query:   516 TEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVL 575
              EA E+   +      P   TY  L + Y   G++ +A  + + M +KG  P +  Y+ L
Sbjct:   523 NEAKEILDNVNIFRCKPAVQTYQALSHGYYKVGNLKEAFAVKEYMERKGIFPTIEMYNTL 582

Query:   576 INGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNI 617
             I+G  K     +   L+++L      P+   Y  LI    NI
Sbjct:   583 ISGAFKYRHLNKVADLVIELRARGLTPTVATYGALITGWCNI 624

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2053552 AT2G15630 "AT2G15630" [Arabidopsis thaliana (taxid:3702)]

 Score = 769 (275.8 bits), Expect = 2.4e-76, P = 2.4e-76
 Identities = 181/597 (30%), Positives = 299/597 (50%)

Query:    25 STLSATADAVIADKALTLLKRHPYQL-NSLSSEFTPEAAFNLLLKTQSDQTLTLKFLKWA 83
             ST  +    + ++  L  ++   + +   ++ + TP      LL       L   F+   
Sbjct:    36 STPESVLPPITSEILLESIRSSQWHIVEHVADKLTPSLVSTTLLSLVKTPNLAFNFVNHI 95

Query:    84 QPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDST 143
                     + +CL + +++K    K    L + +         N +F  L   +   + T
Sbjct:    96 DLYRLDF-QTQCLAIAVISKLSSPKPVTQLLKEVVTSRKNSIRN-LFDELVLAHDRLE-T 152

Query:   144 SSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGR--NNWVK 201
              S+ + DL+V+    L M+D+A+    L K  GF P   + N IL  + R  R  N WV 
Sbjct:   153 KSTILFDLLVRCCCQLRMVDEAIECFYLMKEKGFYPKTETCNHILTLLSRLNRIENAWVF 212

Query:   202 FAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLI 261
             +A+     M +  +  NVYT+N++I   C  G L+    F   ME       +VTYNTL+
Sbjct:   213 YAD-----MYRMEIKSNVYTFNIMINVLCKEGKLKKAKGFLGIMEVFGIKPTIVTYNTLV 267

Query:   262 DGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLV 321
              G+   GRI+ A  ++ +M  KG +P++ +YN I++ +C EGR  E   +L E+   GLV
Sbjct:   268 QGFSLRGRIEGARLIISEMKSKGFQPDMQTYNPILSWMCNEGRASE---VLREMKEIGLV 324

Query:   322 PDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEF 381
             PD V+YN L+ G    G+L  A     EMV+ G+ P   TY +LI+ +     +  A   
Sbjct:   325 PDSVSYNILIRGCSNNGDLEMAFAYRDEMVKQGMVPTFYTYNTLIHGLFMENKIEAAEIL 384

Query:   382 FDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCT 441
               ++  + +  +  TY  LING+ QHG   +A+ L +EM  +G  P+  TY +LI   C 
Sbjct:   385 IREIREKGIVLDSVTYNILINGYCQHGDAKKAFALHDEMMTDGIQPTQFTYTSLIYVLCR 444

Query:   442 GGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTIT 501
               +  +A  +   +  KG+ PD+V  +T++ G      +D+AF   +EM    + PD +T
Sbjct:   445 KNKTREADELFEKVVGKGMKPDLVMMNTLMDGHCAIGNMDRAFSLLKEMDMMSINPDDVT 504

Query:   502 YSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMI 561
             Y+ L+ GLC + +  EA EL  EM  RG+ PD  +Y TLI+ Y  +GD   A  + DEM+
Sbjct:   505 YNCLMRGLCGEGKFEEARELMGEMKRRGIKPDHISYNTLISGYSKKGDTKHAFMVRDEML 564

Query:   562 QKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIE 618
               GF P ++TY+ L+ GL+K      A++LL ++  +  VP+D  + ++IE  +N++
Sbjct:   565 SLGFNPTLLTYNALLKGLSKNQEGELAEELLREMKSEGIVPNDSSFCSVIEAMSNLD 621

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2019085 AT1G74580 "AT1G74580" [Arabidopsis thaliana (taxid:3702)]

 Score = 767 (275.1 bits), Expect = 3.9e-76, P = 3.9e-76
 Identities = 178/610 (29%), Positives = 322/610 (52%)

Query:   153 VKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGK 212
             +K+Y     + +AVN+      +   P V SYNAI+  ++ SG   +   A +VY  M  
Sbjct:    83 MKNYGRKGKVQEAVNVFERMDFYDCEPTVFSYNAIMSVLVDSG---YFDQAHKVYMRMRD 139

Query:   213 SRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDD 272
               ++P+VY++ + ++ FC        LR  + M    C  NVV Y T++ G+ +     +
Sbjct:   140 RGITPDVYSFTIRMKSFCKTSRPHAALRLLNNMSSQGCEMNVVAYCTVVGGFYEENFKAE 199

Query:   273 AFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLN 332
              ++L   M   G+   L ++N ++  LCK+G +KE + +L+++ ++G++P+  TYN  + 
Sbjct:   200 GYELFGKMLASGVSLCLSTFNKLLRVLCKKGDVKECEKLLDKVIKRGVLPNLFTYNLFIQ 259

Query:   333 GYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRP 392
             G C+ G L  A+ +   ++  G  P+V+TY +LI  +CK+     A  +  +M    L P
Sbjct:   260 GLCQRGELDGAVRMVGCLIEQGPKPDVITYNNLIYGLCKNSKFQEAEVYLGKMVNEGLEP 319

Query:   393 NEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVL 452
             +  TY TLI G+ + G +  A R++ +   NGF+P   TY +LI G C  G    A+ + 
Sbjct:   320 DSYTYNTLIAGYCKGGMVQLAERIVGDAVFNGFVPDQFTYRSLIDGLCHEGETNRALALF 379

Query:   453 HGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQ 512
             +    KG+ P+V+ Y+T+I G S    + +A     EM EKG++P+  T++ L++GLC+ 
Sbjct:   380 NEALGKGIKPNVILYNTLIKGLSNQGMILEAAQLANEMSEKGLIPEVQTFNILVNGLCKM 439

Query:   513 RRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTY 572
               +++A  L + M+S+G  PD FT+  LI+ Y T+  +  AL + D M+  G  PDV TY
Sbjct:   440 GCVSDADGLVKVMISKGYFPDIFTFNILIHGYSTQLKMENALEILDVMLDNGVDPDVYTY 499

Query:   573 SVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIEN-CT-NIEFQNVAALLKGFC 630
             + L+NGL K ++            +++ + +   Y T++E  C  N+   N+  LL+  C
Sbjct:   500 NSLLNGLCKTSK------------FEDVMET---YKTMVEKGCAPNLFTFNI--LLESLC 542

Query:   631 MKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-T 689
                 ++EA  + E M  ++  P+   +  +I G  K G++  AY L++KM  +  V   T
Sbjct:   543 RYRKLDEALGLLEEMKNKSVNPDAVTFGTLIDGFCKNGDLDGAYTLFRKMEEAYKVSSST 602

Query:   690 VTIIVLVKALHTAGMNEELSQ-VIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLT 748
              T  +++ A  T  +N  +++ + + ++  C   D    +++V+   K GN++     L 
Sbjct:   603 PTYNIIIHAF-TEKLNVTMAEKLFQEMVDRCLGPDGYTYRLMVDGFCKTGNVNLGYKFLL 661

Query:   749 EMAKDGLLPN 758
             EM ++G +P+
Sbjct:   662 EMMENGFIPS 671

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2015213 AT1G63150 [Arabidopsis thaliana (taxid:3702)]

 Score = 677 (243.4 bits), Expect = 1.3e-66, P = 1.3e-66
 Identities = 157/474 (33%), Positives = 250/474 (52%)

Query:   171 LAKVH--GFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRG 228
             LAK+   G+ P +++ +++L+    S R   +  A  + ++M +    P+ +T+  LI G
Sbjct:   141 LAKMMKLGYEPDIVTLSSLLNGYCHSKR---ISDAVALVDQMVEMGYKPDTFTFTTLIHG 197

Query:   229 FCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPN 288
                       +    +M +  C  ++VTY T+++G CK G ID A  LL  M    I+ N
Sbjct:   198 LFLHNKASEAVALVDQMVQRGCQPDLVTYGTVVNGLCKRGDIDLALNLLNKMEAARIKAN 257

Query:   289 LISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHA 348
             ++ +N II+ LCK   ++    +  E+  KG+ P+ VTYN+L+N  C  G    A  L +
Sbjct:   258 VVIFNTIIDSLCKYRHVEVAVDLFTEMETKGIRPNVVTYNSLINCLCNYGRWSDASRLLS 317

Query:   349 EMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHG 408
              M+   ++PNVVT+ +LI++  K G L  A +  ++M  R + P+  TY  LINGF  H 
Sbjct:   318 NMLEKKINPNVVTFNALIDAFFKEGKLVEAEKLHEEMIQRSIDPDTITYNLLINGFCMHN 377

Query:   409 FLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYS 468
              LDEA ++   M     +P+I TYN LI G C   RVED V +   M+++GL  + V+Y+
Sbjct:   378 RLDEAKQMFKFMVSKDCLPNIQTYNTLINGFCKCKRVEDGVELFREMSQRGLVGNTVTYT 437

Query:   469 TIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSR 528
             TII GF ++ + D A    ++MV   V  D +TYS L+HGLC   ++  A  +F+ +   
Sbjct:   438 TIIQGFFQAGDCDSAQMVFKQMVSNRVPTDIMTYSILLHGLCSYGKLDTALVIFKYLQKS 497

Query:   529 GMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEA 588
              M  + F Y T+I   C  G + +A  L   +  K   PDVVTY+ +I+GL  +    EA
Sbjct:   498 EMELNIFIYNTMIEGMCKAGKVGEAWDLFCSLSIK---PDVVTYNTMISGLCSKRLLQEA 554

Query:   589 KKLLLKLFYDESVPSDVIYNTLIE-NCTNIEFQNVAALLKGFCMKGLMNEADRV 641
               L  K+  D ++P+   YNTLI  N  + +    A L+K     G + +A  +
Sbjct:   555 DDLFRKMKEDGTLPNSGTYNTLIRANLRDCDRAASAELIKEMRSSGFVGDASTI 608

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2015208 AT1G63130 [Arabidopsis thaliana (taxid:3702)]

 Score = 759 (272.2 bits), Expect = 2.7e-75, P = 2.7e-75
 Identities = 180/600 (30%), Positives = 319/600 (53%)

Query:   155 SYSHLN--MIDKAVNIV-NLAKVHGFMPGVLSYNAILDSVIRSGRNNWV-KFAEEVYNEM 210
             S + LN   +D AVN+  ++ K   F P ++ ++ +L ++ +  + + V    E++ N +
Sbjct:    53 SINRLNDLKLDDAVNLFGDMVKSRPF-PSIVEFSKLLSAIAKMNKFDLVISLGEQMQN-L 110

Query:   211 GKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRI 270
             G   +S N+YTY++LI  FC    L + L   ++M K     ++VT N+L++G+C   RI
Sbjct:   111 G---ISHNLYTYSILINCFCRRSQLSLALAVLAKMMKLGYEPDIVTLNSLLNGFCHGNRI 167

Query:   271 DDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTL 330
              DA  L+  M   G +P+  ++N +I+GL +  R  E   +++ +  KG  PD VTY  +
Sbjct:   168 SDAVSLVGQMVEMGYQPDSFTFNTLIHGLFRHNRASEAVALVDRMVVKGCQPDLVTYGIV 227

Query:   331 LNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVREL 390
             +NG CK G++  AL L  +M +  + P VV Y ++I+++C   N+N A+  F +M  + +
Sbjct:   228 VNGLCKRGDIDLALSLLKKMEQGKIEPGVVIYNTIIDALCNYKNVNDALNLFTEMDNKGI 287

Query:   391 RPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVG 450
             RPN  TY +LI     +G   +A RLL++M +    P++VT++ALI      G++ +A  
Sbjct:   288 RPNVVTYNSLIRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEK 347

Query:   451 VLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLC 510
             +   M ++ + PD+ +YS++I+GF     LD+A      M+ K   P+ +TY++LI G C
Sbjct:   348 LYDEMIKRSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFC 407

Query:   511 EQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVV 570
             + +R+ E  ELF+EM  RG+  +  TYTTLI+ +    +   A  +  +M+  G LPD++
Sbjct:   408 KAKRVDEGMELFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQMVSDGVLPDIM 467

Query:   571 TYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFC 630
             TYS+L++GL    +   A  +   L   +  P    YN +IE               G C
Sbjct:   468 TYSILLDGLCNNGKVETALVVFEYLQRSKMEPDIYTYNIMIE---------------GMC 512

Query:   631 MKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTV 690
               G + +   +F  +  +   PN   Y  ++ G  + G  ++A  L+++M   G +P + 
Sbjct:   513 KAGKVEDGWDLFCSLSLKGVKPNVVTYTTMMSGFCRKGLKEEADALFREMKEEGPLPDSG 572

Query:   691 TIIVLVKALHTAGMNEELSQVIENILRSCR-LSDAELAKVLVEINHKEGNMD-AVLNVLT 748
             T   L++A H    ++  S  +   +RSCR + DA    ++  + H +G +D + L +L+
Sbjct:   573 TYNTLIRA-HLRDGDKAASAELIREMRSCRFVGDASTIGLVTNMLH-DGRLDKSFLKMLS 630

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)
Q9FIX3	PP407_ARATH	No assigned EC number	0.6774	0.9595	0.9839	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00036545001 SubName- Full=Chromosome chr3 scaffold_8, whole genome shotgun sequence; (762 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	766
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	9e-43
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-37
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-33
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-32
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-32
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-27
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	5e-24
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-22
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-21
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-21
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-19
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-19
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-18
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-18
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-18
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-17
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-17
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-16
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-16
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-15
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-14
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-13
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-13
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-12
pfam12854	34	pfam12854, PPR_1, PPR repeat	5e-11
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-09
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-09
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-09
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	6e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	8e-08
pfam01535	31	pfam01535, PPR, PPR repeat	8e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	9e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-06
pfam01535	31	pfam01535, PPR, PPR repeat	1e-06
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	1e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-06
pfam01535	31	pfam01535, PPR, PPR repeat	2e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	6e-06
pfam01535	31	pfam01535, PPR, PPR repeat	8e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-05
pfam01535	31	pfam01535, PPR, PPR repeat	3e-05
pfam01535	31	pfam01535, PPR, PPR repeat	4e-05
pfam01535	31	pfam01535, PPR, PPR repeat	6e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-04
pfam01535	31	pfam01535, PPR, PPR repeat	2e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	2e-04
pfam01535	31	pfam01535, PPR, PPR repeat	8e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.001
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.001
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	0.001
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.002
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	0.002
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.003

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

 Score =  167 bits (424), Expect = 9e-43
 Identities = 96/370 (25%), Positives = 183/370 (49%), Gaps = 7/370 (1%)

Query: 217 PNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKL 276
           P + T+N+L+       D++  LR    +++    A+   Y TLI    K G++D  F++
Sbjct: 435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 277 LRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCK 336
             +M   G+E N+ ++  +I+G  + G++ +  G    +  K + PD V +N L++   +
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQ 554

Query: 337 EGNLHQALVLHAEMVRNG--LSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNE 394
            G + +A  + AEM      + P+ +T  +L+ +   +G ++RA E +  +H   ++   
Sbjct: 555 SGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTP 614

Query: 395 KTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIK--GHCTGGRVEDAVGVL 452
           + YT  +N  SQ G  D A  + ++M K G  P  V ++AL+   GH   G ++ A  +L
Sbjct: 615 EVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGH--AGDLDKAFEIL 672

Query: 453 HGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQ 512
               ++G+    VSYS+++   S ++   KA +   ++    + P   T ++LI  LCE 
Sbjct: 673 QDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEG 732

Query: 513 RRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTY 572
            ++ +A E+  EM   G+ P+  TY+ L+ A   + D    L L  +  + G  P++V  
Sbjct: 733 NQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMC 792

Query: 573 SVLINGLNKQ 582
             +  GL  +
Sbjct: 793 RCIT-GLCLR 801

Length = 1060

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

 Score =  150 bits (381), Expect = 2e-37
 Identities = 118/492 (23%), Positives = 216/492 (43%), Gaps = 56/492 (11%)

Query: 157 SHLNM----------IDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEV 206
           S  NM          ID A+ ++ L +  G       Y  ++ +  +SG+   V    EV
Sbjct: 438 STFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGK---VDAMFEV 494

Query: 207 YNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCK 266
           ++EM  + V  NV+T+  LI G    G +      +  M   N   + V +N LI    +
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQ 554

Query: 267 LGRIDDAFKLLRDMG--LKGIEPNLISYNVIINGLCKEG---RLKETKGILNEISRKGLV 321
            G +D AF +L +M      I+P+ I+   ++      G   R KE   +++E + KG  
Sbjct: 555 SGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG-T 613

Query: 322 PDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEF 381
           P EV Y   +N   ++G+   AL ++ +M + G+ P+ V +++L++    +G+L++A E 
Sbjct: 614 P-EV-YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEI 671

Query: 382 FDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCT 441
                 + ++    +Y++L+   S      +A  L  ++      P++ T NALI   C 
Sbjct: 672 LQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCE 731

Query: 442 GGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTIT 501
           G ++  A+ VL  M R GL P+ ++YS ++    R  + D   D   +  E G+ P+ + 
Sbjct: 732 GNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVM 791

Query: 502 YSSLIHGLCEQRRITEACELFQEMLS----RGMSPDEFTYTTLINAYCTEGDIPQALRLH 557
              +  GLC  RR  +AC L + ++S    R    +++T                AL ++
Sbjct: 792 CRCIT-GLC-LRRFEKACALGEPVVSFDSGRPQIENKWT--------------SWALMVY 835

Query: 558 DEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNI 617
            E I  G LP +   S ++  L    +      L  +L  +  +           +  + 
Sbjct: 836 RETISAGTLPTMEVLSQVLGCL----QLPHDATLRNRLIENLGI-----------SADSQ 880

Query: 618 EFQNVAALLKGF 629
           +  N++ L+ GF
Sbjct: 881 KQSNLSTLVDGF 892

Length = 1060

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

 Score =  136 bits (343), Expect = 7e-33
 Identities = 135/574 (23%), Positives = 246/574 (42%), Gaps = 102/574 (17%)

Query: 159 LNMIDKAVNIVNLAKVHGFMP--GVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVS 216
           L+M  +   +V+   V G MP   + S+N ++    ++G   +   A  +Y+ M  + V 
Sbjct: 128 LSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAG---YFDEALCLYHRMLWAGVR 184

Query: 217 PNVYTYNVLIRGFCGVGDLEMG-------LRFFSEMEKNNCLANVVTYNTLIDGYCKLGR 269
           P+VYT+  ++R   G+ DL  G       +RF  E++      +VV  N LI  Y K G 
Sbjct: 185 PDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELD-----VDVV--NALITMYVKCGD 237

Query: 270 IDDAFKLLRDMGLKGIEPNLISYNVII-----NGLCKEG-----RLKETKGILNEISRKG 319
           +  A  +   M  +      IS+N +I     NG C EG      ++E       +    
Sbjct: 238 VVSARLVFDRMPRRDC----ISWNAMISGYFENGECLEGLELFFTMRE-----LSVD--- 285

Query: 320 LVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAM 379
             PD +T  ++++     G+      +H  +V+ G + +V    SLI      G+   A 
Sbjct: 286 --PDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAE 343

Query: 380 EFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGH 439
           + F +M  ++      ++T +I+G+ ++G  D+A      M ++   P  +T  +++   
Sbjct: 344 KVFSRMETKDA----VSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSAC 399

Query: 440 CTGGRVEDAVGV-LHGMA-RKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLP 497
              G ++  VGV LH +A RKGL   VV  + +I  +S+ + +DKA +    + EK    
Sbjct: 400 ACLGDLD--VGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK---- 453

Query: 498 DTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLH 557
           D I+++S+I GL    R  EA   F++ML   + P+  T    ++A    G +     +H
Sbjct: 454 DVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIH 512

Query: 558 DEMIQ-----KGFLP-------------------------DVVTYSVLINGLNKQARTME 587
             +++      GFLP                         DVV++++L+ G     +   
Sbjct: 513 AHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSM 572

Query: 588 AKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQ 647
           A +L  ++      P +V + +L+  C+            G   +GL       F  M +
Sbjct: 573 AVELFNRMVESGVNPDEVTFISLLCACSR----------SGMVTQGLE-----YFHSMEE 617

Query: 648 RNHM-PNEAVYDIIIHGHSKVGNVQKAYDLYKKM 680
           +  + PN   Y  ++    + G + +AY+   KM
Sbjct: 618 KYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM 651

Length = 857

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

 Score =  133 bits (337), Expect = 5e-32
 Identities = 103/422 (24%), Positives = 195/422 (46%), Gaps = 25/422 (5%)

Query: 281 GLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVP-DEVTYNTLLNGYCKEGN 339
           G+ G       Y    N L ++GR+K+   +L ++ ++GL+  D++ +        K+  
Sbjct: 363 GVSGKR-KSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRA 421

Query: 340 LHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTT 399
           + +A    A+++RN   P + T+  L++    S +++ A+     +    L+ + K YTT
Sbjct: 422 VKEAFRF-AKLIRN---PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTT 477

Query: 400 LINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKG 459
           LI+  ++ G +D  + + +EM   G   ++ T+ ALI G    G+V  A G    M  K 
Sbjct: 478 LISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKN 537

Query: 460 LAPDVVSYSTIISGFSRSQELDKAFDTKREMV--EKGVLPDTITYSSLIHGLCEQRRITE 517
           + PD V ++ +IS   +S  +D+AFD   EM      + PD IT  +L+       ++  
Sbjct: 538 VKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDR 597

Query: 518 ACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLIN 577
           A E++Q +    +      YT  +N+   +GD   AL ++D+M +KG  PD V +S L++
Sbjct: 598 AKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVD 657

Query: 578 GLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNI-EFQNVAALLKGFCMKGLMN 636
                    +A ++L            V Y++L+  C+N   ++           K L  
Sbjct: 658 VAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWK-----------KAL-- 704

Query: 637 EADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLV 696
               ++E +      P  +  + +I    +   + KA ++  +M R G  P+T+T  +L+
Sbjct: 705 ---ELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL 761

Query: 697 KA 698
            A
Sbjct: 762 VA 763

Length = 1060

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

 Score =  133 bits (336), Expect = 6e-32
 Identities = 91/371 (24%), Positives = 163/371 (43%), Gaps = 48/371 (12%)

Query: 261 IDGYCKL---GRIDDAFKLLRDMGLKGI-------------------------------- 285
           ID Y +L   GRI D   LL DM  +G+                                
Sbjct: 374 IDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR 433

Query: 286 EPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQAL- 344
            P L ++N++++       +     +L  +   GL  D   Y TL++   K G +  A+ 
Sbjct: 434 NPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKV-DAMF 492

Query: 345 -VLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLING 403
            V H EMV  G+  NV T+ +LI+   ++G + +A   +  M  + ++P+   +  LI+ 
Sbjct: 493 EVFH-EMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISA 551

Query: 404 FSQHGFLDEAYRLLNEMTKNG--FMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGL- 460
             Q G +D A+ +L EM        P  +T  AL+K     G+V+ A  V   +    + 
Sbjct: 552 CGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIK 611

Query: 461 -APDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEAC 519
             P+V  Y+  ++  S+  + D A     +M +KGV PD + +S+L+        + +A 
Sbjct: 612 GTPEV--YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF 669

Query: 520 ELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGL 579
           E+ Q+   +G+     +Y++L+ A     +  +AL L++++      P V T + LI  L
Sbjct: 670 EILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITAL 729

Query: 580 ---NKQARTME 587
              N+  + +E
Sbjct: 730 CEGNQLPKALE 740

Length = 1060

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

 Score =  117 bits (294), Expect = 4e-27
 Identities = 90/391 (23%), Positives = 169/391 (43%), Gaps = 20/391 (5%)

Query: 178 MP--GVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDL 235
           MP   + S+  I+  ++ +G     + A  ++ EM +        T+ V++R   G+G  
Sbjct: 184 MPERNLASWGTIIGGLVDAGN---YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA 240

Query: 236 EMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVI 295
             G +    + K   + +      LID Y K G I+DA  +   M     E   +++N +
Sbjct: 241 RAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSM 296

Query: 296 INGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGL 355
           + G    G  +E   +  E+   G+  D+ T++ ++  + +   L  A   HA ++R G 
Sbjct: 297 LAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF 356

Query: 356 SPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYR 415
             ++V  T+L++   K G +  A   FD+M  +    N  ++  LI G+  HG   +A  
Sbjct: 357 PLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVE 412

Query: 416 LLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMAR-KGLAPDVVSYSTIISGF 474
           +   M   G  P+ VT+ A++      G  E    +   M+    + P  + Y+ +I   
Sbjct: 413 MFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELL 472

Query: 475 SRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDE 534
            R   LD+A+     M+ +     T+   + +   C   +  E   L  E L  GM P++
Sbjct: 473 GREGLLDEAY----AMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKL-YGMGPEK 527

Query: 535 F-TYTTLINAYCTEGDIPQALRLHDEMIQKG 564
              Y  L+N Y + G   +A ++ + + +KG
Sbjct: 528 LNNYVVLLNLYNSSGRQAEAAKVVETLKRKG 558

Length = 697

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

 Score =  107 bits (268), Expect = 5e-24
 Identities = 98/446 (21%), Positives = 191/446 (42%), Gaps = 33/446 (7%)

Query: 160 NMIDKAVNIVNLAKVHG-FMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPN 218
               +A+ +  + +    F     +Y+A++++ I       ++  + VY  +  S   P+
Sbjct: 101 GRHREALELFEILEAGCPFTLPASTYDALVEACIALKS---IRCVKAVYWHVESSGFEPD 157

Query: 219 VYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLR 278
            Y  N ++      G L    R F EM +     N+ ++ T+I G    G   +AF L R
Sbjct: 158 QYMMNRVLLMHVKCGMLIDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFR 213

Query: 279 DMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEG 338
           +M   G +    ++ V++      G  +  + +   + + G+V D      L++ Y K G
Sbjct: 214 EMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCG 273

Query: 339 NLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYT 398
           ++  A  +   M         V + S++      G    A+  + +M    +  ++ T++
Sbjct: 274 DIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFS 329

Query: 399 TLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARK 458
            +I  FS+   L+ A +    + + GF   IV   AL+  +   GR+EDA  V   M RK
Sbjct: 330 IMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK 389

Query: 459 GLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIH-----GLCEQR 513
               +++S++ +I+G+       KA +    M+ +GV P+ +T+ +++      GL EQ 
Sbjct: 390 ----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQG 445

Query: 514 RITEACELFQEML-SRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKG-FLPDVVT 571
                 E+FQ M  +  + P    Y  +I     EG + +A      MI++  F P V  
Sbjct: 446 W-----EIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAY----AMIRRAPFKPTVNM 496

Query: 572 YSVLINGLNKQARTMEAKKLLLKLFY 597
           ++ L+       + +E  +L  +  Y
Sbjct: 497 WAALLTACRIH-KNLELGRLAAEKLY 521

Length = 697

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

 Score =  101 bits (253), Expect = 6e-22
 Identities = 77/367 (20%), Positives = 143/367 (38%), Gaps = 57/367 (15%)

Query: 352 RNGLSP--NVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTY-TTLINGFSQHG 408
             G+S       Y    N + + G +   ++  + M  R L   +K Y         +  
Sbjct: 361 NGGVSGKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQR 420

Query: 409 FLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYS 468
            + EA+R      K    P++ T+N L+    +   ++ A+ VL  +   GL  D   Y+
Sbjct: 421 AVKEAFRF----AKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYT 476

Query: 469 TIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSR 528
           T+IS  ++S ++D  F+   EMV  GV  +  T+ +LI G     ++ +A   +  M S+
Sbjct: 477 TLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSK 536

Query: 529 GMSPDEFTYTTLINAYCTE-GDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTME 587
            + PD   +  LI+A C + G + +A  +  EM                          E
Sbjct: 537 NVKPDRVVFNALISA-CGQSGAVDRAFDVLAEM------------------------KAE 571

Query: 588 AKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQ 647
              +          P  +    L++ C N                G ++ A  V++++ +
Sbjct: 572 THPID---------PDHITVGALMKACAN---------------AGQVDRAKEVYQMIHE 607

Query: 648 RNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEE 707
            N      VY I ++  S+ G+   A  +Y  M + G  P  V    LV     AG  ++
Sbjct: 608 YNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDK 667

Query: 708 LSQVIEN 714
             +++++
Sbjct: 668 AFEILQD 674

Length = 1060

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

 Score =   99 bits (249), Expect = 2e-21
 Identities = 99/424 (23%), Positives = 177/424 (41%), Gaps = 36/424 (8%)

Query: 161 MIDKAVNIVNLAKV---HGFM------PGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMG 211
           +ID       +AK    +G M      P  + +NA++ +  +SG    V  A +V  EM 
Sbjct: 513 LIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGA---VDRAFDVLAEMK 569

Query: 212 KSR--VSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGR 269
                + P+  T   L++     G ++     +  + + N       Y   ++   + G 
Sbjct: 570 AETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGD 629

Query: 270 IDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNT 329
            D A  +  DM  KG++P+ + ++ +++     G L +   IL +  ++G+    V+Y++
Sbjct: 630 WDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSS 689

Query: 330 LLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRE 389
           L+       N  +AL L+ ++    L P V T  +LI ++C+   L +A+E   +M    
Sbjct: 690 LMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLG 749

Query: 390 LRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAV 449
           L PN  TY+ L+    +    D    LL++  ++G  P++V    +  G C   R E A 
Sbjct: 750 LCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLCL-RRFEKAC 807

Query: 450 GVLHGMARKGLAPDVVSYSTIISGFSRSQELDK----AFDTKREMVEKGVLPDTITYSSL 505
                     L   VVS+ +      R Q  +K    A    RE +  G LP     S +
Sbjct: 808 ---------ALGEPVVSFDS-----GRPQIENKWTSWALMVYRETISAGTLPTMEVLSQV 853

Query: 506 IHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGF 565
           +  L      T    L + +     S  +   +TL++ +  E D P+A  L +E    G 
Sbjct: 854 LGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGF-GEYD-PRAFSLLEEAASLGV 911

Query: 566 LPDV 569
           +P V
Sbjct: 912 VPSV 915

Length = 1060

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

 Score = 86.3 bits (215), Expect = 6e-21
 Identities = 28/49 (57%), Positives = 42/49 (85%)

Query: 253 NVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCK 301
           +VVTYNTLIDGYCK G++++A KL  +M  +GI+PN+ +Y+++I+GLCK
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 = 82.5 bits (205), Expect = 1e-19
 Identities = 28/50 (56%), Positives = 38/50 (76%)

Query: 322 PDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCK 371
           PD VTYNTL++GYCK+G + +AL L  EM + G+ PNV TY+ LI+ +CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 93.0 bits (231), Expect = 2e-19
 Identities = 80/359 (22%), Positives = 146/359 (40%), Gaps = 64/359 (17%)

Query: 350 MVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGF 409
           +  +G  P+      ++    K G L  A   FD+M  R    N  ++ T+I G    G 
Sbjct: 149 VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPER----NLASWGTIIGGLVDAGN 204

Query: 410 LDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARK-GLAPDVVSYS 468
             EA+ L  EM ++G      T+  +++     G    A   LH    K G+  D     
Sbjct: 205 YREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSAR-AGQQLHCCVLKTGVVGDTFVSC 263

Query: 469 TIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSR 528
            +I  +S+  +++ A      M EK     T+ ++S++ G        EA  L+ EM   
Sbjct: 264 ALIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDS 319

Query: 529 GMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEA 588
           G+S D+FT++ +I  +     +  A + H  +I+ GF                       
Sbjct: 320 GVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF----------------------- 356

Query: 589 KKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQR 648
                        P D++ NT              AL+  +   G M +A  VF+ M ++
Sbjct: 357 -------------PLDIVANT--------------ALVDLYSKWGRMEDARNVFDRMPRK 389

Query: 649 NHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEE 707
           N +     ++ +I G+   G   KA +++++M+  G  P+ VT + ++ A   +G++E+
Sbjct: 390 NLIS----WNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQ 444

Length = 697

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

 Score = 89.9 bits (223), Expect = 1e-18
 Identities = 80/323 (24%), Positives = 139/323 (43%), Gaps = 24/323 (7%)

Query: 141 DSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMP--GVLSYNAILDSVIRSGRNN 198
           D+  S A+ID+    YS    I+ A        V   MP    +++N++L      G + 
Sbjct: 258 DTFVSCALIDM----YSKCGDIEDA------RCVFDGMPEKTTVAWNSMLAGYALHGYS- 306

Query: 199 WVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYN 258
             + A  +Y EM  S VS + +T++++IR F  +  LE   +  + + +     ++V   
Sbjct: 307 --EEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANT 364

Query: 259 TLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRK 318
            L+D Y K GR++DA  +   M  K    NLIS+N +I G    GR  +   +   +  +
Sbjct: 365 ALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERMIAE 420

Query: 319 GLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRN-GLSPNVVTYTSLINSMCKSGNLNR 377
           G+ P+ VT+  +L+     G   Q   +   M  N  + P  + Y  +I  + + G L+ 
Sbjct: 421 GVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDE 480

Query: 378 AMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIK 437
           A     +      +P    +  L+     H  L+   RL  E         +  Y  L+ 
Sbjct: 481 AYAMIRRA---PFKPTVNMWAALLTACRIHKNLELG-RLAAEKLYGMGPEKLNNYVVLLN 536

Query: 438 GHCTGGRVEDAVGVLHGMARKGL 460
            + + GR  +A  V+  + RKGL
Sbjct: 537 LYNSSGRQAEAAKVVETLKRKGL 559

Length = 697

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

 Score = 79.0 bits (196), Expect = 2e-18
 Identities = 26/50 (52%), Positives = 33/50 (66%)

Query: 217 PNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCK 266
           P+V TYN LI G+C  G +E  L+ F+EM+K     NV TY+ LIDG CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 78.6 bits (195), Expect = 2e-18
 Identities = 22/49 (44%), Positives = 35/49 (71%)

Query: 497 PDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYC 545
           PD +TY++LI G C++ ++ EA +LF EM  RG+ P+ +TY+ LI+  C
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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 = 74.4 bits (184), Expect = 8e-17
 Identities = 26/50 (52%), Positives = 37/50 (74%)

Query: 532 PDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNK 581
           PD  TY TLI+ YC +G + +AL+L +EM ++G  P+V TYS+LI+GL K
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 74.4 bits (184), Expect = 9e-17
 Identities = 19/50 (38%), Positives = 38/50 (76%)

Query: 287 PNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCK 336
           P++++YN +I+G CK+G+++E   + NE+ ++G+ P+  TY+ L++G CK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 73.6 bits (182), Expect = 1e-16
 Identities = 21/50 (42%), Positives = 34/50 (68%)

Query: 357 PNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQ 406
           P+VVTY +LI+  CK G +  A++ F++M  R ++PN  TY+ LI+G  +
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 = 83.4 bits (206), Expect = 2e-16
 Identities = 95/428 (22%), Positives = 178/428 (41%), Gaps = 48/428 (11%)

Query: 293 NVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCK------EGNLHQALVL 346
           N  +  LC  G+L++   +L  +    +  DE  Y  L    C+      EG+   +  L
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFR-LCEWKRAVEEGSRVCSRAL 113

Query: 347 HAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQ 406
            +     G+        ++++   + G L  A   F +M  R+L     ++  L+ G+++
Sbjct: 114 -SSHPSLGVRLG----NAMLSMFVRFGELVHAWYVFGKMPERDLF----SWNVLVGGYAK 164

Query: 407 HGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTG------GRVEDAVGVLHGMARKGL 460
            G+ DEA  L + M   G  P + T+  +++  C G      GR E    V+    R G 
Sbjct: 165 AGYFDEALCLYHRMLWAGVRPDVYTFPCVLRT-CGGIPDLARGR-EVHAHVV----RFGF 218

Query: 461 APDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACE 520
             DV   + +I+ + +  ++  A    R + ++    D I+++++I G  E     E  E
Sbjct: 219 ELDVDVVNALITMYVKCGDVVSA----RLVFDRMPRRDCISWNAMISGYFENGECLEGLE 274

Query: 521 LFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLN 580
           LF  M    + PD  T T++I+A    GD      +H  +++ GF  DV   + LI    
Sbjct: 275 LFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYL 334

Query: 581 KQARTMEAKKLLLKLFYDESVP-----SDVIYNTL----IENCTNIEFQNV-------AA 624
                 EA+K+  ++   ++V      S    N L    +E    +E  NV       A+
Sbjct: 335 SLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIAS 394

Query: 625 LLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSG 684
           +L      G ++   ++ EL  ++  +    V + +I  +SK   + KA +++  +    
Sbjct: 395 VLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKD 454

Query: 685 FVPHTVTI 692
            +  T  I
Sbjct: 455 VISWTSII 462

Length = 857

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

 Score = 72.8 bits (180), Expect = 2e-16
 Identities = 23/49 (46%), Positives = 33/49 (67%)

Query: 392 PNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHC 440
           P+  TY TLI+G+ + G ++EA +L NEM K G  P++ TY+ LI G C
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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 = 72.4 bits (179), Expect = 4e-16
 Identities = 21/49 (42%), Positives = 34/49 (69%)

Query: 462 PDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLC 510
           PDVV+Y+T+I G+ +  ++++A     EM ++G+ P+  TYS LI GLC
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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 = 81.0 bits (200), Expect = 1e-15
 Identities = 90/374 (24%), Positives = 160/374 (42%), Gaps = 33/374 (8%)

Query: 135 ETYHLCDSTSSSA---VIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSV 191
           ETY L +  + S     I  V+ + + L  +D  V +  LA+  G +  V+  NA+++  
Sbjct: 375 ETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMY 434

Query: 192 IRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCL 251
            +      +  A EV++ + +     +V ++  +I G          L FF +M      
Sbjct: 435 SKCKC---IDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQM-LLTLK 486

Query: 252 ANVVTYNTLID-----GYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLK 306
            N VT    +      G    G+   A  L   +G  G  PN      +++   + GR+ 
Sbjct: 487 PNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPN-----ALLDLYVRCGRMN 541

Query: 307 ETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLI 366
                 N   +     D V++N LL GY   G    A+ L   MV +G++P+ VT+ SL+
Sbjct: 542 YAWNQFNSHEK-----DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLL 596

Query: 367 NSMCKSGNLNRAMEFFDQMHVR-ELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGF 425
            +  +SG + + +E+F  M  +  + PN K Y  +++   + G L EAY  +N+M     
Sbjct: 597 CACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMP---I 653

Query: 426 MPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISG-FSRSQELDKAF 484
            P    + AL+        VE  +G L       L P+ V Y  ++   ++ + + D+  
Sbjct: 654 TPDPAVWGALLNACRIHRHVE--LGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVA 711

Query: 485 DTKREMVEKGVLPD 498
             ++ M E G+  D
Sbjct: 712 RVRKTMRENGLTVD 725

Length = 857

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

 Score = 68.2 bits (168), Expect = 1e-14
 Identities = 21/50 (42%), Positives = 35/50 (70%)

Query: 427 PSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSR 476
           P +VTYN LI G+C  G+VE+A+ + + M ++G+ P+V +YS +I G  +
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 65.9 bits (162), Expect = 8e-14
 Identities = 22/52 (42%), Positives = 35/52 (67%), Gaps = 3/52 (5%)

Query: 179 PGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFC 230
           P V++YN ++D   + G+   V+ A +++NEM K  + PNVYTY++LI G C
Sbjct: 1   PDVVTYNTLIDGYCKKGK---VEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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 = 73.7 bits (181), Expect = 2e-13
 Identities = 80/415 (19%), Positives = 164/415 (39%), Gaps = 42/415 (10%)

Query: 363 TSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTK 422
            S + ++C  G L +A++  + M    +  +E  Y  L         ++E  R+ +    
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 423 NGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDK 482
           +     +   NA++      G +  A  V   M  +    D+ S++ ++ G++++   D+
Sbjct: 115 SHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPER----DLFSWNVLVGGYAKAGYFDE 170

Query: 483 AFDTKREMVEKGVLPDTITYSSLIH---GLCEQRRITEACELFQEMLSRGMSPDEFTYTT 539
           A      M+  GV PD  T+  ++    G+ +  R     E+   ++  G   D      
Sbjct: 171 ALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLAR---GREVHAHVVRFGFELDVDVVNA 227

Query: 540 LINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDE 599
           LI  Y   GD+  A  + D M ++    D ++++ +I+G  +    +E  +L   +    
Sbjct: 228 LITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMRELS 283

Query: 600 SVPSDVIYNTLIENC----------------------TNIEFQNVAALLKGFCMKGLMNE 637
             P  +   ++I  C                       ++   N  +L++ +   G   E
Sbjct: 284 VDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCN--SLIQMYLSLGSWGE 341

Query: 638 ADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVK 697
           A++VF  M  ++ +     +  +I G+ K G   KA + Y  M +    P  +TI  ++ 
Sbjct: 342 AEKVFSRMETKDAVS----WTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLS 397

Query: 698 ALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAK 752
           A    G  +   ++ E   R   +S   +A  L+E+  K   +D  L V   + +
Sbjct: 398 ACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE 452

Length = 857

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

 Score = 63.9 bits (157), Expect = 3e-13
 Identities = 18/33 (54%), Positives = 24/33 (72%)

Query: 248 NNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDM 280
                +VVTYNTLIDG C+ GR+D+A +LL +M
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 62.0 bits (152), Expect = 1e-12
 Identities = 15/33 (45%), Positives = 25/33 (75%)

Query: 353 NGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQM 385
            GL P+VVTY +LI+ +C++G ++ A+E  D+M
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 57.4 bits (140), Expect = 5e-11
 Identities = 18/34 (52%), Positives = 24/34 (70%)

Query: 318 KGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMV 351
           KGL PD VTYNTL++G C+ G + +A+ L  EM 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 53.1 bits (129), Expect = 2e-09
 Identities = 15/33 (45%), Positives = 21/33 (63%)

Query: 528 RGMSPDEFTYTTLINAYCTEGDIPQALRLHDEM 560
           +G+ PD  TY TLI+  C  G + +A+ L DEM
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 52.7 bits (128), Expect = 2e-09
 Identities = 18/33 (54%), Positives = 23/33 (69%)

Query: 493 KGVLPDTITYSSLIHGLCEQRRITEACELFQEM 525
           KG+ PD +TY++LI GLC   R+ EA EL  EM
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 59.5 bits (144), Expect = 4e-09
 Identities = 55/277 (19%), Positives = 109/277 (39%), Gaps = 30/277 (10%)

Query: 501 TYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEM 560
           TY +L+      + I     ++  + S G  PD++    ++  +   G +  A RL DEM
Sbjct: 125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM 184

Query: 561 IQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNI--- 617
            ++    ++ ++  +I GL       EA  L  +++ D S      +  ++     +   
Sbjct: 185 PER----NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA 240

Query: 618 ----------------EFQNVA-ALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDI 659
                               V+ AL+  +   G + +A  VF+ M ++  +  N  +   
Sbjct: 241 RAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGY 300

Query: 660 IIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSC 719
            +HG+S     ++A  LY +M  SG      T  ++++      + E   Q    ++R+ 
Sbjct: 301 ALHGYS-----EEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTG 355

Query: 720 RLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLL 756
              D      LV++  K G M+   NV   M +  L+
Sbjct: 356 FPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLI 392

Length = 697

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

 Score = 51.7 bits (125), Expect = 6e-09
 Identities = 20/34 (58%), Positives = 28/34 (82%)

Query: 255 VTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPN 288
           VTYNTLIDG CK GR+++A +L ++M  +GIEP+
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

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

 Score = 51.3 bits (124), Expect = 1e-08
 Identities = 23/65 (35%), Positives = 29/65 (44%), Gaps = 15/65 (23%)

Query: 602 PSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIII 661
           P  V YNTLI                G+C KG + EA ++F  M +R   PN   Y I+I
Sbjct: 1   PDVVTYNTLI---------------DGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILI 45

Query: 662 HGHSK 666
            G  K
Sbjct: 46  DGLCK 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 = 50.9 bits (123), Expect = 2e-08
 Identities = 15/48 (31%), Positives = 27/48 (56%)

Query: 652 PNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKAL 699
           P+   Y+ +I G+ K G V++A  L+ +M + G  P+  T  +L+  L
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 49.4 bits (119), Expect = 4e-08
 Identities = 19/35 (54%), Positives = 26/35 (74%)

Query: 500 ITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDE 534
           +TY++LI GLC+  R+ EA ELF+EM  RG+ 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 48.9 bits (118), Expect = 6e-08
 Identities = 17/33 (51%), Positives = 21/33 (63%)

Query: 423 NGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGM 455
            G  P +VTYN LI G C  GRV++AV +L  M
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 48.5 bits (117), Expect = 7e-08
 Identities = 16/31 (51%), Positives = 22/31 (70%)

Query: 390 LRPNEKTYTTLINGFSQHGFLDEAYRLLNEM 420
           L+P+  TY TLI+G  + G +DEA  LL+EM
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 48.5 bits (117), Expect = 8e-08
 Identities = 14/32 (43%), Positives = 26/32 (81%)

Query: 283 KGIEPNLISYNVIINGLCKEGRLKETKGILNE 314
           KG++P++++YN +I+GLC+ GR+ E   +L+E
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDE 32

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

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

 Score = 48.2 bits (116), Expect = 8e-08
 Identities = 16/31 (51%), Positives = 25/31 (80%)

Query: 255 VTYNTLIDGYCKLGRIDDAFKLLRDMGLKGI 285
           VTYN+LI GYCK G++++A +L ++M  KG+
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 48.1 bits (116), Expect = 9e-08
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 215 VSPNVYTYNVLIRGFCGVGDLEMGLRFFSEME 246
           + P+V TYN LI G C  G ++  +    EME
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 48.2 bits (116), Expect = 1e-07
 Identities = 18/35 (51%), Positives = 24/35 (68%)

Query: 325 VTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNV 359
           VTYNTL++G CK G + +AL L  EM   G+ P+V
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

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

 Score = 44.8 bits (107), Expect = 1e-06
 Identities = 14/35 (40%), Positives = 23/35 (65%)

Query: 360 VTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNE 394
           VTY +LI+ +CK+G +  A+E F +M  R + P+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

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

 Score = 44.8 bits (107), Expect = 1e-06
 Identities = 13/30 (43%), Positives = 19/30 (63%)

Query: 396 TYTTLINGFSQHGFLDEAYRLLNEMTKNGF 425
           TY +LI+G+ + G L+EA  L  EM + 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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 45.2 bits (108), Expect = 1e-06
 Identities = 12/34 (35%), Positives = 18/34 (52%)

Query: 254 VVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEP 287
           + TYN L+    K G  D A  +L +M   G++P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 44.4 bits (106), Expect = 2e-06
 Identities = 16/35 (45%), Positives = 21/35 (60%)

Query: 535 FTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDV 569
            TY TLI+  C  G + +AL L  EM ++G  PDV
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|144943 pfam01535, PPR, PPR repeat

 Score = 44.8 bits (107), Expect = 2e-06
 Identities = 17/31 (54%), Positives = 22/31 (70%)

Query: 325 VTYNTLLNGYCKEGNLHQALVLHAEMVRNGL 355
           VTYN+L++GYCK G L +AL L  EM   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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 44.0 bits (105), Expect = 3e-06
 Identities = 18/35 (51%), Positives = 23/35 (65%)

Query: 430 VTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDV 464
           VTYN LI G C  GRVE+A+ +   M  +G+ PDV
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 43.1 bits (103), Expect = 6e-06
 Identities = 16/34 (47%), Positives = 23/34 (67%)

Query: 458 KGLAPDVVSYSTIISGFSRSQELDKAFDTKREMV 491
           KGL PDVV+Y+T+I G  R+  +D+A +   EM 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 42.8 bits (102), Expect = 8e-06
 Identities = 14/31 (45%), Positives = 19/31 (61%)

Query: 535 FTYTTLINAYCTEGDIPQALRLHDEMIQKGF 565
            TY +LI+ YC  G + +AL L  EM +KG 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 42.4 bits (101), Expect = 1e-05
 Identities = 14/34 (41%), Positives = 20/34 (58%)

Query: 396 TYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSI 429
           TY TLI+G  + G ++EA  L  EM + 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 42.4 bits (101), Expect = 1e-05
 Identities = 14/35 (40%), Positives = 18/35 (51%)

Query: 220 YTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANV 254
            TYN LI G C  G +E  L  F EM++     +V
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

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

 Score = 42.4 bits (101), Expect = 1e-05
 Identities = 14/35 (40%), Positives = 24/35 (68%)

Query: 290 ISYNVIINGLCKEGRLKETKGILNEISRKGLVPDE 324
           ++YN +I+GLCK GR++E   +  E+  +G+ 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 42.1 bits (100), Expect = 2e-05
 Identities = 12/32 (37%), Positives = 19/32 (59%)

Query: 656 VYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVP 687
            Y+ +I G  K G V++A +L+K+M   G  P
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

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

 Score = 41.3 bits (98), Expect = 3e-05
 Identities = 12/35 (34%), Positives = 24/35 (68%)

Query: 465 VSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDT 499
           V+Y+T+I G  ++  +++A +  +EM E+G+ 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|144943 pfam01535, PPR, PPR repeat

 Score = 41.3 bits (98), Expect = 3e-05
 Identities = 15/31 (48%), Positives = 23/31 (74%)

Query: 500 ITYSSLIHGLCEQRRITEACELFQEMLSRGM 530
           +TY+SLI G C+  ++ EA ELF+EM  +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|144943 pfam01535, PPR, PPR repeat

 Score = 40.9 bits (97), Expect = 4e-05
 Identities = 14/31 (45%), Positives = 17/31 (54%)

Query: 220 YTYNVLIRGFCGVGDLEMGLRFFSEMEKNNC 250
            TYN LI G+C  G LE  L  F EM++   
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|144943 pfam01535, PPR, PPR repeat

 Score = 40.1 bits (95), Expect = 6e-05
 Identities = 14/31 (45%), Positives = 20/31 (64%)

Query: 360 VTYTSLINSMCKSGNLNRAMEFFDQMHVREL 390
           VTY SLI+  CK+G L  A+E F +M  + +
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 38.5 bits (91), Expect = 2e-04
 Identities = 17/30 (56%), Positives = 21/30 (70%)

Query: 563 KGFLPDVVTYSVLINGLNKQARTMEAKKLL 592
           KG  PDVVTY+ LI+GL +  R  EA +LL
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELL 30

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

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

 Score = 39.0 bits (92), Expect = 2e-04
 Identities = 14/31 (45%), Positives = 22/31 (70%)

Query: 430 VTYNALIKGHCTGGRVEDAVGVLHGMARKGL 460
           VTYN+LI G+C  G++E+A+ +   M  KG+
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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 38.7 bits (91), Expect = 2e-04
 Identities = 14/34 (41%), Positives = 17/34 (50%)

Query: 324 EVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSP 357
             TYN LL    K G+   AL +  EM  +GL P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 37.0 bits (87), Expect = 8e-04
 Identities = 12/31 (38%), Positives = 21/31 (67%)

Query: 290 ISYNVIINGLCKEGRLKETKGILNEISRKGL 320
           ++YN +I+G CK G+L+E   +  E+  KG+
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|144943 pfam01535, PPR, PPR repeat

 Score = 36.7 bits (86), Expect = 0.001
 Identities = 13/31 (41%), Positives = 25/31 (80%)

Query: 465 VSYSTIISGFSRSQELDKAFDTKREMVEKGV 495
           V+Y+++ISG+ ++ +L++A +  +EM EKGV
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|144943 pfam01535, PPR, PPR repeat

 Score = 36.7 bits (86), Expect = 0.001
 Identities = 10/30 (33%), Positives = 19/30 (63%)

Query: 656 VYDIIIHGHSKVGNVQKAYDLYKKMVRSGF 685
            Y+ +I G+ K G +++A +L+K+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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 36.4 bits (85), Expect = 0.001
 Identities = 11/32 (34%), Positives = 16/32 (50%)

Query: 396 TYTTLINGFSQHGFLDEAYRLLNEMTKNGFMP 427
           TY  L+   ++ G  D A  +L EM  +G  P
Sbjct: 3   TYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 36.4 bits (85), Expect = 0.001
 Identities = 9/34 (26%), Positives = 21/34 (61%)

Query: 359 VVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRP 392
           + TY +L+ ++ K+G+ + A+   ++M    L+P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 41.4 bits (95), Expect = 0.001
 Identities = 38/216 (17%), Positives = 71/216 (32%), Gaps = 4/216 (1%)

Query: 236 EMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLI-SYNV 294
           E        +E             L     KLGR+++A +LL       + PNL  +   
Sbjct: 41  EALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLN 100

Query: 295 IINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNG 354
           +   L   G+ +E   +L +       PD       L    + G+  +AL L+ + +   
Sbjct: 101 LGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELD 160

Query: 355 --LSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDE 412
             L+       +L   +   G    A+E  ++        + +    L   + + G  +E
Sbjct: 161 PELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEE 220

Query: 413 AYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDA 448
           A     +  +     +      L       GR E+A
Sbjct: 221 ALEYYEKALEL-DPDNAEALYNLALLLLELGRYEEA 255

Length = 291

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 36.0 bits (84), Expect = 0.002
 Identities = 12/34 (35%), Positives = 15/34 (44%)

Query: 534 EFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLP 567
             TY  L+ A    GD   AL + +EM   G  P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 40.6 bits (93), Expect = 0.002
 Identities = 28/165 (16%), Positives = 55/165 (33%), Gaps = 3/165 (1%)

Query: 257 YNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEI- 315
              L      LG+ ++A +LL        +P+L    + +  L + G  +E   +  +  
Sbjct: 98  LLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKAL 157

Query: 316 -SRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGN 374
                L         L       G   +AL L  + ++     +     +L     K G 
Sbjct: 158 ELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGK 217

Query: 375 LNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNE 419
              A+E++++        N +    L     + G  +EA   L +
Sbjct: 218 YEEALEYYEKAL-ELDPDNAEALYNLALLLLELGRYEEALEALEK 261

Length = 291

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

 Score = 35.4 bits (83), Expect = 0.003
 Identities = 13/45 (28%), Positives = 17/45 (37%), Gaps = 15/45 (33%)

Query: 601 VPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELM 645
            P  V YNTLI                G C  G ++EA  + + M
Sbjct: 4   KPDVVTYNTLI---------------DGLCRAGRVDEAVELLDEM 33

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	766
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.98
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.95
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.92
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.91
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.91
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.91
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.89
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.89
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.89
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.88
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.85
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.85
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.84
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.84
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.84
PRK14574	822	hmsH outer membrane protein; Provisional	99.84
PRK14574	822	hmsH outer membrane protein; Provisional	99.81
KOG2076	895	consensus RNA polymerase III transcription factor	99.81
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.8
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.79
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.77
KOG2076	895	consensus RNA polymerase III transcription factor	99.76
KOG2003	840	consensus TPR repeat-containing protein [General f	99.74
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.74
KOG2003	840	consensus TPR repeat-containing protein [General f	99.72
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.69
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.64
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.64
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.61
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.61
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.61
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.6
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.59
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.58
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.58
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.57
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.57
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.55
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.55
KOG1126	638	consensus DNA-binding cell division cycle control	99.54
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.54
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.54
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.53
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.53
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.53
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.52
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.51
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.5
KOG1126	638	consensus DNA-binding cell division cycle control	99.47
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.46
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.46
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.45
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.44
KOG1129	478	consensus TPR repeat-containing protein [General f	99.42
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.42
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.41
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.33
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.33
PRK12370	553	invasion protein regulator; Provisional	99.31
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.31
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.3
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.3
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.29
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.28
PF13041	50	PPR_2: PPR repeat family	99.28
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.28
PF13041	50	PPR_2: PPR repeat family	99.27
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.26
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.26
PRK12370	553	invasion protein regulator; Provisional	99.25
PRK11189	296	lipoprotein NlpI; Provisional	99.21
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.21
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.18
KOG1129	478	consensus TPR repeat-containing protein [General f	99.16
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.12
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.12
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.11
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.1
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.08
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.07
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.06
PRK11189	296	lipoprotein NlpI; Provisional	99.04
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.99
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.99
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.98
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.98
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.97
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.93
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.93
PRK04841	903	transcriptional regulator MalT; Provisional	98.89
PRK04841	903	transcriptional regulator MalT; Provisional	98.88
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.87
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.87
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.84
KOG1125	579	consensus TPR repeat-containing protein [General f	98.82
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.82
KOG1125	579	consensus TPR repeat-containing protein [General f	98.79
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.74
PF12854	34	PPR_1: PPR repeat	98.73
PF12854	34	PPR_1: PPR repeat	98.7
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.68
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.68
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.66
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.63
PLN02789	320	farnesyltranstransferase	98.61
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.61
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.59
PLN02789	320	farnesyltranstransferase	98.5
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.5
PRK15359	144	type III secretion system chaperone protein SscB;	98.49
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.49
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.47
PRK15359	144	type III secretion system chaperone protein SscB;	98.46
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.44
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.43
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.42
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.4
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.39
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.35
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.3
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.3
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.26
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.25
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.23
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.22
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.2
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.2
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.11
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.08
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	98.04
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.98
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.97
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.95
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.93
KOG0553	304	consensus TPR repeat-containing protein [General f	97.92
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.91
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.9
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.9
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.82
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.8
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.79
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.75
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.74
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.7
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.69
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.67
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.66
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.66
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.65
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.63
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.62
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.61
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.6
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.59
PF12688	120	TPR_5: Tetratrico peptide repeat	97.59
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.58
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.58
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.58
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.57
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.56
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.56
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.54
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.52
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.5
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.49
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.47
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.47
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.47
KOG0553	304	consensus TPR repeat-containing protein [General f	97.44
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.38
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.36
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.36
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.35
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.35
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.35
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.35
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.33
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.32
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.25
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.22
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.21
PRK10803	263	tol-pal system protein YbgF; Provisional	97.2
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.16
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.14
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.13
PF12688	120	TPR_5: Tetratrico peptide repeat	97.1
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.1
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.09
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.03
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.02
PRK15331	165	chaperone protein SicA; Provisional	96.98
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.91
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.85
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.8
PRK10803	263	tol-pal system protein YbgF; Provisional	96.76
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.75
PF13371	73	TPR_9: Tetratricopeptide repeat	96.74
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.68
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.68
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.62
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.62
PRK11906	458	transcriptional regulator; Provisional	96.58
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.57
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.55
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.51
PF13371	73	TPR_9: Tetratricopeptide repeat	96.45
PRK15331	165	chaperone protein SicA; Provisional	96.42
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.38
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.38
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.32
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.3
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.28
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.18
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.08
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	96.04
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.02
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.0
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.97
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.87
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.86
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.83
KOG4555	175	consensus TPR repeat-containing protein [Function	95.82
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.71
PRK11906	458	transcriptional regulator; Provisional	95.71
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.7
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.63
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.6
KOG4555	175	consensus TPR repeat-containing protein [Function	95.57
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.54
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.51
PF13428	44	TPR_14: Tetratricopeptide repeat	95.49
KOG1585	308	consensus Protein required for fusion of vesicles	95.4
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.39
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.36
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.33
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.29
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.28
KOG1585	308	consensus Protein required for fusion of vesicles	95.23
KOG1258	577	consensus mRNA processing protein [RNA processing	95.21
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.2
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.14
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.02
PF13431	34	TPR_17: Tetratricopeptide repeat	95.0
PF13512	142	TPR_18: Tetratricopeptide repeat	94.84
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.78
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.64
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.63
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.58
KOG2796	366	consensus Uncharacterized conserved protein [Funct	94.52
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.44
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.42
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.41
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	94.37
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.23
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	94.19
KOG3941	406	consensus Intermediate in Toll signal transduction	94.17
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.1
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.04
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.03
KOG1550	552	consensus Extracellular protein SEL-1 and related	93.88
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	93.69
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.64
PF13512	142	TPR_18: Tetratricopeptide repeat	93.46
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.41
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.31
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.31
KOG1586	288	consensus Protein required for fusion of vesicles	93.04
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.02
KOG1550	552	consensus Extracellular protein SEL-1 and related	92.9
KOG3941	406	consensus Intermediate in Toll signal transduction	92.8
KOG4234	271	consensus TPR repeat-containing protein [General f	92.54
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	92.29
KOG1258	577	consensus mRNA processing protein [RNA processing	92.11
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	91.91
PF13428	44	TPR_14: Tetratricopeptide repeat	91.88
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	91.81
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.78
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.68
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.3
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	91.2
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.12
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	91.06
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	91.01
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	90.98
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	90.78
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.7
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.53
PF13431	34	TPR_17: Tetratricopeptide repeat	90.21
COG0790	292	FOG: TPR repeat, SEL1 subfamily [General function	90.1
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	90.06
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	90.0
KOG4234	271	consensus TPR repeat-containing protein [General f	89.8
COG3629	280	DnrI DNA-binding transcriptional activator of the	89.7
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	89.34
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	89.1
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	88.89
COG3947	361	Response regulator containing CheY-like receiver a	88.81
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	88.45
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	87.51
KOG4648	536	consensus Uncharacterized conserved protein, conta	87.31
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	86.8
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	86.5
PRK09687	280	putative lyase; Provisional	86.44
KOG4570	418	consensus Uncharacterized conserved protein [Funct	86.31
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	86.12
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	85.9
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	85.89
KOG2471	696	consensus TPR repeat-containing protein [General f	85.85
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	85.73
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	85.71
KOG2062	929	consensus 26S proteasome regulatory complex, subun	85.68
KOG4648	536	consensus Uncharacterized conserved protein, conta	85.66
KOG4570	418	consensus Uncharacterized conserved protein [Funct	85.18
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	84.78
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	84.58
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	83.97
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	82.63
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	82.23
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	81.6
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	81.6
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	81.07
KOG2297	412	consensus Predicted translation factor, contains W	80.99
PRK09687	280	putative lyase; Provisional	80.97
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	80.64
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	80.21
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	80.2
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	80.13
COG5159	421	RPN6 26S proteasome regulatory complex component [	80.02

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.2e-81  Score=730.81  Aligned_cols=655  Identities=19%  Similarity=0.277  Sum_probs=598.8

Q ss_pred             cCCChhHHHHHHHhhcCCCCCCCc--hhHHHHHHHHhCCCchHHHHHHHHHHHhCCCCChhhHHHHHHHhcccCCC----
Q 004244           69 TQSDQTLTLKFLKWAQPQPFFTPK--LKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDS----  142 (766)
Q Consensus        69 ~~~~~~~al~ff~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~----  142 (766)
                      ..+++..|+.+|......+ +.|+  ....++....+.+.+..+..+...++..+... ...+.+.+...+..++.    
T Consensus        63 ~~g~~~~A~~l~~~m~~~g-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~n~li~~~~~~g~~~~A  140 (857)
T PLN03077         63 SHGQLEQALKLLESMQELR-VPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSL-GVRLGNAMLSMFVRFGELVHA  140 (857)
T ss_pred             hCCCHHHHHHHHHHHHhcC-CCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCC-CchHHHHHHHHHHhCCChHHH
Confidence            3567999999999887643 3333  33445666777788888888888777666543 23455666665544432    


Q ss_pred             --------CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCC
Q 004244          143 --------TSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSR  214 (766)
Q Consensus       143 --------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g  214 (766)
                              .++..+|+.+|.+|++.|++++|+.+|++|...|+.||.++|+.++.+|++.+.   +..+.+++..|.+.|
T Consensus       141 ~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~---~~~~~~~~~~~~~~g  217 (857)
T PLN03077        141 WYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPD---LARGREVHAHVVRFG  217 (857)
T ss_pred             HHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccc---hhhHHHHHHHHHHcC
Confidence                    135568999999999999999999999999999999999999999999988773   388999999999999


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHH
Q 004244          215 VSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNV  294 (766)
Q Consensus       215 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~  294 (766)
                      +.||..+||++|.+|++.|+++.|.++|++|.+    ||+++||++|.+|++.|++++|+++|++|...|+.||..||+.
T Consensus       218 ~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~  293 (857)
T PLN03077        218 FELDVDVVNALITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITS  293 (857)
T ss_pred             CCcccchHhHHHHHHhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHH
Confidence            999999999999999999999999999999974    6889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCC
Q 004244          295 IINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGN  374 (766)
Q Consensus       295 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  374 (766)
                      ++.++++.|+.+.|.+++..|.+.|+.||..+|++|+.+|++.|++++|.++|++|.    .||..+|+++|.+|++.|+
T Consensus       294 ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~  369 (857)
T PLN03077        294 VISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGL  369 (857)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCC
Confidence            999999999999999999999999999999999999999999999999999999986    4689999999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004244          375 LNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHG  454 (766)
Q Consensus       375 ~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~  454 (766)
                      +++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|.+.|+.|+..+|+.|+++|++.|++++|.++|++
T Consensus       370 ~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~  449 (857)
T PLN03077        370 PDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHN  449 (857)
T ss_pred             HHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 004244          455 MARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDE  534 (766)
Q Consensus       455 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  534 (766)
                      |.+    +|..+|+.+|.+|++.|+.++|+.+|++|.. ++.||..||+.++.+|++.|+.+.+.+++..+.+.|+.+|.
T Consensus       450 m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~  524 (857)
T PLN03077        450 IPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDG  524 (857)
T ss_pred             CCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccc
Confidence            865    5888999999999999999999999999986 68999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhh
Q 004244          535 FTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENC  614 (766)
Q Consensus       535 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~  614 (766)
                      .++++|+.+|++.|++++|.++|+++     .||..+|+++|.+|++.|+.++|.++|++|.+.|+.||..||+.++   
T Consensus       525 ~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll---  596 (857)
T PLN03077        525 FLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLL---  596 (857)
T ss_pred             eechHHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHH---
Confidence            99999999999999999999999887     5799999999999999999999999999999999999999999999   


Q ss_pred             chhhhhhHHHHHhhhhhcCCHHHHHHHHHHHH-hCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHH
Q 004244          615 TNIEFQNVAALLKGFCMKGLMNEADRVFELML-QRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTII  693 (766)
Q Consensus       615 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  693 (766)
                                  .+|++.|++++|.++|+.|. +.|+.|+..+|+.++++|++.|++++|.+++++|   ++.||..+|.
T Consensus       597 ------------~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m---~~~pd~~~~~  661 (857)
T PLN03077        597 ------------CACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPAVWG  661 (857)
T ss_pred             ------------HHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHC---CCCCCHHHHH
Confidence                        89999999999999999999 7899999999999999999999999999999999   4789999999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCCCCCCCC
Q 004244          694 VLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLPNSGRSTYG  765 (766)
Q Consensus       694 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~  765 (766)
                      +|+.+|...|+.+.|....+++++.. |.+...|..|.+.|...|+|++|.++++.|.++|++|++|+||+.
T Consensus       662 aLl~ac~~~~~~e~~e~~a~~l~~l~-p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie  732 (857)
T PLN03077        662 ALLNACRIHRHVELGELAAQHIFELD-PNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVE  732 (857)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHhhC-CCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEE
Confidence            99999999999999999999999987 677888999999999999999999999999999999999999973

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.2e-75  Score=680.50  Aligned_cols=617  Identities=20%  Similarity=0.274  Sum_probs=573.9

Q ss_pred             hhHHHHHHHHhCCCchHHHHHHHHHHHhCCCCChhhHHHHHHHhcc----------------cCCCCCcHHHHHHHHHHH
Q 004244           93 LKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYH----------------LCDSTSSSAVIDLVVKSY  156 (766)
Q Consensus        93 ~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~----------------~~~~~~~~~~~~~l~~~~  156 (766)
                      ....++..+.+.+.+.+|..+...+...+..+... .+..+.....                ..+..++..+++.++..|
T Consensus        53 ~~n~~i~~l~~~g~~~~A~~l~~~m~~~g~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~  131 (857)
T PLN03077         53 DSNSQLRALCSHGQLEQALKLLESMQELRVPVDED-AYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMF  131 (857)
T ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCChh-HHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHH
Confidence            34456788899999999999988887754333221 1222211100                011223556889999999


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChh
Q 004244          157 SHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLE  236 (766)
Q Consensus       157 ~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  236 (766)
                      ++.|+++.|..+|+.|.    .||.++||.++.+|++.|+   +++|+++|++|...|+.||.+||+.++++|++.+++.
T Consensus       132 ~~~g~~~~A~~~f~~m~----~~d~~~~n~li~~~~~~g~---~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~  204 (857)
T PLN03077        132 VRFGELVHAWYVFGKMP----ERDLFSWNVLVGGYAKAGY---FDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLA  204 (857)
T ss_pred             HhCCChHHHHHHHhcCC----CCCeeEHHHHHHHHHhCCC---HHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchh
Confidence            99999999999999997    4899999999999999994   3999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q 004244          237 MGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEIS  316 (766)
Q Consensus       237 ~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  316 (766)
                      .+.+++..|.+.|+.||+.+||+||.+|++.|++++|.++|++|..    ||.++||++|.+|++.|++++|+++|++|.
T Consensus       205 ~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~~M~  280 (857)
T PLN03077        205 RGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMR  280 (857)
T ss_pred             hHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999974    799999999999999999999999999999


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhH
Q 004244          317 RKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKT  396 (766)
Q Consensus       317 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~  396 (766)
                      +.|+.||..||+.++.+|++.|+++.|.+++..|.+.|+.||..+|++|+.+|++.|++++|.++|++|.    .||.++
T Consensus       281 ~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s  356 (857)
T PLN03077        281 ELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVS  356 (857)
T ss_pred             HcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeee
Confidence            9999999999999999999999999999999999999999999999999999999999999999999996    469999


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 004244          397 YTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSR  476 (766)
Q Consensus       397 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  476 (766)
                      |+++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++++.+.+.|+.|+..+|+.||++|++
T Consensus       357 ~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k  436 (857)
T PLN03077        357 WTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSK  436 (857)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 004244          477 SQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRL  556 (766)
Q Consensus       477 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  556 (766)
                      .|++++|.++|++|.+    +|..+|+.+|.+|++.|+.++|..+|++|.. ++.||..||+.++.+|++.|+++.+.++
T Consensus       437 ~g~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i  511 (857)
T PLN03077        437 CKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEI  511 (857)
T ss_pred             cCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHH
Confidence            9999999999999975    5889999999999999999999999999986 5899999999999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHH
Q 004244          557 HDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMN  636 (766)
Q Consensus       557 ~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~  636 (766)
                      +..+.+.|+.+|..++++++++|++.|++++|.++|+++     .||..+|++++               .+|++.|+.+
T Consensus       512 ~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI---------------~~~~~~G~~~  571 (857)
T PLN03077        512 HAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILL---------------TGYVAHGKGS  571 (857)
T ss_pred             HHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHH---------------HHHHHcCCHH
Confidence            999999999999999999999999999999999999987     58999999999               9999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 004244          637 EADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMV-RSGFVPHTVTIIVLVKALHTAGMNEELSQVIENI  715 (766)
Q Consensus       637 ~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~-~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  715 (766)
                      +|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|++|. +.|+.|+..+|..++.++++.|+.++|.+++++|
T Consensus       572 ~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m  651 (857)
T PLN03077        572 MAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM  651 (857)
T ss_pred             HHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHC
Confidence            999999999999999999999999999999999999999999999 7899999999999999999999999999999988


Q ss_pred             HHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHC
Q 004244          716 LRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKD  753 (766)
Q Consensus       716 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  753 (766)
                      .   ..|+..+|..|+.++...|+.+.+....+++.+.
T Consensus       652 ~---~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l  686 (857)
T PLN03077        652 P---ITPDPAVWGALLNACRIHRHVELGELAAQHIFEL  686 (857)
T ss_pred             C---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhh
Confidence            3   4678999999999999999999999988888764

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=6.2e-72  Score=634.28  Aligned_cols=522  Identities=21%  Similarity=0.355  Sum_probs=480.3

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHH
Q 004244          145 SSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFM-PGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYN  223 (766)
Q Consensus       145 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~-~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~  223 (766)
                      +...+..++..+++.|++++|+++|+.|.+.|+. ++..+++.++.+|.+.|.   +++|+.+|+.|..    ||..+|+
T Consensus       369 ~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~---~~eAl~lf~~M~~----pd~~Tyn  441 (1060)
T PLN03218        369 KSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRA---VKEAFRFAKLIRN----PTLSTFN  441 (1060)
T ss_pred             CchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCC---HHHHHHHHHHcCC----CCHHHHH
Confidence            4556777888999999999999999999999864 677788889999998884   4999999999975    9999999


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcC
Q 004244          224 VLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEG  303 (766)
Q Consensus       224 ~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g  303 (766)
                      .++.+|++.|+++.|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|
T Consensus       442 ~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G  521 (1060)
T PLN03218        442 MLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAG  521 (1060)
T ss_pred             HHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH--CCCCCChHHHHHHHHHHHhcCCHHHHHHH
Q 004244          304 RLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVR--NGLSPNVVTYTSLINSMCKSGNLNRAMEF  381 (766)
Q Consensus       304 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~g~~~~~~~~~~li~~~~~~g~~~~A~~~  381 (766)
                      ++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+  .|+.||..+|+++|.+|++.|++++|.++
T Consensus       522 ~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~el  601 (1060)
T PLN03218        522 QVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEV  601 (1060)
T ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999999999999999999999999999999999999999986  67899999999999999999999999999


Q ss_pred             HHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 004244          382 FDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLA  461 (766)
Q Consensus       382 ~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~  461 (766)
                      |++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++++.|.+.|+.
T Consensus       602 f~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~  681 (1060)
T PLN03218        602 YQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIK  681 (1060)
T ss_pred             HHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004244          462 PDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLI  541 (766)
Q Consensus       462 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~  541 (766)
                      |+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.|+.||..+|+.++
T Consensus       682 pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL  761 (1060)
T PLN03218        682 LGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL  761 (1060)
T ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----c-------------------CCHHHHHHHHHHHHhC
Q 004244          542 NAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNK----Q-------------------ARTMEAKKLLLKLFYD  598 (766)
Q Consensus       542 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~----~-------------------g~~~~A~~l~~~~~~~  598 (766)
                      .+|++.|++++|.+++++|.+.|+.||..+|++++..+.+    .                   +..++|..+|++|.+.
T Consensus       762 ~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~  841 (1060)
T PLN03218        762 VASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISA  841 (1060)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHC
Confidence            9999999999999999999999999999999999865432    1                   1235677778888887


Q ss_pred             CCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHH
Q 004244          599 ESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYK  678 (766)
Q Consensus       599 ~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  678 (766)
                      |+.||..+|+.++               .++++.+..+.+..+++.|...+..|+..+|+++++++.+.  .++|+.+++
T Consensus       842 Gi~Pd~~T~~~vL---------------~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~  904 (1060)
T PLN03218        842 GTLPTMEVLSQVL---------------GCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLE  904 (1060)
T ss_pred             CCCCCHHHHHHHH---------------HHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHH
Confidence            8888888887777               56677777777777777777666677777888888776332  357888888


Q ss_pred             HHHHcCCCCCHH
Q 004244          679 KMVRSGFVPHTV  690 (766)
Q Consensus       679 ~m~~~~~~p~~~  690 (766)
                      +|...|+.|+..
T Consensus       905 em~~~Gi~p~~~  916 (1060)
T PLN03218        905 EAASLGVVPSVS  916 (1060)
T ss_pred             HHHHcCCCCCcc
Confidence            888777777763

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=7.2e-71  Score=625.58  Aligned_cols=524  Identities=20%  Similarity=0.294  Sum_probs=339.4

Q ss_pred             CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCC-CcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHH
Q 004244          216 SPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNC-LANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNV  294 (766)
Q Consensus       216 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~  294 (766)
                      .++...|..++..+++.|++++|+++|++|.+.|+ +++..+++.++.+|++.|.+++|+.+|+.|..    ||..+|+.
T Consensus       367 ~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~  442 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNM  442 (1060)
T ss_pred             CCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHH
Confidence            34555555555556666666666666666655553 34555555555566666666666666655543    55666666


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCC
Q 004244          295 IINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGN  374 (766)
Q Consensus       295 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  374 (766)
                      ++.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|+
T Consensus       443 LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~  522 (1060)
T PLN03218        443 LMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ  522 (1060)
T ss_pred             HHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcC
Confidence            66666666666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             HHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHH--CCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 004244          375 LNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTK--NGFMPSIVTYNALIKGHCTGGRVEDAVGVL  452 (766)
Q Consensus       375 ~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~--~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~  452 (766)
                      +++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+  .|+.||..+|+.++.+|++.|++++|.++|
T Consensus       523 ~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf  602 (1060)
T PLN03218        523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVY  602 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            666666666666666666666666666666666666666666666654  345566666666666666666666666666


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 004244          453 HGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSP  532 (766)
Q Consensus       453 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  532 (766)
                      +.|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.+.|+.|
T Consensus       603 ~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~p  682 (1060)
T PLN03218        603 QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL  682 (1060)
T ss_pred             HHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            66666666666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhh
Q 004244          533 DEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIE  612 (766)
Q Consensus       533 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~  612 (766)
                      |..+|+.|+.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|...|+.||..+|+.++ 
T Consensus       683 d~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL-  761 (1060)
T PLN03218        683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL-  761 (1060)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH-
Confidence            6666666666666666666666666666555556666666666666666666666666666665555666666666655 


Q ss_pred             hhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh-----------------------ccCC
Q 004244          613 NCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHS-----------------------KVGN  669 (766)
Q Consensus       613 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~-----------------------~~g~  669 (766)
                                    .+|++.|++++|.+++++|.+.|+.||..+|++++..|.                       ..+.
T Consensus       762 --------------~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w  827 (1060)
T PLN03218        762 --------------VASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKW  827 (1060)
T ss_pred             --------------HHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccch
Confidence                          555566666666666666666666666666655554322                       1223


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHH
Q 004244          670 VQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTE  749 (766)
Q Consensus       670 ~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  749 (766)
                      .++|+.+|++|++.|+.||..+|..++.++++.+..+.+...++.+...+..++..+|+.|++++++.  .++|..++++
T Consensus       828 ~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~e  905 (1060)
T PLN03218        828 TSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEE  905 (1060)
T ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHH
Confidence            47899999999999999999999999988889999999999999888777788899999999988542  3689999999


Q ss_pred             HHHCCCCCCCC
Q 004244          750 MAKDGLLPNSG  760 (766)
Q Consensus       750 m~~~~~~~~~~  760 (766)
                      |...|+.|+..
T Consensus       906 m~~~Gi~p~~~  916 (1060)
T PLN03218        906 AASLGVVPSVS  916 (1060)
T ss_pred             HHHcCCCCCcc
Confidence            99999999975

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

Probab=100.00  E-value=3.6e-65  Score=578.70  Aligned_cols=482  Identities=19%  Similarity=0.289  Sum_probs=380.2

Q ss_pred             CCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCC-CCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHH
Q 004244          217 PNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNN-CLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVI  295 (766)
Q Consensus       217 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~l  295 (766)
                      .+..+|+.+|.++.+.|++++|+++|+.|...+ +.||..+|+.++.+|++.++++.|.+++..|...|+.||..+||.+
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            344555555555555555555555555555432 4455555555555555555555555555555555555555555555


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCH
Q 004244          296 INGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNL  375 (766)
Q Consensus       296 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  375 (766)
                      +.+|++.|++++|.++|++|.+                                       ||..+|++++.+|++.|++
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~~---------------------------------------~~~~t~n~li~~~~~~g~~  205 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMPE---------------------------------------RNLASWGTIIGGLVDAGNY  205 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCC---------------------------------------CCeeeHHHHHHHHHHCcCH
Confidence            5555555555555444444432                                       4555666666666666666


Q ss_pred             HHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004244          376 NRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGM  455 (766)
Q Consensus       376 ~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~  455 (766)
                      ++|.++|++|.+.|+.|+..+|+.++.++++.|..+.+.+++..+.+.|+.||..+|+.|+++|++.|++++|.++|+.|
T Consensus       206 ~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m  285 (697)
T PLN03081        206 REAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM  285 (697)
T ss_pred             HHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            66666666666666666666666666666666666666666666666666667777777777777777777777777766


Q ss_pred             HHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 004244          456 ARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEF  535 (766)
Q Consensus       456 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  535 (766)
                      .+    +|..+||.+|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.||..
T Consensus       286 ~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~  361 (697)
T PLN03081        286 PE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIV  361 (697)
T ss_pred             CC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCee
Confidence            43    47888888888899999999999999999888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhc
Q 004244          536 TYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCT  615 (766)
Q Consensus       536 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~  615 (766)
                      +|++|+++|++.|++++|.++|++|.    .||..+|+++|.+|++.|+.++|.++|++|.+.|+.||..||++++    
T Consensus       362 ~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll----  433 (697)
T PLN03081        362 ANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVL----  433 (697)
T ss_pred             ehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHH----
Confidence            99999999999999999999999986    4688999999999999999999999999999999999999999999    


Q ss_pred             hhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 004244          616 NIEFQNVAALLKGFCMKGLMNEADRVFELMLQ-RNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIV  694 (766)
Q Consensus       616 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  694 (766)
                                 .+|++.|++++|.++|+.|.+ .|+.|+..+|+.++++|++.|++++|.+++++|   ++.|+..+|..
T Consensus       434 -----------~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~  499 (697)
T PLN03081        434 -----------SACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAA  499 (697)
T ss_pred             -----------HHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHH
Confidence                       899999999999999999985 689999999999999999999999999999887   68899999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCCCCCCC
Q 004244          695 LVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLPNSGRSTY  764 (766)
Q Consensus       695 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  764 (766)
                      ++.+|...|+.+.|..+++++.+.+ |.+...|..|++.|++.|+|++|.+++++|.++|+.+.+|++|+
T Consensus       500 Ll~a~~~~g~~~~a~~~~~~l~~~~-p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i  568 (697)
T PLN03081        500 LLTACRIHKNLELGRLAAEKLYGMG-PEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWI  568 (697)
T ss_pred             HHHHHHHcCCcHHHHHHHHHHhCCC-CCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEE
Confidence            9999999999999999999998877 55677899999999999999999999999999999999999996

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

Probab=100.00  E-value=3e-64  Score=571.20  Aligned_cols=476  Identities=20%  Similarity=0.326  Sum_probs=449.3

Q ss_pred             CCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCC-CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHH
Q 004244          178 MPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSR-VSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVT  256 (766)
Q Consensus       178 ~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~  256 (766)
                      .++..+|+.++.++.+.|+   +++|+++|+.|...+ +.||..+|+.++.+|++.++++.|.+++..|.+.|+.||+.+
T Consensus        84 ~~~~~~~~~~i~~l~~~g~---~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~  160 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGR---HREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYM  160 (697)
T ss_pred             CCCceeHHHHHHHHHcCCC---HHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHH
Confidence            4567789999999999884   389999999998754 789999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004244          257 YNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCK  336 (766)
Q Consensus       257 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  336 (766)
                      ||.++++|++.|++++|.++|++|.+    ||.++||.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++
T Consensus       161 ~n~Li~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~  236 (697)
T PLN03081        161 MNRVLLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAG  236 (697)
T ss_pred             HHHHHHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhc
Confidence            99999999999999999999999974    79999999999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHH
Q 004244          337 EGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRL  416 (766)
Q Consensus       337 ~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l  416 (766)
                      .|..+.+.+++..+.+.|+.||..+|++|+.+|+++|++++|.++|++|..    +|.++||+++.+|++.|+.++|.++
T Consensus       237 ~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~l  312 (697)
T PLN03081        237 LGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCL  312 (697)
T ss_pred             CCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHH
Confidence            999999999999999999999999999999999999999999999999964    5999999999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC
Q 004244          417 LNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVL  496 (766)
Q Consensus       417 ~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  496 (766)
                      |++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.||..+|++|+++|++.|++++|.++|++|.+    
T Consensus       313 f~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----  388 (697)
T PLN03081        313 YYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----  388 (697)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999964    


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-CCCCCCHHHHHHH
Q 004244          497 PDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQ-KGFLPDVVTYSVL  575 (766)
Q Consensus       497 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~g~~p~~~~~~~l  575 (766)
                      ||..+|+.||.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.+ .|+.|+..+|+++
T Consensus       389 ~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~l  468 (697)
T PLN03081        389 KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACM  468 (697)
T ss_pred             CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhH
Confidence            689999999999999999999999999999999999999999999999999999999999999986 5999999999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CH
Q 004244          576 INGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NE  654 (766)
Q Consensus       576 i~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~  654 (766)
                      +++|++.|++++|.+++++|   +..|+..+|++++               .+|+..|+++.|..+++++.+  ..| +.
T Consensus       469 i~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll---------------~a~~~~g~~~~a~~~~~~l~~--~~p~~~  528 (697)
T PLN03081        469 IELLGREGLLDEAYAMIRRA---PFKPTVNMWAALL---------------TACRIHKNLELGRLAAEKLYG--MGPEKL  528 (697)
T ss_pred             HHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHH---------------HHHHHcCCcHHHHHHHHHHhC--CCCCCC
Confidence            99999999999999999876   4789999999999               899999999999999999976  446 57


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC
Q 004244          655 AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH  688 (766)
Q Consensus       655 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~  688 (766)
                      .+|+.++..|++.|++++|.+++++|.+.|+.+.
T Consensus       529 ~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~  562 (697)
T PLN03081        529 NNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMH  562 (697)
T ss_pred             cchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccC
Confidence            8999999999999999999999999999997643

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

Probab=100.00  E-value=3.6e-36  Score=358.70  Aligned_cols=643  Identities=14%  Similarity=0.100  Sum_probs=522.7

Q ss_pred             cCCChhHHHHHHHhhcCCCCCCCchhHHHHHHHHhCCCchHHHHHHHHHHHhCCCCChh------------------hHH
Q 004244           69 TQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGN------------------FVF  130 (766)
Q Consensus        69 ~~~~~~~al~ff~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~------------------~~~  130 (766)
                      ..++.+.|...|..+.+...-.+........+....+.++.|....+..+...+.....                  ..+
T Consensus       239 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~  318 (899)
T TIGR02917       239 EAGEFEEAEKHADALLKKAPNSPLAHYLKALVDFQKKNYEDARETLQDALKSAPEYLPALLLAGASEYQLGNLEQAYQYL  318 (899)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHcCCHHHHHHHH
Confidence            45788889998887765433333333344455566788888888877766655432211                  111


Q ss_pred             HHHHHhcccCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHH
Q 004244          131 SCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEM  210 (766)
Q Consensus       131 ~~l~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m  210 (766)
                      .....   .  .+.+...+..+...+.+.|++++|...++.+...+ ..+...++.+...+.+.|+   +++|.++|+++
T Consensus       319 ~~~~~---~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~  389 (899)
T TIGR02917       319 NQILK---Y--APNSHQARRLLASIQLRLGRVDEAIATLSPALGLD-PDDPAALSLLGEAYLALGD---FEKAAEYLAKA  389 (899)
T ss_pred             HHHHH---h--CCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCCC---HHHHHHHHHHH
Confidence            11111   1  12245667788889999999999999999887654 3456778888888888884   38999999998


Q ss_pred             hhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHH
Q 004244          211 GKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLI  290 (766)
Q Consensus       211 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~  290 (766)
                      .+.. +.+...+..+...+...|++++|.+.|+.+.+.. +.+......++..+.+.|++++|.++++++.... +++..
T Consensus       390 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  466 (899)
T TIGR02917       390 TELD-PENAAARTQLGISKLSQGDPSEAIADLETAAQLD-PELGRADLLLILSYLRSGQFDKALAAAKKLEKKQ-PDNAS  466 (899)
T ss_pred             HhcC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhC-CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCcH
Confidence            8764 4567778888888999999999999999998765 2344566778888999999999999999997653 45678


Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHH
Q 004244          291 SYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMC  370 (766)
Q Consensus       291 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~  370 (766)
                      +|..+...+...|++++|.+.|+++.+... .+...+..+...+...|++++|.+.++++.+.+ +.+..++..+...+.
T Consensus       467 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  544 (899)
T TIGR02917       467 LHNLLGAIYLGKGDLAKAREAFEKALSIEP-DFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYL  544 (899)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHhhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHH
Confidence            899999999999999999999999987542 345677778888999999999999999998864 347888899999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004244          371 KSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVG  450 (766)
Q Consensus       371 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~  450 (766)
                      +.|+.++|..+++++...+ +.+...+..++..+...|++++|..+++.+.+.. +.+..+|..+...+...|++++|..
T Consensus       545 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  622 (899)
T TIGR02917       545 RTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVS  622 (899)
T ss_pred             HcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999999998774 3467788889999999999999999999998764 5577889999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004244          451 VLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGM  530 (766)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  530 (766)
                      .++.+.+... .+...+..+...+.+.|++++|...++++.+... .+..++..++..+...|++++|.++++.+.+.+ 
T Consensus       623 ~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-  699 (899)
T TIGR02917       623 SFKKLLALQP-DSALALLLLADAYAVMKNYAKAITSLKRALELKP-DNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-  699 (899)
T ss_pred             HHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-
Confidence            9999988643 3677888899999999999999999999987643 367889999999999999999999999998875 


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHH
Q 004244          531 SPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTL  610 (766)
Q Consensus       531 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~l  610 (766)
                      +.+...+..+...+.+.|++++|.+.++.+...  .|+..++..++.++.+.|++++|.+.+++++.. .+.+...+..+
T Consensus       700 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~l  776 (899)
T TIGR02917       700 PKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLKT-HPNDAVLRTAL  776 (899)
T ss_pred             cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHH
Confidence            667778888999999999999999999999886  455577788899999999999999999999875 23345555555


Q ss_pred             hhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHH
Q 004244          611 IENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTV  690 (766)
Q Consensus       611 l~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  690 (766)
                      .               ..|...|++++|...|+++.+.. +++..+++.++..+...|+ ++|+++++++.+.. +-+..
T Consensus       777 a---------------~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~-~~~~~  838 (899)
T TIGR02917       777 A---------------ELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA-PNIPA  838 (899)
T ss_pred             H---------------HHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC-CCCcH
Confidence            5               78999999999999999999864 3478899999999999999 88999999998642 23346


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          691 TIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       691 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      .+..++..+...|++++|..+++++++.+ +.+..++..++.++.+.|++++|.+++++|++
T Consensus       839 ~~~~~~~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  899 (899)
T TIGR02917       839 ILDTLGWLLVEKGEADRALPLLRKAVNIA-PEAAAIRYHLALALLATGRKAEARKELDKLLN  899 (899)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHhC
Confidence            77788999999999999999999999998 45888999999999999999999999999863

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=2e-35  Score=352.28  Aligned_cols=650  Identities=14%  Similarity=0.097  Sum_probs=508.8

Q ss_pred             cCCChhHHHHHHHhhcCCCCCCCchhHHHHHHHHhCCCchHHHHHHHHHHHhCCCCChhhHHHHH---------------
Q 004244           69 TQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCL---------------  133 (766)
Q Consensus        69 ~~~~~~~al~ff~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l---------------  133 (766)
                      ..++...|+..|..+.....-.+........++...+.++.|...++.+....+.......+...               
T Consensus       205 ~~g~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  284 (899)
T TIGR02917       205 SLGNIELALAAYRKAIALRPNNPAVLLALATILIEAGEFEEAEKHADALLKKAPNSPLAHYLKALVDFQKKNYEDARETL  284 (899)
T ss_pred             hcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCHHHHHHHH
Confidence            35567777777766654322223333344566677777888877777766554433211111110               


Q ss_pred             HHhcccCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhC
Q 004244          134 KETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKS  213 (766)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~  213 (766)
                      .......  +.....+..+...+...|++++|...|+.+.... ..+...+..+...+.+.|+   +++|.+.++.+...
T Consensus       285 ~~~l~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~---~~~A~~~~~~~~~~  358 (899)
T TIGR02917       285 QDALKSA--PEYLPALLLAGASEYQLGNLEQAYQYLNQILKYA-PNSHQARRLLASIQLRLGR---VDEAIATLSPALGL  358 (899)
T ss_pred             HHHHHhC--CCchhHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCC---HHHHHHHHHHHHhc
Confidence            0111111  1122334455667778888888888888877653 2345556667777777774   38888888888765


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHH
Q 004244          214 RVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYN  293 (766)
Q Consensus       214 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~  293 (766)
                      . +.+...+..+...+.+.|++++|.++|+++.+.. +.+...+..+...+...|++++|.+.++++...... +.....
T Consensus       359 ~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~  435 (899)
T TIGR02917       359 D-PDDPAALSLLGEAYLALGDFEKAAEYLAKATELD-PENAAARTQLGISKLSQGDPSEAIADLETAAQLDPE-LGRADL  435 (899)
T ss_pred             C-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCc-chhhHH
Confidence            4 5567788888888889999999999999888764 346677788888888889999999999888765422 344556


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcC
Q 004244          294 VIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSG  373 (766)
Q Consensus       294 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g  373 (766)
                      .++..+.+.|++++|.++++++.+.. +++..++..+...+...|++++|.+.|+++.+.. +.+...+..++..+...|
T Consensus       436 ~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g  513 (899)
T TIGR02917       436 LLILSYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEG  513 (899)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCC
Confidence            67788888999999999999888753 3467788888899999999999999999988753 346677888888999999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004244          374 NLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLH  453 (766)
Q Consensus       374 ~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~  453 (766)
                      ++++|.+.|+++.+.. +.+..++..+...+.+.|+.++|...++++.+.+ +.+...+..++..+...|++++|..+++
T Consensus       514 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  591 (899)
T TIGR02917       514 NPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILN  591 (899)
T ss_pred             CHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999998764 3367888889999999999999999999988764 4466778888899999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 004244          454 GMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPD  533 (766)
Q Consensus       454 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  533 (766)
                      .+.+.. +.+...|..+...|.+.|++++|...++++.+... .+...+..+...+...|++++|...++++.+.. +.+
T Consensus       592 ~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~  668 (899)
T TIGR02917       592 EAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQP-DSALALLLLADAYAVMKNYAKAITSLKRALELK-PDN  668 (899)
T ss_pred             HHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCC
Confidence            988764 34778899999999999999999999999987643 367778888999999999999999999998864 556


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhh
Q 004244          534 EFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIEN  613 (766)
Q Consensus       534 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~  613 (766)
                      ..++..++..+...|++++|.++++.+.+.+ +.+...+..+...+...|++++|.+.++++...  .|+..++..+.  
T Consensus       669 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~--  743 (899)
T TIGR02917       669 TEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLH--  743 (899)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHH--
Confidence            7888899999999999999999999998774 567778888888999999999999999999875  34445555555  


Q ss_pred             hchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHH
Q 004244          614 CTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTII  693 (766)
Q Consensus       614 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  693 (766)
                                   ..+.+.|++++|.+.++++.+.. +.+...+..++..|...|++++|.+.|+++++.. +++..++.
T Consensus       744 -------------~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~  808 (899)
T TIGR02917       744 -------------RALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLN  808 (899)
T ss_pred             -------------HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence                         78999999999999999999853 3478889999999999999999999999999764 45678889


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCC
Q 004244          694 VLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLL  756 (766)
Q Consensus       694 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  756 (766)
                      .++..+...|+ ++|+.+++++++.. +.+...+..++.++...|++++|.++++++.+.+..
T Consensus       809 ~l~~~~~~~~~-~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~  869 (899)
T TIGR02917       809 NLAWLYLELKD-PRALEYAEKALKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE  869 (899)
T ss_pred             HHHHHHHhcCc-HHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            99999999999 88999999999987 566777888999999999999999999999998764

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=6.1e-27  Score=279.17  Aligned_cols=649  Identities=13%  Similarity=0.070  Sum_probs=466.6

Q ss_pred             cCCChhHHHHHHHhhcCCCCCCCchhHHHHHHHHhCCCchHHHHHHHHHHHhCCCCChhhHHHHHHHhcccCCCCCcHHH
Q 004244           69 TQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDSTSSSAV  148 (766)
Q Consensus        69 ~~~~~~~al~ff~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  148 (766)
                      ..++++.|.+.+.-+..-..=+|........++.+.+.++.|...++.+....|.......+......     ..+....
T Consensus        40 ~~~~~d~a~~~l~kl~~~~p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~~-----~~~~~~~  114 (1157)
T PRK11447         40 ATHREDLVRQSLYRLELIDPNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPDSNAYRSSRTTMLL-----STPEGRQ  114 (1157)
T ss_pred             hhCChHHHHHHHHHHHccCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHh-----cCCchhh
Confidence            46788888888876654333345666677888899999999999999998877765432222111111     0112333


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHH-cCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 004244          149 IDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIR-SGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIR  227 (766)
Q Consensus       149 ~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~-~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  227 (766)
                      ...+.+.+.+.|++++|+..|+.+...+ .|+...-......... .+  . .++|++.++++.+.. +-+...+..+..
T Consensus       115 ~l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g--~-~~~A~~~L~~ll~~~-P~~~~~~~~LA~  189 (1157)
T PRK11447        115 ALQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPA--Q-RPEAINQLQRLNADY-PGNTGLRNTLAL  189 (1157)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCc--c-HHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            4556778899999999999999988654 2332211112222222 24  3 389999999999874 556778888999


Q ss_pred             HHHhcCChhhHHHHHHHHHhCCCCcC--HH-----------------HHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCC
Q 004244          228 GFCGVGDLEMGLRFFSEMEKNNCLAN--VV-----------------TYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPN  288 (766)
Q Consensus       228 ~~~~~g~~~~A~~~~~~m~~~g~~~~--~~-----------------~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~  288 (766)
                      .+...|+.++|++.++++.+..-...  ..                 .+...+..+-.....+.|...++++......|+
T Consensus       190 ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~  269 (1157)
T PRK11447        190 LLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPA  269 (1157)
T ss_pred             HHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcc
Confidence            99999999999999999976421000  01                 111111111122234456666665544322333


Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-ChHHH-----
Q 004244          289 LISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSP-NVVTY-----  362 (766)
Q Consensus       289 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~-~~~~~-----  362 (766)
                      ... ......+...|++++|...|++..+... .+...+..+...+.+.|++++|+..|++..+..... +...+     
T Consensus       270 ~~~-~~~G~~~~~~g~~~~A~~~l~~aL~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~  347 (1157)
T PRK11447        270 FRA-RAQGLAAVDSGQGGKAIPELQQAVRANP-KDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLK  347 (1157)
T ss_pred             hHH-HHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHH
Confidence            222 2335567789999999999999998542 267788899999999999999999999998764322 11111     


Q ss_pred             -------HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004244          363 -------TSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNAL  435 (766)
Q Consensus       363 -------~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~l  435 (766)
                             ......+.+.|++++|...|++..+... .+...+..+...+...|++++|.+.|+++.+.. +.+...+..+
T Consensus       348 ~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L  425 (1157)
T PRK11447        348 VNRYWLLIQQGDAALKANNLAQAERLYQQARQVDN-TDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGL  425 (1157)
T ss_pred             hhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence                   2234567889999999999999998743 367778889999999999999999999999864 3345566667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCC--------CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          436 IKGHCTGGRVEDAVGVLHGMARKGLA--------PDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIH  507 (766)
Q Consensus       436 l~~~~~~g~~~~A~~~~~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~  507 (766)
                      ...+. .++.++|..+++.+......        .....+..+...+...|++++|++.+++..+..+. +...+..+..
T Consensus       426 ~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~  503 (1157)
T PRK11447        426 ANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQ  503 (1157)
T ss_pred             HHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            76664 46789999888765432110        01234556778889999999999999999987543 6677888999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH---------HHHHHHHH
Q 004244          508 GLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVV---------TYSVLING  578 (766)
Q Consensus       508 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~---------~~~~li~~  578 (766)
                      .|.+.|++++|...++++.+.. +.+...+..+...+...|+.++|...++.+......++..         .+......
T Consensus       504 ~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~  582 (1157)
T PRK11447        504 DLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANR  582 (1157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHH
Confidence            9999999999999999998764 4455555556666778999999999998765432222221         22345677


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHH
Q 004244          579 LNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVY  657 (766)
Q Consensus       579 ~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~  657 (766)
                      +...|+.++|..+++.     .+++...+..+.               ..+.+.|++++|+..|+++.+.  .| +...+
T Consensus       583 l~~~G~~~eA~~~l~~-----~p~~~~~~~~La---------------~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~  640 (1157)
T PRK11447        583 LRDSGKEAEAEALLRQ-----QPPSTRIDLTLA---------------DWAQQRGDYAAARAAYQRVLTR--EPGNADAR  640 (1157)
T ss_pred             HHHCCCHHHHHHHHHh-----CCCCchHHHHHH---------------HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHH
Confidence            8899999999999872     223333444444               7899999999999999999985  35 78889


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-----hHHHHHHHH
Q 004244          658 DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSCRLS-----DAELAKVLV  731 (766)
Q Consensus       658 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-----~~~~~~~l~  731 (766)
                      ..++..|...|++++|++.++++.+.  .|+ ...+..++.++...|++++|.+++++++...+..     +..++..++
T Consensus       641 ~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a  718 (1157)
T PRK11447        641 LGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAA  718 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHH
Confidence            99999999999999999999998743  454 4567778889999999999999999999875322     335677789


Q ss_pred             HHHhcCCChhHHHHHHHHHH-HCCCCCC
Q 004244          732 EINHKEGNMDAVLNVLTEMA-KDGLLPN  758 (766)
Q Consensus       732 ~~~~~~g~~~~A~~~~~~m~-~~~~~~~  758 (766)
                      ..+...|++++|++.+++.+ ..|+.|.
T Consensus       719 ~~~~~~G~~~~A~~~y~~Al~~~~~~~~  746 (1157)
T PRK11447        719 RFEAQTGQPQQALETYKDAMVASGITPT  746 (1157)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhcCCCCC
Confidence            99999999999999998864 4555443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.98  E-value=1.1e-25  Score=268.36  Aligned_cols=585  Identities=13%  Similarity=0.058  Sum_probs=429.3

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhH-----------------HHHHHHHHHcCCCCcHHHHHHHH
Q 004244          145 SSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSY-----------------NAILDSVIRSGRNNWVKFAEEVY  207 (766)
Q Consensus       145 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~-----------------~~ll~~~~~~~~~~~~~~a~~~~  207 (766)
                      ++.++..+++.+.+.|+.++|.+.++++.+..  |+...+                 ..+...+.+.|+   .++|.+.|
T Consensus        61 ~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~--P~~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~---~~eA~~~~  135 (1157)
T PRK11447         61 NPDVIAARFRLLLRQGDSDGAQKLLDRLSQLA--PDSNAYRSSRTTMLLSTPEGRQALQQARLLATTGR---TEEALASY  135 (1157)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC--CCChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCC---HHHHHHHH
Confidence            56778888999999999999999999998765  443322                 222335666774   39999999


Q ss_pred             HHHhhCCCCCCHH-HHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCC
Q 004244          208 NEMGKSRVSPNVY-TYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIE  286 (766)
Q Consensus       208 ~~m~~~g~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~  286 (766)
                      +.+.+.+ +|+.. ............|+.++|++.++++.+.. +.+...+..+...+...|+.++|++.++++......
T Consensus       136 ~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~  213 (1157)
T PRK11447        136 DKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAG  213 (1157)
T ss_pred             HHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCc
Confidence            9998764 34432 11112222234699999999999999874 457778889999999999999999999998653210


Q ss_pred             CC--HHH-----------------HHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 004244          287 PN--LIS-----------------YNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLH  347 (766)
Q Consensus       287 p~--~~~-----------------~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  347 (766)
                      ..  ...                 +...+..+-.....+.|...+.++......|+... ......+...|++++|+..|
T Consensus       214 ~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~-~~~G~~~~~~g~~~~A~~~l  292 (1157)
T PRK11447        214 RDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRA-RAQGLAAVDSGQGGKAIPEL  292 (1157)
T ss_pred             hHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHH-HHHHHHHHHCCCHHHHHHHH
Confidence            00  011                 11111111112234456666666554333343322 23356677899999999999


Q ss_pred             HHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHhHH------------HHHHHHHHhcCCHHHHH
Q 004244          348 AEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRP-NEKTY------------TTLINGFSQHGFLDEAY  414 (766)
Q Consensus       348 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~-~~~~~------------~~li~~~~~~g~~~~A~  414 (766)
                      ++.++.. +.+...+..+...+.+.|++++|+..|++..+..... +...|            ......+.+.|++++|.
T Consensus       293 ~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~  371 (1157)
T PRK11447        293 QQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAE  371 (1157)
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHH
Confidence            9999863 3378889999999999999999999999998864322 11112            12245677899999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 004244          415 RLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKG  494 (766)
Q Consensus       415 ~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  494 (766)
                      ..|+++.+.. +.+...+..+...+...|++++|++.|+++.+.... +...+..+...|. .++.++|...++.+....
T Consensus       372 ~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~  448 (1157)
T PRK11447        372 RLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYR-QQSPEKALAFIASLSASQ  448 (1157)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHH
Confidence            9999999874 346677888899999999999999999999987433 5666777777774 467899998887654321


Q ss_pred             CC--------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC
Q 004244          495 VL--------PDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFL  566 (766)
Q Consensus       495 ~~--------p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~  566 (766)
                      ..        .....+..+...+...|++++|++.+++.++.. +.+...+..+...|.+.|++++|...++++.+. .+
T Consensus       449 ~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~-~P  526 (1157)
T PRK11447        449 RRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQ-KP  526 (1157)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-CC
Confidence            00        012245567778889999999999999999874 446677888999999999999999999999875 24


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHH
Q 004244          567 PDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELML  646 (766)
Q Consensus       567 p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (766)
                      .+...+..+...+...|+.++|+..++++......++......-+      .......+...+...|+.++|+.+++.  
T Consensus       527 ~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l------~~~~~l~~a~~l~~~G~~~eA~~~l~~--  598 (1157)
T PRK11447        527 NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRL------QSDQVLETANRLRDSGKEAEAEALLRQ--  598 (1157)
T ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHH------hhhHHHHHHHHHHHCCCHHHHHHHHHh--
Confidence            455666666666788999999999998875432222221111111      111122344778899999999999872  


Q ss_pred             hCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHH
Q 004244          647 QRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAEL  726 (766)
Q Consensus       647 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  726 (766)
                         .+++...+..+...+.+.|++++|++.|+++++.. +.+...+..++..+...|+.++|...++++++.. +.+...
T Consensus       599 ---~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~  673 (1157)
T PRK11447        599 ---QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNT  673 (1157)
T ss_pred             ---CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHH
Confidence               23466778889999999999999999999999652 3345788899999999999999999999998876 566777


Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCCC
Q 004244          727 AKVLVEINHKEGNMDAVLNVLTEMAKDGLL  756 (766)
Q Consensus       727 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  756 (766)
                      +..++.++...|++++|.++++++......
T Consensus       674 ~~~la~~~~~~g~~~eA~~~~~~al~~~~~  703 (1157)
T PRK11447        674 QRRVALAWAALGDTAAAQRTFNRLIPQAKS  703 (1157)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHhhhCcc
Confidence            888999999999999999999999876543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.95  E-value=5.6e-21  Score=217.37  Aligned_cols=614  Identities=14%  Similarity=0.057  Sum_probs=388.0

Q ss_pred             HHHhcCCChhHHHHHHHhhcCCCCCCCchhHHHHHHHHhCCCchHHHHHHHHHHHhCCCCChhhHHHHHHHhcccCCCCC
Q 004244           65 LLLKTQSDQTLTLKFLKWAQPQPFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDSTS  144 (766)
Q Consensus        65 ~l~~~~~~~~~al~ff~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~  144 (766)
                      .+....+|+..|+..|+-+-....=++.+...+..++...+.++.|...++..+...+.                     
T Consensus        52 ~~~~~~Gd~~~A~~~l~~Al~~dP~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~---------------------  110 (987)
T PRK09782         52 LKAQKNNDEATAIREFEYIHQQVPDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPG---------------------  110 (987)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcc---------------------
Confidence            34445688899999998776543223445556677888889999998888877655431                     


Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHH-H--------HHHcCCCCcHHHHHHHHHHHhhCCC
Q 004244          145 SSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILD-S--------VIRSGRNNWVKFAEEVYNEMGKSRV  215 (766)
Q Consensus       145 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~-~--------~~~~~~~~~~~~a~~~~~~m~~~g~  215 (766)
                      +......+    +..+++++|..+++++....  |+......++. .        |.+.      ++|.+.++ ......
T Consensus       111 n~~~~~~L----a~i~~~~kA~~~ye~l~~~~--P~n~~~~~~la~~~~~~~~l~y~q~------eqAl~AL~-lr~~~~  177 (987)
T PRK09782        111 DARLERSL----AAIPVEVKSVTTVEELLAQQ--KACDAVPTLRCRSEVGQNALRLAQL------PVARAQLN-DATFAA  177 (987)
T ss_pred             cHHHHHHH----HHhccChhHHHHHHHHHHhC--CCChhHHHHHHHHhhccchhhhhhH------HHHHHHHH-HhhhCC
Confidence            22222222    22288889999999888763  54333333222 2        3332      45666665 433333


Q ss_pred             CCCHHHHHHH-HHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHH-cCChhHHHHHHHHHhhCCCCCCHHHHH
Q 004244          216 SPNVYTYNVL-IRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCK-LGRIDDAFKLLRDMGLKGIEPNLISYN  293 (766)
Q Consensus       216 ~~~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~-~g~~~~A~~l~~~m~~~g~~p~~~~~~  293 (766)
                      .|+..+.... ...|.+.|++++|++++.++.+.+ +.+......|...|.. .++ +++..+++..    ++-+...+.
T Consensus       178 ~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~-pl~~~~~~~L~~ay~q~l~~-~~a~al~~~~----lk~d~~l~~  251 (987)
T PRK09782        178 SPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQN-TLSAAERRQWFDVLLAGQLD-DRLLALQSQG----IFTDPQSRI  251 (987)
T ss_pred             CCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhhCH-HHHHHHhchh----cccCHHHHH
Confidence            4455555555 788889999999999999998886 3455556677777777 466 7777775532    235778888


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHCCCC-CCHHHHHHH------------------------------HHHHHhcCChHH
Q 004244          294 VIINGLCKEGRLKETKGILNEISRKGLV-PDEVTYNTL------------------------------LNGYCKEGNLHQ  342 (766)
Q Consensus       294 ~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~l------------------------------i~~~~~~g~~~~  342 (766)
                      .++..|.+.|+.++|.++++++...-.. |+..++.-+                              +..+.+.+.++.
T Consensus       252 ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (987)
T PRK09782        252 TYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDA  331 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHH
Confidence            8899999999999999988887653222 333332222                              233334444443


Q ss_pred             HHHHHHHHHHCCCCCChHHHHHHHHHHH--hcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004244          343 ALVLHAEMVRNGLSPNVVTYTSLINSMC--KSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEM  420 (766)
Q Consensus       343 A~~~~~~~~~~g~~~~~~~~~~li~~~~--~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m  420 (766)
                      +.++.      ++.|....  ..++...  ..+...++.+.+..|.... +-+......+.-...+.|+.++|.++|+..
T Consensus       332 ~~~~~------~~~~~~~~--~~~r~~~~~~~~~~~~~~~~~~~~y~~~-~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~  402 (987)
T PRK09782        332 AQKLL------ATLPANEM--LEERYAVSVATRNKAEALRLARLLYQQE-PANLTRLDQLTWQLMQNGQSREAADLLLQR  402 (987)
T ss_pred             HHHHh------cCCCcchH--HHHHHhhccccCchhHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHh
Confidence            33321      12232222  1222221  2255556666666666542 224455555555567788888888888887


Q ss_pred             HHC-C-CCCCHHHHHHHHHHHHhcCC---HHHHHHH----------------------HHHHHHC-CC-CC--CHHHHHH
Q 004244          421 TKN-G-FMPSIVTYNALIKGHCTGGR---VEDAVGV----------------------LHGMARK-GL-AP--DVVSYST  469 (766)
Q Consensus       421 ~~~-g-~~~~~~~~~~ll~~~~~~g~---~~~A~~~----------------------~~~~~~~-~~-~~--~~~~~~~  469 (766)
                      ... + -..+.....-++..|.+.+.   ..++..+                      ....... +. ++  +...|..
T Consensus       403 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~  482 (987)
T PRK09782        403 YPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNR  482 (987)
T ss_pred             cCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHH
Confidence            762 1 12334444466666666655   2233222                      1111111 11 23  5666777


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004244          470 IISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGD  549 (766)
Q Consensus       470 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~  549 (766)
                      +..++.. ++.++|+..+.+.....  |+......+...+...|++++|...++++...  +|+...+..+...+.+.|+
T Consensus       483 LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd  557 (987)
T PRK09782        483 LAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGN  557 (987)
T ss_pred             HHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCC
Confidence            7776665 77777888777766553  45444334444556788888888888887554  4444455666777778888


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhh
Q 004244          550 IPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGF  629 (766)
Q Consensus       550 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~  629 (766)
                      .++|...+++..+.. +++...+..+...+...|++++|...+++.++  ..|+...+..+.               ..+
T Consensus       558 ~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~--l~P~~~a~~~LA---------------~~l  619 (987)
T PRK09782        558 GAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLN--IAPSANAYVARA---------------TIY  619 (987)
T ss_pred             HHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH--hCCCHHHHHHHH---------------HHH
Confidence            888888888887653 23333333344444456888888888888876  355655565555               677


Q ss_pred             hhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChHH
Q 004244          630 CMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIVLVKALHTAGMNEE  707 (766)
Q Consensus       630 ~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~  707 (766)
                      .+.|+.++|+..+++..+.  .| +...++.+...+...|++++|++.++++++.  .|+ ...+..++.++...|++++
T Consensus       620 ~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l--~P~~~~a~~nLA~al~~lGd~~e  695 (987)
T PRK09782        620 RQRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAHKG--LPDDPALIRQLAYVNQRLDDMAA  695 (987)
T ss_pred             HHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHH
Confidence            8888888888888888874  34 6677778888888888888888888888754  344 4667778888888888888


Q ss_pred             HHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          708 LSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       708 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      |...++++++.. |....+....++...+..+++.|.+-+++....++
T Consensus       696 A~~~l~~Al~l~-P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~~  742 (987)
T PRK09782        696 TQHYARLVIDDI-DNQALITPLTPEQNQQRFNFRRLHEEVGRRWTFSF  742 (987)
T ss_pred             HHHHHHHHHhcC-CCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCc
Confidence            888888888877 55566666777777777778888777776555443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.95  E-value=6.7e-21  Score=216.73  Aligned_cols=579  Identities=12%  Similarity=0.041  Sum_probs=409.7

Q ss_pred             HHhCCCchHHHHHHHHHHHhCCCCChhhHHHHHHHhcccCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 004244          101 LTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPG  180 (766)
Q Consensus       101 l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~~~  180 (766)
                      ....+.++.|....+..+...|                     .+..+...|.+.|.+.|++++|...+++..+.  .|+
T Consensus        54 ~~~~Gd~~~A~~~l~~Al~~dP---------------------~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~l--dP~  110 (987)
T PRK09782         54 AQKNNDEATAIREFEYIHQQVP---------------------DNIPLTLYLAEAYRHFGHDDRARLLLEDQLKR--HPG  110 (987)
T ss_pred             HHhCCCHHHHHHHHHHHHHhCC---------------------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--Ccc
Confidence            3334677777666666554433                     24677788999999999999999999999876  466


Q ss_pred             HhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHH--------HHhcCChhhHHHHHHHHHhCCCCc
Q 004244          181 VLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRG--------FCGVGDLEMGLRFFSEMEKNNCLA  252 (766)
Q Consensus       181 ~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~--------~~~~g~~~~A~~~~~~m~~~g~~~  252 (766)
                      ...|..++..+   ++  . ++|.++++++.+.. +-+..++..+...        |.+.   +.|.+.++ .......|
T Consensus       111 n~~~~~~La~i---~~--~-~kA~~~ye~l~~~~-P~n~~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~  179 (987)
T PRK09782        111 DARLERSLAAI---PV--E-VKSVTTVEELLAQQ-KACDAVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASP  179 (987)
T ss_pred             cHHHHHHHHHh---cc--C-hhHHHHHHHHHHhC-CCChhHHHHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCC
Confidence            66666656444   42  2 78999999999874 3445555555555        6655   44444444 33222233


Q ss_pred             CHHHH-HHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH-cCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 004244          253 NVVTY-NTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCK-EGRLKETKGILNEISRKGLVPDEVTYNTL  330 (766)
Q Consensus       253 ~~~~~-~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~-~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  330 (766)
                      +..+. ..+...|.+.|++++|++++.++.+.+.. +......+...|.. .++ +++..++..    .++-+...+..+
T Consensus       180 ~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~al  253 (987)
T PRK09782        180 EGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITY  253 (987)
T ss_pred             CcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHH
Confidence            44444 44489999999999999999999988643 45556777778887 466 888887553    233578889999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCC-CChHHHH------------------------------HHHHHHHhcCCHHHHH
Q 004244          331 LNGYCKEGNLHQALVLHAEMVRNGLS-PNVVTYT------------------------------SLINSMCKSGNLNRAM  379 (766)
Q Consensus       331 i~~~~~~g~~~~A~~~~~~~~~~g~~-~~~~~~~------------------------------~li~~~~~~g~~~~A~  379 (766)
                      ...|.+.|+.++|.++++++...-.. |...++.                              .++..+.+.++++.+.
T Consensus       254 a~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  333 (987)
T PRK09782        254 ATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQ  333 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHH
Confidence            99999999999999999887643211 2222221                              2244555556666444


Q ss_pred             HHHHHHHHCCCCCCHhHHHHHHHH--HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004244          380 EFFDQMHVRELRPNEKTYTTLING--FSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMAR  457 (766)
Q Consensus       380 ~~~~~m~~~~~~~~~~~~~~li~~--~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  457 (766)
                      ++..      +.|....  ..+..  ....+...++...++.|.+.. +-+.....-+.-...+.|+.++|.++++....
T Consensus       334 ~~~~------~~~~~~~--~~~r~~~~~~~~~~~~~~~~~~~~y~~~-~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~  404 (987)
T PRK09782        334 KLLA------TLPANEM--LEERYAVSVATRNKAEALRLARLLYQQE-PANLTRLDQLTWQLMQNGQSREAADLLLQRYP  404 (987)
T ss_pred             HHhc------CCCcchH--HHHHHhhccccCchhHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHhcC
Confidence            4311      2333332  12222  223466777777777777752 22444444444456688999999999999877


Q ss_pred             C--CCCCCHHHHHHHHHHHHccCC---HHHHHHH-------------------------HHHHHHCCCCC--CHHHHHHH
Q 004244          458 K--GLAPDVVSYSTIISGFSRSQE---LDKAFDT-------------------------KREMVEKGVLP--DTITYSSL  505 (766)
Q Consensus       458 ~--~~~~~~~~~~~li~~~~~~g~---~~~A~~~-------------------------~~~m~~~~~~p--~~~~~~~l  505 (766)
                      .  .-.++......++..|.+.+.   ..++..+                         +...... .++  +...|..+
T Consensus       405 ~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~-~p~~~~~~a~~~L  483 (987)
T PRK09782        405 FQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGD-MSPSYDAAAWNRL  483 (987)
T ss_pred             CCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhccc-CCCCCCHHHHHHH
Confidence            3  122344556677888877766   3333333                         1111111 123  56777888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 004244          506 IHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQART  585 (766)
Q Consensus       506 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~  585 (766)
                      ..++.. ++.++|+..+.+....  .|+......+...+...|++++|...++++...  +|+...+..+...+.+.|+.
T Consensus       484 G~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~  558 (987)
T PRK09782        484 AKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNG  558 (987)
T ss_pred             HHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCH
Confidence            877776 8999999988888876  456544444455557899999999999998654  55566677778888999999


Q ss_pred             HHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 004244          586 MEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHS  665 (766)
Q Consensus       586 ~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~  665 (766)
                      ++|...+++.+...  |+.......+.              ......|++++|+..+++..+.  .|+...|..+..++.
T Consensus       559 ~eA~~~l~qAL~l~--P~~~~l~~~La--------------~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~  620 (987)
T PRK09782        559 AARDRWLQQAEQRG--LGDNALYWWLH--------------AQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYR  620 (987)
T ss_pred             HHHHHHHHHHHhcC--CccHHHHHHHH--------------HHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHH
Confidence            99999999998753  44322211110              3445669999999999999984  577889999999999


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHH
Q 004244          666 KVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVL  744 (766)
Q Consensus       666 ~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  744 (766)
                      +.|++++|++.++++++.  .|+. ..+..++..+...|+.++|+..++++++.. |.+...+..++.++...|++++|.
T Consensus       621 ~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~  697 (987)
T PRK09782        621 QRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQ  697 (987)
T ss_pred             HCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            999999999999999964  4554 677788899999999999999999999998 677889999999999999999999


Q ss_pred             HHHHHHHHCCC
Q 004244          745 NVLTEMAKDGL  755 (766)
Q Consensus       745 ~~~~~m~~~~~  755 (766)
                      ..+++..+...
T Consensus       698 ~~l~~Al~l~P  708 (987)
T PRK09782        698 HYARLVIDDID  708 (987)
T ss_pred             HHHHHHHhcCC
Confidence            99999887653

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

Probab=99.92  E-value=1.4e-21  Score=196.20  Aligned_cols=380  Identities=17%  Similarity=0.162  Sum_probs=228.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHH-HHHHH
Q 004244          325 VTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYT-TLING  403 (766)
Q Consensus       325 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~-~li~~  403 (766)
                      .+|..+.+.+-..|++++|+.+++.+++.. +..+..|..+..++...|+.+.|.+.|.+.++.  .|+..... .+...
T Consensus       117 e~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnL  193 (966)
T KOG4626|consen  117 EAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNL  193 (966)
T ss_pred             HHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHH
Confidence            344445555555555555555555555432 113444555555555555555555555554443  23322221 22222


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHH
Q 004244          404 FSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKA  483 (766)
Q Consensus       404 ~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  483 (766)
                      +-..|++++|...+.+..+.. +--.+.|+.|...+-..|+...|++.|++..+..+. -...|-.|...|-..+.+++|
T Consensus       194 lka~Grl~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~-f~dAYiNLGnV~ke~~~~d~A  271 (966)
T KOG4626|consen  194 LKAEGRLEEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPN-FLDAYINLGNVYKEARIFDRA  271 (966)
T ss_pred             HHhhcccchhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCc-chHHHhhHHHHHHHHhcchHH
Confidence            233455555555555544431 111234555555555555555555555555543211 234555555566666666666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 004244          484 FDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPD-EFTYTTLINAYCTEGDIPQALRLHDEMIQ  562 (766)
Q Consensus       484 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  562 (766)
                      ...|.+....... ..+.+..+...|..+|..+.|+..|++.++.  .|+ ...|+.|.+++-..|++.+|.+.+++.+.
T Consensus       272 vs~Y~rAl~lrpn-~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~  348 (966)
T KOG4626|consen  272 VSCYLRALNLRPN-HAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALR  348 (966)
T ss_pred             HHHHHHHHhcCCc-chhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHH
Confidence            6666655543211 3455556666666777777777777777665  333 45677777777777777777777777776


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHH-hHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHH
Q 004244          563 KGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDV-IYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRV  641 (766)
Q Consensus       563 ~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~-~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  641 (766)
                      . .+.-..+.+.|...+...|.+++|..+|...++  +.|.-. ..+.+.               ..|-.+|++++|+..
T Consensus       349 l-~p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa---------------~i~kqqgnl~~Ai~~  410 (966)
T KOG4626|consen  349 L-CPNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLA---------------SIYKQQGNLDDAIMC  410 (966)
T ss_pred             h-CCccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHH---------------HHHHhcccHHHHHHH
Confidence            5 233445666777777777777777777777766  344422 233333               677888888888888


Q ss_pred             HHHHHhCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          642 FELMLQRNHMPN-EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       642 ~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      |++.++  +.|+ ...|+.++..|-..|+.+.|++.+.+++.  +.|.- ..++.|+..+..+|+..+|++.++.+++..
T Consensus       411 Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~--~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklk  486 (966)
T KOG4626|consen  411 YKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQ--INPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLK  486 (966)
T ss_pred             HHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHh--cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccC
Confidence            888877  6674 56788888888888888888888888873  45654 677788888888888888888888888887


Q ss_pred             CCChHHHHHHHHHHHh
Q 004244          720 RLSDAELAKVLVEINH  735 (766)
Q Consensus       720 ~~~~~~~~~~l~~~~~  735 (766)
                       |+-...|-.++.++-
T Consensus       487 -PDfpdA~cNllh~lq  501 (966)
T KOG4626|consen  487 -PDFPDAYCNLLHCLQ  501 (966)
T ss_pred             -CCCchhhhHHHHHHH
Confidence             444555555555443

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

Probab=99.91  E-value=9.8e-19  Score=185.56  Aligned_cols=613  Identities=14%  Similarity=0.099  Sum_probs=327.5

Q ss_pred             CCChhHHHHHHHhhcCCCCCCCchhHHH--HHHHHhCCCchHHHHHHHHHHHhCCCCChhhHHHHHHHhcccCCCCCcHH
Q 004244           70 QSDQTLTLKFLKWAQPQPFFTPKLKCLT--LHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDSTSSSA  147 (766)
Q Consensus        70 ~~~~~~al~ff~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  147 (766)
                      ..+.+.|..-|+++.++..  ++++.++  +.|+...+.|..|..+....+...+.                |.+    .
T Consensus       143 ~~~~~~A~a~F~~Vl~~sp--~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~----------------~~a----D  200 (1018)
T KOG2002|consen  143 DKSMDDADAQFHFVLKQSP--DNILALLGKARIAYNKKDYRGALKYYKKALRINPA----------------CKA----D  200 (1018)
T ss_pred             CccHHHHHHHHHHHHhhCC--cchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcc----------------cCC----C
Confidence            3345788888888887642  2333333  56777778888887777665444332                111    1


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHH-HcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 004244          148 VIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVI-RSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLI  226 (766)
Q Consensus       148 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~-~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  226 (766)
                      +.-.+..++.+.|+.+.|+..|.++...+  |+.+.-...|..+. .......+..+...+...-..+ +-|++..+.|.
T Consensus       201 ~rIgig~Cf~kl~~~~~a~~a~~ralqLd--p~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LA  277 (1018)
T KOG2002|consen  201 VRIGIGHCFWKLGMSEKALLAFERALQLD--PTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLA  277 (1018)
T ss_pred             ccchhhhHHHhccchhhHHHHHHHHHhcC--hhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHH
Confidence            22233466778888888888888887653  43222222222111 1111112355555555554432 34566666677


Q ss_pred             HHHHhcCChhhHHHHHHHHHhCCCCc--CHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCH--HHHHHHHHHHHHc
Q 004244          227 RGFCGVGDLEMGLRFFSEMEKNNCLA--NVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNL--ISYNVIINGLCKE  302 (766)
Q Consensus       227 ~~~~~~g~~~~A~~~~~~m~~~g~~~--~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~--~~~~~li~~~~~~  302 (766)
                      +-|.-.|+++.+..+...+.......  -...|--+..+|-..|++++|...|-+.....  ||.  ..+.-+...+.+.
T Consensus       278 n~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~--~d~~~l~~~GlgQm~i~~  355 (1018)
T KOG2002|consen  278 NHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKAD--NDNFVLPLVGLGQMYIKR  355 (1018)
T ss_pred             HHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccC--CCCccccccchhHHHHHh
Confidence            77777777777777766666542111  12235555666666666666666666555432  332  2334455666666


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC----ChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHH
Q 004244          303 GRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEG----NLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRA  378 (766)
Q Consensus       303 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g----~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  378 (766)
                      |+++.+...|+...+.. +-+..+...|...|...+    ..+.|..++.+..+.- +.|...|..+...+-. ++...+
T Consensus       356 ~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~-~d~~~s  432 (1018)
T KOG2002|consen  356 GDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQ-TDPWAS  432 (1018)
T ss_pred             chHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHh-cChHHH
Confidence            66666666666666532 113344444555554443    3445555555555432 3355555555554433 233333


Q ss_pred             HHHHHHHH----HCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHC---CCCCC------HHHHHHHHHHHHhcCCH
Q 004244          379 MEFFDQMH----VRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKN---GFMPS------IVTYNALIKGHCTGGRV  445 (766)
Q Consensus       379 ~~~~~~m~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~---g~~~~------~~~~~~ll~~~~~~g~~  445 (766)
                      +.+|....    ..+..+.....|.+...+...|++++|...|.+....   ...+|      ..+-..+...+-..++.
T Consensus       433 L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~  512 (1018)
T KOG2002|consen  433 LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDT  512 (1018)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhh
Confidence            44443322    2333345555666666666666666666666555443   11111      11222233333344455


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004244          446 EDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEM  525 (766)
Q Consensus       446 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  525 (766)
                      +.|.+.|..+.+..+. -+..|-.+...-...+...+|...+++....+ ..++..++.+...+.+...+..|.+-|...
T Consensus       513 ~~A~e~Yk~Ilkehp~-YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i  590 (1018)
T KOG2002|consen  513 EVAEEMYKSILKEHPG-YIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETI  590 (1018)
T ss_pred             hHHHHHHHHHHHHCch-hHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHH
Confidence            5555555555544111 12222222222223344445555555444432 223344444444444444444444444444


Q ss_pred             HHCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-
Q 004244          526 LSRG-MSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPS-  603 (766)
Q Consensus       526 ~~~~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~-  603 (766)
                      .+.- ..+|..+...|.+.|.            +.+....-.|           -...+..++|+++|.+.++.  .|. 
T Consensus       591 ~~~~~~~~D~YsliaLGN~~~------------~~l~~~~rn~-----------ek~kk~~~KAlq~y~kvL~~--dpkN  645 (1018)
T KOG2002|consen  591 LKKTSTKTDAYSLIALGNVYI------------QALHNPSRNP-----------EKEKKHQEKALQLYGKVLRN--DPKN  645 (1018)
T ss_pred             HhhhccCCchhHHHHhhHHHH------------HHhcccccCh-----------HHHHHHHHHHHHHHHHHHhc--Ccch
Confidence            3321 1123333333333221            1111100000           11345677788888888764  333 


Q ss_pred             HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHc
Q 004244          604 DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRS  683 (766)
Q Consensus       604 ~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  683 (766)
                      ...-+.+.               -.++..|++.+|..+|.++.+... ....+|..++++|...|+|..|+++|+...+.
T Consensus       646 ~yAANGIg---------------iVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkk  709 (1018)
T KOG2002|consen  646 MYAANGIG---------------IVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKK  709 (1018)
T ss_pred             hhhccchh---------------hhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333               567788888888888888887532 24567778888888888888888888887644


Q ss_pred             CC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHH-------------------HhcCCChhHH
Q 004244          684 GF-VPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEI-------------------NHKEGNMDAV  743 (766)
Q Consensus       684 ~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~-------------------~~~~g~~~~A  743 (766)
                      -. ..+......|+.++...|++.+|...+.+++...|.+....++ ++-.                   ....+..++|
T Consensus       710 f~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN-~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a  788 (1018)
T KOG2002|consen  710 FYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFN-LALVLKKLAESILRLEKRTLEEVLEAVKELEEA  788 (1018)
T ss_pred             hcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhH-HHHHHHHHHHHHHhcccccHHHHHHHHHHHHHH
Confidence            33 3455777788888888888888888888888876444333332 2221                   1224577889


Q ss_pred             HHHHHHHHHCCCC
Q 004244          744 LNVLTEMAKDGLL  756 (766)
Q Consensus       744 ~~~~~~m~~~~~~  756 (766)
                      .++|.+|.+.+-.
T Consensus       789 ~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  789 RRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHHHhcCCC
Confidence            9999999888765

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

Probab=99.91  E-value=1e-20  Score=190.11  Aligned_cols=445  Identities=17%  Similarity=0.134  Sum_probs=333.6

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q 004244          222 YNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCK  301 (766)
Q Consensus       222 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~  301 (766)
                      ...|.+-..+.|++..|++--...-+.+ +.+....-.+-.++.+..+.+....--....+.. +.-..+|..+.+.+-.
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~-~q~ae~ysn~aN~~ke  128 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHH
Confidence            3445566677788888877666555443 2233333333455556666665544333333221 2245678888888888


Q ss_pred             cCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChH-HHHHHHHHHHhcCCHHHHH
Q 004244          302 EGRLKETKGILNEISRKGLVP-DEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVV-TYTSLINSMCKSGNLNRAM  379 (766)
Q Consensus       302 ~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~-~~~~li~~~~~~g~~~~A~  379 (766)
                      .|++++|+.+++.+.+..  | ....|..+..++...|+.+.|.+.|.+.++.  .|+.. ..+.+...+-..|++++|.
T Consensus       129 rg~~~~al~~y~~aiel~--p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~  204 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIELK--PKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAK  204 (966)
T ss_pred             hchHHHHHHHHHHHHhcC--chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhH
Confidence            888888888888888743  4 4567888888888888888888888887775  34433 3334555555678888888


Q ss_pred             HHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004244          380 EFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPS-IVTYNALIKGHCTGGRVEDAVGVLHGMARK  458 (766)
Q Consensus       380 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  458 (766)
                      ..|.+.++... --.+.|+.|...+-..|+...|+..|++..+.  .|+ ...|-.|...|...+.++.|...+.+....
T Consensus       205 ~cYlkAi~~qp-~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l  281 (966)
T KOG4626|consen  205 ACYLKAIETQP-CFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL  281 (966)
T ss_pred             HHHHHHHhhCC-ceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc
Confidence            88888777622 23677888888888899999999999988875  333 457888888888888999999888888775


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004244          459 GLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYT  538 (766)
Q Consensus       459 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  538 (766)
                      ... ....+..+...|..+|.+|-|++.|++.++..+. =...|+.|..++-..|++.+|...|.+.+... +.-....+
T Consensus       282 rpn-~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~  358 (966)
T KOG4626|consen  282 RPN-HAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMN  358 (966)
T ss_pred             CCc-chhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHH
Confidence            332 5677888888899999999999999999886433 35689999999999999999999999998863 44466788


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHH-hHHHHhhhhchh
Q 004244          539 TLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDV-IYNTLIENCTNI  617 (766)
Q Consensus       539 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~-~~~~ll~~~~~~  617 (766)
                      .|.++|...|.+++|..+|....+. .+.-....+.|...|-++|++++|+..+++.++  +.|+.. .|+.+.      
T Consensus       359 NLgni~~E~~~~e~A~~ly~~al~v-~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmG------  429 (966)
T KOG4626|consen  359 NLGNIYREQGKIEEATRLYLKALEV-FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMG------  429 (966)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHhh-ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcc------
Confidence            9999999999999999999999875 233346788899999999999999999999987  677643 445555      


Q ss_pred             hhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHH
Q 004244          618 EFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPN-EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVL  695 (766)
Q Consensus       618 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l  695 (766)
                               ..|-..|+.+.|+..+.+.+.  +.|. ....+.|...|-..|+..+|++-+++.+  .++||. ..+-.+
T Consensus       430 ---------nt~ke~g~v~~A~q~y~rAI~--~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aL--klkPDfpdA~cNl  496 (966)
T KOG4626|consen  430 ---------NTYKEMGDVSAAIQCYTRAIQ--INPTFAEAHSNLASIYKDSGNIPEAIQSYRTAL--KLKPDFPDAYCNL  496 (966)
T ss_pred             ---------hHHHHhhhHHHHHHHHHHHHh--cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHH--ccCCCCchhhhHH
Confidence                     788999999999999999998  4563 5678899999999999999999999998  457775 444445


Q ss_pred             HHHHH
Q 004244          696 VKALH  700 (766)
Q Consensus       696 ~~~~~  700 (766)
                      +.++.
T Consensus       497 lh~lq  501 (966)
T KOG4626|consen  497 LHCLQ  501 (966)
T ss_pred             HHHHH
Confidence            44443

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

Probab=99.91  E-value=9.6e-19  Score=185.65  Aligned_cols=573  Identities=15%  Similarity=0.087  Sum_probs=415.1

Q ss_pred             HHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhC--CCCCCHHHHHHHHHHHHhcCChhhHH
Q 004244          162 IDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKS--RVSPNVYTYNVLIRGFCGVGDLEMGL  239 (766)
Q Consensus       162 ~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~--g~~~~~~~~~~li~~~~~~g~~~~A~  239 (766)
                      ++.|...|....+.  .|+... ..+..|+...++.+ +..|+.+|......  ..+||+..  .+..++.+.|+.+.|+
T Consensus       146 ~~~A~a~F~~Vl~~--sp~Nil-~LlGkA~i~ynkkd-Y~~al~yyk~al~inp~~~aD~rI--gig~Cf~kl~~~~~a~  219 (1018)
T KOG2002|consen  146 MDDADAQFHFVLKQ--SPDNIL-ALLGKARIAYNKKD-YRGALKYYKKALRINPACKADVRI--GIGHCFWKLGMSEKAL  219 (1018)
T ss_pred             HHHHHHHHHHHHhh--CCcchH-HHHHHHHHHhcccc-HHHHHHHHHHHHhcCcccCCCccc--hhhhHHHhccchhhHH
Confidence            68999999988865  344333 34556666655545 48999999996553  34566543  3446677999999999


Q ss_pred             HHHHHHHhCCCCcCHHHHHHHHHHHHHc---CChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q 004244          240 RFFSEMEKNNCLANVVTYNTLIDGYCKL---GRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEIS  316 (766)
Q Consensus       240 ~~~~~m~~~g~~~~~~~~~~li~~~~~~---g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  316 (766)
                      ..|.+..+.+ +.++.++-.|.-.-...   ..+..+..++...-... .-|++..+.|.+-|.-.|+++.++.+.+.+.
T Consensus       220 ~a~~ralqLd-p~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai  297 (1018)
T KOG2002|consen  220 LAFERALQLD-PTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYFKKDYERVWHLAEHAI  297 (1018)
T ss_pred             HHHHHHHhcC-hhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhcccHHHHHHHHHHHH
Confidence            9999999975 22344443333222222   34556777777665443 2467888999999999999999999999998


Q ss_pred             HCCCC--CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 004244          317 RKGLV--PDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNE  394 (766)
Q Consensus       317 ~~g~~--p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~  394 (766)
                      .....  .-...|-.+..+|-..|++++|...|.+..+..-.--+..+..|..+|.+.|+++.+...|+.+.+.. +.+.
T Consensus       298 ~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~  376 (1018)
T KOG2002|consen  298 KNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNY  376 (1018)
T ss_pred             HhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cchH
Confidence            75321  11234677889999999999999999888775322124455678899999999999999999999873 3367


Q ss_pred             hHHHHHHHHHHhcC----CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH----HCCCCCCHHH
Q 004244          395 KTYTTLINGFSQHG----FLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMA----RKGLAPDVVS  466 (766)
Q Consensus       395 ~~~~~li~~~~~~g----~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~~  466 (766)
                      .+...|...|...+    ..+.|..++.+..+.- +.|...|-.+...+-. ++...++..+..+.    ..+-.+.+..
T Consensus       377 etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~-~d~~~sL~~~~~A~d~L~~~~~~ip~E~  454 (1018)
T KOG2002|consen  377 ETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQ-TDPWASLDAYGNALDILESKGKQIPPEV  454 (1018)
T ss_pred             HHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHh-cChHHHHHHHHHHHHHHHHcCCCCCHHH
Confidence            77777777777765    5678888888877764 4567777777766655 44444466665544    4455578899


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHC---CCCCCH------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHH
Q 004244          467 YSTIISGFSRSQELDKAFDTKREMVEK---GVLPDT------ITYSSLIHGLCEQRRITEACELFQEMLSRGMSPD-EFT  536 (766)
Q Consensus       467 ~~~li~~~~~~g~~~~A~~~~~~m~~~---~~~p~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~  536 (766)
                      .|.+...+...|++.+|...|+.....   ...+|.      .+--.+...+-..++.+.|.+.|..+.+.  .|. +..
T Consensus       455 LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke--hp~YId~  532 (1018)
T KOG2002|consen  455 LNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE--HPGYIDA  532 (1018)
T ss_pred             HHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH--CchhHHH
Confidence            999999999999999999999988765   112222      23334556667778999999999999987  444 334


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCcHHhHHHHhhhhc
Q 004244          537 YTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDES-VPSDVIYNTLIENCT  615 (766)
Q Consensus       537 ~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~-~p~~~~~~~ll~~~~  615 (766)
                      |-.+.-.....+...+|...++..... ...++..+.-+...+.+...+..|.+-|........ .+|..+..+|..-|.
T Consensus       533 ylRl~~ma~~k~~~~ea~~~lk~~l~~-d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~  611 (1018)
T KOG2002|consen  533 YLRLGCMARDKNNLYEASLLLKDALNI-DSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYI  611 (1018)
T ss_pred             HHHhhHHHHhccCcHHHHHHHHHHHhc-ccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHH
Confidence            555543444557889999999998875 355667777777788888899999887777766522 256555555542111


Q ss_pred             hhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 004244          616 NIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIV  694 (766)
Q Consensus       616 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  694 (766)
                      .......   -..-...+..++|+.+|.++++.  .| |..+-|.++-+++..|++.+|..+|.+..+.. .-...+|..
T Consensus       612 ~~l~~~~---rn~ek~kk~~~KAlq~y~kvL~~--dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~-~~~~dv~lN  685 (1018)
T KOG2002|consen  612 QALHNPS---RNPEKEKKHQEKALQLYGKVLRN--DPKNMYAANGIGIVLAEKGRFSEARDIFSQVREAT-SDFEDVWLN  685 (1018)
T ss_pred             HHhcccc---cChHHHHHHHHHHHHHHHHHHhc--CcchhhhccchhhhhhhccCchHHHHHHHHHHHHH-hhCCceeee
Confidence            0000000   01122345678899999999985  35 88888999999999999999999999998764 334567999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcC-CCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          695 LVKALHTAGMNEELSQVIENILRSC-RLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       695 l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      ++.+|...|++..|++.|+.+++.- ...+..+...|+.++.+.|.+.+|.+.+.......
T Consensus       686 lah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~  746 (1018)
T KOG2002|consen  686 LAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLA  746 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            9999999999999999999999874 34568888999999999999999999887765543

>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=99.89  E-value=1.3e-18  Score=195.36  Aligned_cols=431  Identities=13%  Similarity=0.008  Sum_probs=271.5

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004244          255 VTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGY  334 (766)
Q Consensus       255 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  334 (766)
                      ..+......+.+.|++++|...|++....  .|+...|..+..+|.+.|++++|++.+++..+... .+...+..+..+|
T Consensus       128 ~~~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p-~~~~a~~~~a~a~  204 (615)
T TIGR00990       128 AKLKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDP-DYSKALNRRANAY  204 (615)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHH
Confidence            45566777888889999999999888764  56777888888888888899999888888887532 2455777788888


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHH
Q 004244          335 CKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAY  414 (766)
Q Consensus       335 ~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~  414 (766)
                      ...|++++|..-|......+...+.. ...++..+..    ..+........+.. +++...+..+. .+..........
T Consensus       205 ~~lg~~~eA~~~~~~~~~~~~~~~~~-~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~-~~~~~~~~~~~~  277 (615)
T TIGR00990       205 DGLGKYADALLDLTASCIIDGFRNEQ-SAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVG-NYLQSFRPKPRP  277 (615)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCccHH-HHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHH-HHHHHccCCcch
Confidence            88888888888777665542221221 1122221111    22223333333321 12222222222 222221111121


Q ss_pred             HHHHHHHHCCCCCCH-HHHHHHHHH---HHhcCCHHHHHHHHHHHHHCC-C-CCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 004244          415 RLLNEMTKNGFMPSI-VTYNALIKG---HCTGGRVEDAVGVLHGMARKG-L-APDVVSYSTIISGFSRSQELDKAFDTKR  488 (766)
Q Consensus       415 ~l~~~m~~~g~~~~~-~~~~~ll~~---~~~~g~~~~A~~~~~~~~~~~-~-~~~~~~~~~li~~~~~~g~~~~A~~~~~  488 (766)
                      .-+.+..+.  .++. ..+..+...   ....+++++|...|+...+.+ . +.....++.+...+...|++++|+..++
T Consensus       278 ~~~~~~~~~--~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~  355 (615)
T TIGR00990       278 AGLEDSNEL--DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLS  355 (615)
T ss_pred             hhhhccccc--ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            112211111  1111 111111111   123467888888888887754 1 2244567777777888888888888888


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 004244          489 EMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPD  568 (766)
Q Consensus       489 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  568 (766)
                      +..+.... +...|..+...+...|++++|...++++++.. +.+..+|..+...+...|++++|...|++.++.. +.+
T Consensus       356 kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~  432 (615)
T TIGR00990       356 KSIELDPR-VTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDF  432 (615)
T ss_pred             HHHHcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccC
Confidence            88775322 35577777777888888888888888887764 4556777788888888888888888888887752 445


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHh
Q 004244          569 VVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQ  647 (766)
Q Consensus       569 ~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (766)
                      ...+..+...+.+.|++++|+..|++.+..  .|+ ...++.+.               ..+...|++++|++.|++..+
T Consensus       433 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg---------------~~~~~~g~~~~A~~~~~~Al~  495 (615)
T TIGR00990       433 IFSHIQLGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYG---------------ELLLDQNKFDEAIEKFDTAIE  495 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHH---------------HHHHHccCHHHHHHHHHHHHh
Confidence            666777777788888888888888887763  333 44444444               677788888888888888776


Q ss_pred             CCCCCCHH------HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          648 RNHMPNEA------VYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       648 ~~~~p~~~------~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      .....+..      .++..+..+...|++++|.+++++++..  .|+. ..+..++..+...|++++|+.+++++.+..
T Consensus       496 l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l--~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       496 LEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALII--DPECDIAVATMAQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             cCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHh
Confidence            42211111      1112222233468888888888887754  3444 567778888888888888888888887765

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.89  E-value=5e-20  Score=196.39  Aligned_cols=303  Identities=16%  Similarity=0.157  Sum_probs=223.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCC
Q 004244          438 GHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPD---TITYSSLIHGLCEQRR  514 (766)
Q Consensus       438 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~---~~~~~~li~~~~~~g~  514 (766)
                      .+...|++++|...|.++.+.+. .+..++..+...+...|++++|...++.+...+..++   ...+..++..|.+.|+
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVDP-ETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            34456777777777777776533 2455677777777777777777777777766532221   2456777778888888


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcCCHHHHHH
Q 004244          515 ITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPD----VVTYSVLINGLNKQARTMEAKK  590 (766)
Q Consensus       515 ~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~  590 (766)
                      +++|..+|+++.+.. +++..++..++..+.+.|++++|.+.++.+.+.+..+.    ...+..+...+.+.|++++|..
T Consensus       123 ~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  201 (389)
T PRK11788        123 LDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARA  201 (389)
T ss_pred             HHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence            888888888887653 45667788888888888888888888888876542221    1234566777788899999999


Q ss_pred             HHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCC
Q 004244          591 LLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGN  669 (766)
Q Consensus       591 l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  669 (766)
                      .++++.+.  .|+ ...+..+.               ..+.+.|++++|.+.++++.+.+......+++.++.+|.+.|+
T Consensus       202 ~~~~al~~--~p~~~~~~~~la---------------~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  264 (389)
T PRK11788        202 LLKKALAA--DPQCVRASILLG---------------DLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGD  264 (389)
T ss_pred             HHHHHHhH--CcCCHHHHHHHH---------------HHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCC
Confidence            99988764  343 33444444               7888899999999999998875322224567888999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhc---CCChhHHHHH
Q 004244          670 VQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHK---EGNMDAVLNV  746 (766)
Q Consensus       670 ~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~  746 (766)
                      +++|.+.++++.+.  .|+...+..++..+.+.|++++|...++++++.. |. ...+..++..+..   .|+.++|..+
T Consensus       265 ~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~-P~-~~~~~~l~~~~~~~~~~g~~~~a~~~  340 (389)
T PRK11788        265 EAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRRH-PS-LRGFHRLLDYHLAEAEEGRAKESLLL  340 (389)
T ss_pred             HHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-cC-HHHHHHHHHHhhhccCCccchhHHHH
Confidence            99999999998864  5777667888999999999999999999999885 33 3455556666553   5689999999


Q ss_pred             HHHHHHCCCCCCCCCCC
Q 004244          747 LTEMAKDGLLPNSGRST  763 (766)
Q Consensus       747 ~~~m~~~~~~~~~~~~~  763 (766)
                      +++|.++++.|+|.+.+
T Consensus       341 ~~~~~~~~~~~~p~~~c  357 (389)
T PRK11788        341 LRDLVGEQLKRKPRYRC  357 (389)
T ss_pred             HHHHHHHHHhCCCCEEC
Confidence            99999999998888654

>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=99.89  E-value=6e-18  Score=189.90  Aligned_cols=436  Identities=15%  Similarity=0.033  Sum_probs=297.7

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q 004244          221 TYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLC  300 (766)
Q Consensus       221 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~  300 (766)
                      .+......+.+.|++++|++.|++.++.  .|+...|..+..+|.+.|++++|.+.+++..+... .+...|..+..+|.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p-~~~~a~~~~a~a~~  205 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDP-DYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHH
Confidence            3455677778888888888888888765  46777888888888888888888888888876532 24567777888888


Q ss_pred             HcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHH
Q 004244          301 KEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAME  380 (766)
Q Consensus       301 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  380 (766)
                      ..|++++|+.-|......+...+.. ...++..+..    ..+........+.. +++...+..+.. |......+.+..
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~~~~~-~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~  278 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGFRNEQ-SAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPA  278 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCccHH-HHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchh
Confidence            8888888888777665532211221 1111211111    12222233333321 222222222222 222212222221


Q ss_pred             HHHHHHHCCCCCC-HhHHHHHHHH---HHhcCCHHHHHHHHHHHHHCC-C-CCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004244          381 FFDQMHVRELRPN-EKTYTTLING---FSQHGFLDEAYRLLNEMTKNG-F-MPSIVTYNALIKGHCTGGRVEDAVGVLHG  454 (766)
Q Consensus       381 ~~~~m~~~~~~~~-~~~~~~li~~---~~~~g~~~~A~~l~~~m~~~g-~-~~~~~~~~~ll~~~~~~g~~~~A~~~~~~  454 (766)
                      -+.+..+.  .++ ...+..+...   ....+++++|.+.|++..+.+ . +.....+..+...+...|++++|+..++.
T Consensus       279 ~~~~~~~~--~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~k  356 (615)
T TIGR00990       279 GLEDSNEL--DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSK  356 (615)
T ss_pred             hhhccccc--ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            12211111  111 1111111111   123467899999999998765 2 23455677888888899999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 004244          455 MARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDE  534 (766)
Q Consensus       455 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  534 (766)
                      ..+.... ....|..+...+...|++++|...|++..+... .+...|..+...+...|++++|...|++.++.. +.+.
T Consensus       357 al~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~  433 (615)
T TIGR00990       357 SIELDPR-VTQSYIKRASMNLELGDPDKAEEDFDKALKLNS-EDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFI  433 (615)
T ss_pred             HHHcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCH
Confidence            9886432 466888888999999999999999999988753 367888899999999999999999999999875 5567


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhh
Q 004244          535 FTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENC  614 (766)
Q Consensus       535 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~  614 (766)
                      ..+..+...+.+.|++++|+..+++.++. .+.+...|..+...+...|++++|++.|++.+......+....+...   
T Consensus       434 ~~~~~la~~~~~~g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~---  509 (615)
T TIGR00990       434 FSHIQLGVTQYKEGSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLP---  509 (615)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHH---
Confidence            77888889999999999999999999875 35567888999999999999999999999988742211111111110   


Q ss_pred             chhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHc
Q 004244          615 TNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRS  683 (766)
Q Consensus       615 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  683 (766)
                            .+......+...|++++|.+++++..+.  .| +...+..++..+.+.|++++|+++|+++.+.
T Consensus       510 ------l~~~a~~~~~~~~~~~eA~~~~~kAl~l--~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       510 ------LINKALALFQWKQDFIEAENLCEKALII--DPECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             ------HHHHHHHHHHHhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence                  0000112344579999999999999875  35 5667899999999999999999999998754

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.88  E-value=1.4e-19  Score=192.85  Aligned_cols=299  Identities=13%  Similarity=0.144  Sum_probs=164.9

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCH
Q 004244          369 MCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPS---IVTYNALIKGHCTGGRV  445 (766)
Q Consensus       369 ~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~---~~~~~~ll~~~~~~g~~  445 (766)
                      +...|++++|...|+++.+.+. .+..++..+...+...|++++|..+++.+...+..++   ..++..+...|.+.|++
T Consensus        45 ~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~  123 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKVDP-ETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLL  123 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCH
Confidence            3445555555555555555421 2334455555555555555555555555554321111   13345555555555666


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHH
Q 004244          446 EDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDT----ITYSSLIHGLCEQRRITEACEL  521 (766)
Q Consensus       446 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~----~~~~~li~~~~~~g~~~~A~~~  521 (766)
                      ++|..+|+.+.+.. +.+..+++.++..+.+.|++++|.+.++.+.+.+..++.    ..+..+...+.+.|++++|...
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            66666665555432 224455555666666666666666666665554322211    1234455556666666666666


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 004244          522 FQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESV  601 (766)
Q Consensus       522 ~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~  601 (766)
                      ++++.+.. +.+...+..+...+.+.|++++|.++++++.+.+......++..++.+|...|++++|...++++...  .
T Consensus       203 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~  279 (389)
T PRK11788        203 LKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--Y  279 (389)
T ss_pred             HHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--C
Confidence            66666543 33344555666666666666666666666665421111344556666666666666666666666653  3


Q ss_pred             CcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc---cCChHHHHHHHH
Q 004244          602 PSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSK---VGNVQKAYDLYK  678 (766)
Q Consensus       602 p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~---~g~~~~A~~~~~  678 (766)
                      |+...+..+.               ..+.+.|++++|..+++++.+.  .|+...++.++..+..   .|+.++++.+++
T Consensus       280 p~~~~~~~la---------------~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~  342 (389)
T PRK11788        280 PGADLLLALA---------------QLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLR  342 (389)
T ss_pred             CCchHHHHHH---------------HHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHH
Confidence            4444443333               5666666777777766666653  3666666655555543   346666777676


Q ss_pred             HHHHcCCCCCH
Q 004244          679 KMVRSGFVPHT  689 (766)
Q Consensus       679 ~m~~~~~~p~~  689 (766)
                      +|++.++.|++
T Consensus       343 ~~~~~~~~~~p  353 (389)
T PRK11788        343 DLVGEQLKRKP  353 (389)
T ss_pred             HHHHHHHhCCC
Confidence            66665555554

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.85  E-value=1.6e-17  Score=185.55  Aligned_cols=361  Identities=11%  Similarity=0.052  Sum_probs=282.2

Q ss_pred             HHhcCChHHHHHHHHHHHHCC--CCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHH
Q 004244          334 YCKEGNLHQALVLHAEMVRNG--LSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLD  411 (766)
Q Consensus       334 ~~~~g~~~~A~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  411 (766)
                      +.+..+++.-.-+|..-.+.-  -..+..-...++..+.+.|+.++|..+++........ +...+..++.+....|+++
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~   93 (656)
T PRK15174         15 LLKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPD   93 (656)
T ss_pred             hhhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHH
Confidence            456677776666555443321  0112333445667778899999999999999888544 4555666667778899999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 004244          412 EAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMV  491 (766)
Q Consensus       412 ~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  491 (766)
                      +|...++++.+.. +.+...+..+...+...|++++|...++.+.+... .+...+..+...+...|++++|...++.+.
T Consensus        94 ~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P-~~~~a~~~la~~l~~~g~~~eA~~~~~~~~  171 (656)
T PRK15174         94 AVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFS-GNSQIFALHLRTLVLMDKELQAISLARTQA  171 (656)
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCChHHHHHHHHHHH
Confidence            9999999999874 44567788888999999999999999999998643 367788889999999999999999999887


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH
Q 004244          492 EKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVT  571 (766)
Q Consensus       492 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  571 (766)
                      ..... +...+..+ ..+...|++++|...++.+.+....++...+..+...+.+.|++++|...++++.+.. +.+...
T Consensus       172 ~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~  248 (656)
T PRK15174        172 QEVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAAL  248 (656)
T ss_pred             HhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHH
Confidence            76543 33334333 3478899999999999998876433445555666788899999999999999999763 556778


Q ss_pred             HHHHHHHHHhcCCHHH----HHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHH
Q 004244          572 YSVLINGLNKQARTME----AKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELML  646 (766)
Q Consensus       572 ~~~li~~~~~~g~~~~----A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (766)
                      +..+...+...|++++    |...+++.+..  .|+ ...+..+.               ..+...|++++|+..++++.
T Consensus       249 ~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg---------------~~l~~~g~~~eA~~~l~~al  311 (656)
T PRK15174        249 RRSLGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYA---------------DALIRTGQNEKAIPLLQQSL  311 (656)
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHH---------------HHHHHCCCHHHHHHHHHHHH
Confidence            8889999999999986    89999999874  455 44455554               88999999999999999999


Q ss_pred             hCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHH-HHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 004244          647 QRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVT-IIVLVKALHTAGMNEELSQVIENILRSCRL  721 (766)
Q Consensus       647 ~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  721 (766)
                      +.  .| +...+..+..++.+.|++++|++.++++.+.  .|+... +..++.++...|+.++|+..++++++..+.
T Consensus       312 ~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        312 AT--HPDLPYVRAMYARALRQVGQYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             Hh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChh
Confidence            85  35 5777888999999999999999999999854  455533 444577889999999999999999998744

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.85  E-value=2.6e-17  Score=183.92  Aligned_cols=387  Identities=11%  Similarity=0.062  Sum_probs=298.5

Q ss_pred             HcCChhHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHH
Q 004244          301 KEGRLKETKGILNEISRKG--LVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRA  378 (766)
Q Consensus       301 ~~g~~~~a~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  378 (766)
                      +..+++.-.-+|....++-  -.-+......++..+.+.|++++|..+++..+..... +......++......|++++|
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~A   95 (656)
T PRK15174         17 KQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDAV   95 (656)
T ss_pred             hhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHHH
Confidence            4555555444444433210  0012223445677788999999999999999887433 455666677777889999999


Q ss_pred             HHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004244          379 MEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARK  458 (766)
Q Consensus       379 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  458 (766)
                      ...|+++..... .+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|+.++|...++.+...
T Consensus        96 ~~~l~~~l~~~P-~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~  173 (656)
T PRK15174         96 LQVVNKLLAVNV-CQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQE  173 (656)
T ss_pred             HHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHh
Confidence            999999998743 367788889999999999999999999999863 445678888999999999999999999988776


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004244          459 GLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYT  538 (766)
Q Consensus       459 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  538 (766)
                      ... +...+..+ ..+.+.|++++|...++.+......++...+..+...+...|++++|...++++.+.. +.+...+.
T Consensus       174 ~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~  250 (656)
T PRK15174        174 VPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRR  250 (656)
T ss_pred             CCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHH
Confidence            444 33344333 3478899999999999998877544455566666788999999999999999999875 55677888


Q ss_pred             HHHHHHHhcCChHH----HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhh
Q 004244          539 TLINAYCTEGDIPQ----ALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENC  614 (766)
Q Consensus       539 ~l~~~~~~~g~~~~----A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~  614 (766)
                      .+...+...|++++    |...+++..+. .+.+...+..+...+.+.|++++|...+++.+..  .|+.......++  
T Consensus       251 ~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l-~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La--  325 (656)
T PRK15174        251 SLGLAYYQSGRSREAKLQAAEHWRHALQF-NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYA--  325 (656)
T ss_pred             HHHHHHHHcCCchhhHHHHHHHHHHHHhh-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHH--
Confidence            89999999999986    89999999976 3556778999999999999999999999999884  455443333332  


Q ss_pred             chhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHH
Q 004244          615 TNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNE-AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTII  693 (766)
Q Consensus       615 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  693 (766)
                                  ..+...|++++|+..++++.+.  .|+. ..+..++.++...|++++|++.|+++++.  .|+..   
T Consensus       326 ------------~~l~~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~--~P~~~---  386 (656)
T PRK15174        326 ------------RALRQVGQYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQA--RASHL---  386 (656)
T ss_pred             ------------HHHHHCCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--Chhhc---
Confidence                        7899999999999999999975  3543 44455677899999999999999999854  45542   


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCChHH
Q 004244          694 VLVKALHTAGMNEELSQVIENILRSCRLSDAE  725 (766)
Q Consensus       694 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  725 (766)
                              ...+++|...+.+.++.-..+...
T Consensus       387 --------~~~~~ea~~~~~~~~~~~~~~~~~  410 (656)
T PRK15174        387 --------PQSFEEGLLALDGQISAVNLPPER  410 (656)
T ss_pred             --------hhhHHHHHHHHHHHHHhcCCccch
Confidence                    345578888888888774344333

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.84  E-value=7.6e-17  Score=184.23  Aligned_cols=418  Identities=11%  Similarity=0.033  Sum_probs=257.2

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHH
Q 004244          288 NLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLIN  367 (766)
Q Consensus       288 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~  367 (766)
                      +..-....+......|+.++|++++.+..... +.+...+..+...+.+.|++++|.+++++.++.. +.+...+..++.
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            44445555666677888888888888887622 2345567888888888888888888888887752 335666778888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004244          368 SMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVED  447 (766)
Q Consensus       368 ~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~  447 (766)
                      .+...|++++|...+++..+.. +.+.. +..+...+...|+.++|...++++.+.. +.+...+..+...+...+..++
T Consensus        92 ~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~  168 (765)
T PRK10049         92 TLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAP  168 (765)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHH
Confidence            8888888888888888888773 23455 7778888888888888888888888864 3345555667777778888888


Q ss_pred             HHHHHHHHHHCCCCCCH------HHHHHHHHHHH-----ccCCH---HHHHHHHHHHHHC-CCCCCHH-HH----HHHHH
Q 004244          448 AVGVLHGMARKGLAPDV------VSYSTIISGFS-----RSQEL---DKAFDTKREMVEK-GVLPDTI-TY----SSLIH  507 (766)
Q Consensus       448 A~~~~~~~~~~~~~~~~------~~~~~li~~~~-----~~g~~---~~A~~~~~~m~~~-~~~p~~~-~~----~~li~  507 (766)
                      |+..++....   .|+.      .....++....     ..+++   ++|++.++.+.+. ...|+.. .+    ...+.
T Consensus       169 Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~  245 (765)
T PRK10049        169 ALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLG  245 (765)
T ss_pred             HHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHH
Confidence            8888776553   2221      11122222221     12223   6677777777653 1222221 11    11123


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcC
Q 004244          508 GLCEQRRITEACELFQEMLSRGMS-PDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLP---DVVTYSVLINGLNKQA  583 (766)
Q Consensus       508 ~~~~~g~~~~A~~~~~~m~~~~~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p---~~~~~~~li~~~~~~g  583 (766)
                      .+...|++++|+..|+.+.+.+.+ |+. ....+...|...|++++|+..++++.+..-..   .......+..++...|
T Consensus       246 ~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g  324 (765)
T PRK10049        246 ALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESE  324 (765)
T ss_pred             HHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcc
Confidence            445667777787777777766421 222 12224567777777888877777776542110   1234555666677777


Q ss_pred             CHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhh-hhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004244          584 RTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIE-FQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIH  662 (766)
Q Consensus       584 ~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  662 (766)
                      ++++|.+.++++...  .|.............+.. ......+...+...|++++|++.++++.... +.+...+..++.
T Consensus       325 ~~~eA~~~l~~~~~~--~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~  401 (765)
T PRK10049        325 NYPGALTVTAHTINN--SPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYAS  401 (765)
T ss_pred             cHHHHHHHHHHHhhc--CCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            777777777777653  232211111110101100 1122334455666677777777777766542 225666666777


Q ss_pred             HHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          663 GHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       663 ~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      .+...|++++|++.++++++.  .|+. ..+...+..+...|++++|...++++++..
T Consensus       402 l~~~~g~~~~A~~~l~~al~l--~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~  457 (765)
T PRK10049        402 VLQARGWPRAAENELKKAEVL--EPRNINLEVEQAWTALDLQEWRQMDVLTDDVVARE  457 (765)
T ss_pred             HHHhcCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            777777777777777776643  4553 444455556666777777777777777765

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

Probab=99.84  E-value=3.2e-13  Score=137.72  Aligned_cols=555  Identities=13%  Similarity=0.081  Sum_probs=426.2

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCC-HhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChh
Q 004244          158 HLNMIDKAVNIVNLAKVHGFMPG-VLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLE  236 (766)
Q Consensus       158 ~~g~~~~A~~~~~~~~~~g~~~~-~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  236 (766)
                      |....+.|..+.....++  .|+ +..|---.+.=.     + ...=.++++...+. +|.++..|...+    ...+.+
T Consensus       327 RLhp~d~aK~vvA~Avr~--~P~Sv~lW~kA~dLE~-----~-~~~K~RVlRKALe~-iP~sv~LWKaAV----elE~~~  393 (913)
T KOG0495|consen  327 RLHPPDVAKTVVANAVRF--LPTSVRLWLKAADLES-----D-TKNKKRVLRKALEH-IPRSVRLWKAAV----ELEEPE  393 (913)
T ss_pred             hcCChHHHHHHHHHHHHh--CCCChhhhhhHHhhhh-----H-HHHHHHHHHHHHHh-CCchHHHHHHHH----hccChH
Confidence            455666677776666654  243 333322221110     0 12233555555554 456666665544    456777


Q ss_pred             hHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHH-
Q 004244          237 MGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEI-  315 (766)
Q Consensus       237 ~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m-  315 (766)
                      .|+-++.+..+. |+.+...|.    +|.+..-++.|.+++++..+. ++.+...|.+-...--.+|..+...+++.+- 
T Consensus       394 darilL~rAvec-cp~s~dLwl----AlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl  467 (913)
T KOG0495|consen  394 DARILLERAVEC-CPQSMDLWL----ALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGL  467 (913)
T ss_pred             HHHHHHHHHHHh-ccchHHHHH----HHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            799999999885 344555554    455667889999999998764 6668888888777777889988888887654 


Q ss_pred             ---HHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC--ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004244          316 ---SRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSP--NVVTYTSLINSMCKSGNLNRAMEFFDQMHVREL  390 (766)
Q Consensus       316 ---~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  390 (766)
                         ...|+..+...|..=...|-..|..-.+..+....+..|+..  -..+|+.-...+.+.+.++-|..+|...++. .
T Consensus       468 ~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-f  546 (913)
T KOG0495|consen  468 SELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-F  546 (913)
T ss_pred             HHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-c
Confidence               456888888888888888889999999999999988877664  3568888899999999999999999998876 3


Q ss_pred             CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004244          391 RPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTI  470 (766)
Q Consensus       391 ~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  470 (766)
                      +.+...|...+..--..|..++-..+|++....- +-....|....+.+-..|++..|..++..+.+.... +...|-+-
T Consensus       547 p~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaa  624 (913)
T KOG0495|consen  547 PCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAA  624 (913)
T ss_pred             cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHH
Confidence            4467778888877778899999999999999873 445566777777788889999999999999988655 78889999


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh
Q 004244          471 ISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDI  550 (766)
Q Consensus       471 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  550 (766)
                      +.......+++.|..+|.+....  .|+...|.--+...--.++.++|.+++++.++. ++.-...|..+...+-+.+++
T Consensus       625 vKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~i  701 (913)
T KOG0495|consen  625 VKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENI  701 (913)
T ss_pred             HHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHH
Confidence            99999999999999999988764  467777777777777789999999999999886 233356788888999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhh
Q 004244          551 PQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFC  630 (766)
Q Consensus       551 ~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~  630 (766)
                      +.|.+.|..-.+. ++-....|..+.+.--+.|..-.|..++++..-. .+.+...|...+               ..-.
T Consensus       702 e~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlk-NPk~~~lwle~I---------------r~El  764 (913)
T KOG0495|consen  702 EMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLK-NPKNALLWLESI---------------RMEL  764 (913)
T ss_pred             HHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhc-CCCcchhHHHHH---------------HHHH
Confidence            9999999887765 4556667877777778899999999999998765 344666777777               8888


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 004244          631 MKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQ  710 (766)
Q Consensus       631 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  710 (766)
                      +.|+.+.|..+..++++. ++.+...|..-|...-+.++-..+...+++.     .-|+.....+...+....++++|..
T Consensus       765 R~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~DALkkc-----e~dphVllaia~lfw~e~k~~kar~  838 (913)
T KOG0495|consen  765 RAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSIDALKKC-----EHDPHVLLAIAKLFWSEKKIEKARE  838 (913)
T ss_pred             HcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHHHHHHhc-----cCCchhHHHHHHHHHHHHHHHHHHH
Confidence            999999999999988875 3335666777777776777766666655553     5667778888889999999999999


Q ss_pred             HHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCCCCCC
Q 004244          711 VIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLPNSGRST  763 (766)
Q Consensus       711 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~  763 (766)
                      +|+++++.+ ++...+|..+...+.+.|.-++-.+++++....  .|.-|-.|
T Consensus       839 Wf~Ravk~d-~d~GD~wa~fykfel~hG~eed~kev~~~c~~~--EP~hG~~W  888 (913)
T KOG0495|consen  839 WFERAVKKD-PDNGDAWAWFYKFELRHGTEEDQKEVLKKCETA--EPTHGELW  888 (913)
T ss_pred             HHHHHHccC-CccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCCCcHH
Confidence            999999998 677888888999999999888888888876553  44445444

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.84  E-value=4.9e-16  Score=177.60  Aligned_cols=302  Identities=10%  Similarity=0.117  Sum_probs=146.6

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          253 NVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLN  332 (766)
Q Consensus       253 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  332 (766)
                      +.....-.+......|+.++|++++.+..... +.+...+..+...+...|++++|.+++++..+.. +.+...+..+..
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            33333444445555666666666666655311 2233345556666666666666666666655532 123444445555


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHH
Q 004244          333 GYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDE  412 (766)
Q Consensus       333 ~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  412 (766)
                      .+...|++++|...++++.+.. +.+.. +..+...+...|+.++|...++++.+..+. +...+..+...+...|..++
T Consensus        92 ~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~  168 (765)
T PRK10049         92 TLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAP  168 (765)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHH
Confidence            5666666666666666665542 22344 555566666666666666666666655322 34444445555555666666


Q ss_pred             HHHHHHHHHHCCCCCCH------HHHHHHHHHHHh-----cCCH---HHHHHHHHHHHHC-CCCCCHH-HH-H---HHHH
Q 004244          413 AYRLLNEMTKNGFMPSI------VTYNALIKGHCT-----GGRV---EDAVGVLHGMARK-GLAPDVV-SY-S---TIIS  472 (766)
Q Consensus       413 A~~l~~~m~~~g~~~~~------~~~~~ll~~~~~-----~g~~---~~A~~~~~~~~~~-~~~~~~~-~~-~---~li~  472 (766)
                      |++.++....   .|+.      .....++.....     .+++   ++|+..++.+.+. ...|+.. .+ .   ..+.
T Consensus       169 Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~  245 (765)
T PRK10049        169 ALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLG  245 (765)
T ss_pred             HHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHH
Confidence            6665554443   1211      011111222111     1122   4555555555543 1112111 11 0   0022


Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcC
Q 004244          473 GFSRSQELDKAFDTKREMVEKGVL-PDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSP---DEFTYTTLINAYCTEG  548 (766)
Q Consensus       473 ~~~~~g~~~~A~~~~~~m~~~~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p---~~~~~~~l~~~~~~~g  548 (766)
                      .+...|++++|+..|+++.+.+.. |+. ....+...|...|++++|+..|+++.......   .......+..++...|
T Consensus       246 ~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g  324 (765)
T PRK10049        246 ALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESE  324 (765)
T ss_pred             HHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcc
Confidence            234446666666666666555321 221 11123445666666666666666655432110   1223344444556666


Q ss_pred             ChHHHHHHHHHHHHC
Q 004244          549 DIPQALRLHDEMIQK  563 (766)
Q Consensus       549 ~~~~A~~~~~~~~~~  563 (766)
                      ++++|..+++.+...
T Consensus       325 ~~~eA~~~l~~~~~~  339 (765)
T PRK10049        325 NYPGALTVTAHTINN  339 (765)
T ss_pred             cHHHHHHHHHHHhhc
Confidence            666666666666543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.84  E-value=2.1e-15  Score=168.67  Aligned_cols=445  Identities=12%  Similarity=0.103  Sum_probs=280.7

Q ss_pred             HHHhcCChhhHHHHHHHHHhCCCCcCH--HHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCh
Q 004244          228 GFCGVGDLEMGLRFFSEMEKNNCLANV--VTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRL  305 (766)
Q Consensus       228 ~~~~~g~~~~A~~~~~~m~~~g~~~~~--~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~  305 (766)
                      ...+.|+++.|++.|++..+..  |+.  ..+ .++..+...|+.++|+..+++..... .........+...+...|++
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcCCH
Confidence            3556777777777777776653  332  233 66666667777777777777766210 11122222224456666777


Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004244          306 KETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQM  385 (766)
Q Consensus       306 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  385 (766)
                      ++|+++|+++.+.... +...+..++..+...++.++|++.++.+...  .|+...+..++..+...++..+|++.++++
T Consensus       119 d~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekl  195 (822)
T PRK14574        119 DQALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEA  195 (822)
T ss_pred             HHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            7777777777765422 3445555566667777777777777776654  344444444444444445555577777777


Q ss_pred             HHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 004244          386 HVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVV  465 (766)
Q Consensus       386 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  465 (766)
                      .+.. +.+...+..+...+.+.|-...|.++..+-      |+..+-......     +.+.|.+..+.    +..++..
T Consensus       196 l~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~------p~~f~~~~~~~l-----~~~~~a~~vr~----a~~~~~~  259 (822)
T PRK14574        196 VRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKEN------PNLVSAEHYRQL-----ERDAAAEQVRM----AVLPTRS  259 (822)
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhC------ccccCHHHHHHH-----HHHHHHHHHhh----ccccccc
Confidence            7663 224555666666667777666666555442      221111111000     01111111111    1000000


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHC-CCCCCH-HH----HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 004244          466 SYSTIISGFSRSQELDKAFDTKREMVEK-GVLPDT-IT----YSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTT  539 (766)
Q Consensus       466 ~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~-~~----~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  539 (766)
                      - .      .+---.+.|+.-++.+... +..|.. ..    ..-.+-++...|++.++++.|+.+...+.+....+-..
T Consensus       260 ~-~------~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a  332 (822)
T PRK14574        260 E-T------ERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRW  332 (822)
T ss_pred             c-h------hhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHH
Confidence            0 0      0111245566666665542 222321 11    12234477888999999999999998876545557788


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-------------CC
Q 004244          540 LINAYCTEGDIPQALRLHDEMIQKG-----FLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDE-------------SV  601 (766)
Q Consensus       540 l~~~~~~~g~~~~A~~~~~~~~~~g-----~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~-------------~~  601 (766)
                      +.++|...++.++|..++.++....     .+++......|.-++...+++++|..+++++.+..             ..
T Consensus       333 ~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn  412 (822)
T PRK14574        333 AASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPN  412 (822)
T ss_pred             HHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCC
Confidence            9999999999999999999987542     23345556778889999999999999999998731             11


Q ss_pred             CcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHH
Q 004244          602 PSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKM  680 (766)
Q Consensus       602 p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m  680 (766)
                      ||-..+..+              ++..+...|++.+|++.++++....  | |......+.+.+...|++.+|.+.++.+
T Consensus       413 ~d~~~~~~l--------------~a~~~~~~gdl~~Ae~~le~l~~~a--P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a  476 (822)
T PRK14574        413 DDWIEGQTL--------------LVQSLVALNDLPTAQKKLEDLSSTA--PANQNLRIALASIYLARDLPRKAEQELKAV  476 (822)
T ss_pred             ccHHHHHHH--------------HHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            222222222              2367888999999999999998753  5 8999999999999999999999999887


Q ss_pred             HHcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 004244          681 VRSGFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRSCR  720 (766)
Q Consensus       681 ~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  720 (766)
                      ..  ..|+. .+....+.++...|++++|....+++++..|
T Consensus       477 ~~--l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~P  515 (822)
T PRK14574        477 ES--LAPRSLILERAQAETAMALQEWHQMELLTDDVISRSP  515 (822)
T ss_pred             hh--hCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCC
Confidence            73  46665 5666888899999999999999999999973

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.81  E-value=2.3e-14  Score=160.45  Aligned_cols=440  Identities=13%  Similarity=0.087  Sum_probs=325.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--hhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 004244          150 DLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGV--LSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIR  227 (766)
Q Consensus       150 ~~l~~~~~~~g~~~~A~~~~~~~~~~g~~~~~--~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  227 (766)
                      -.-+-...+.|+++.|+..|+...+..  |+.  ..+ .++..+...|+.   ++|+..+++.... .+........+..
T Consensus        38 y~~aii~~r~Gd~~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~---~~A~~~~eka~~p-~n~~~~~llalA~  110 (822)
T PRK14574         38 YDSLIIRARAGDTAPVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRD---QEVIDVYERYQSS-MNISSRGLASAAR  110 (822)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCc---HHHHHHHHHhccC-CCCCHHHHHHHHH
Confidence            334445679999999999999998764  543  233 777777777853   8999999998821 1233444444466


Q ss_pred             HHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhH
Q 004244          228 GFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKE  307 (766)
Q Consensus       228 ~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  307 (766)
                      .+...|++++|+++|+++.+.. +.|...+..++..+...++.++|++.++++...  .|+...+..++..+...++..+
T Consensus       111 ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~  187 (822)
T PRK14574        111 AYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYD  187 (822)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHH
Confidence            8888999999999999999875 445777778889999999999999999999876  4666666555444545677767


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHH------HHHHHHHH---H--hcCC--
Q 004244          308 TKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVT------YTSLINSM---C--KSGN--  374 (766)
Q Consensus       308 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~------~~~li~~~---~--~~g~--  374 (766)
                      |++.++++.+... -+...+..+...+.+.|-...|.++..+-... +.+....      ...+++.-   .  ...+  
T Consensus       188 AL~~~ekll~~~P-~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~  265 (822)
T PRK14574        188 ALQASSEAVRLAP-TSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFD  265 (822)
T ss_pred             HHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            9999999999642 25667788889999999999998877653321 1111100      11111111   0  1122  


Q ss_pred             -HHHHHHHHHHHHHC-CCCCC-HhH----HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004244          375 -LNRAMEFFDQMHVR-ELRPN-EKT----YTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVED  447 (766)
Q Consensus       375 -~~~A~~~~~~m~~~-~~~~~-~~~----~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~  447 (766)
                       .+.|+.-++.+... +..|. ...    ..-.+-++...|++.++++.|+.+...|.+....+-..+.++|...+++++
T Consensus       266 ~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~k  345 (822)
T PRK14574        266 IADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEK  345 (822)
T ss_pred             HHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHH
Confidence             34566666666553 12232 122    223456778899999999999999999877666788899999999999999


Q ss_pred             HHHHHHHHHHCC-----CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCC-------------CCCHH-HHHHHHHH
Q 004244          448 AVGVLHGMARKG-----LAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGV-------------LPDTI-TYSSLIHG  508 (766)
Q Consensus       448 A~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-------------~p~~~-~~~~li~~  508 (766)
                      |..++..+....     ..++......|..+|...+++++|..+++.+.+...             .||-. .+..++..
T Consensus       346 A~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~  425 (822)
T PRK14574        346 AAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQS  425 (822)
T ss_pred             HHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHH
Confidence            999999997753     123444567899999999999999999999987421             12222 24456777


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 004244          509 LCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEA  588 (766)
Q Consensus       509 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A  588 (766)
                      +...|+..+|++.++++.... |-|......+.+.+...|.+.+|++.++..... .+-+..+....+..+...|++++|
T Consensus       426 ~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l-~P~~~~~~~~~~~~al~l~e~~~A  503 (822)
T PRK14574        426 LVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVESL-APRSLILERAQAETAMALQEWHQM  503 (822)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh-CCccHHHHHHHHHHHHhhhhHHHH
Confidence            889999999999999998875 778999999999999999999999999777654 344566777788888899999999


Q ss_pred             HHHHHHHHhCCCCCcHH
Q 004244          589 KKLLLKLFYDESVPSDV  605 (766)
Q Consensus       589 ~~l~~~~~~~~~~p~~~  605 (766)
                      ..+.+.+...  .|+..
T Consensus       504 ~~~~~~l~~~--~Pe~~  518 (822)
T PRK14574        504 ELLTDDVISR--SPEDI  518 (822)
T ss_pred             HHHHHHHHhh--CCCch
Confidence            9999998874  45544

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

Probab=99.81  E-value=1.8e-13  Score=145.21  Aligned_cols=607  Identities=15%  Similarity=0.130  Sum_probs=321.8

Q ss_pred             HHHHHhCCCchHHHHHHHHHHHhCCCCChhhHHHHHHHhcccCCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004244           98 LHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGF  177 (766)
Q Consensus        98 ~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~  177 (766)
                      +..|...|.+.+|..++.++++..+.                     ++..|..|...|-..|+.++|...+-.+.... 
T Consensus       146 AN~lfarg~~eeA~~i~~EvIkqdp~---------------------~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-  203 (895)
T KOG2076|consen  146 ANNLFARGDLEEAEEILMEVIKQDPR---------------------NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-  203 (895)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhCcc---------------------chhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-
Confidence            56677778999999998888876543                     44566677777777777777776665544332 


Q ss_pred             CCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHH
Q 004244          178 MPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTY  257 (766)
Q Consensus       178 ~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~  257 (766)
                      +-|...|-.+-.-..+.|  . +++|.-.|.+..+.. +++...+---+..|-+.|+...|.+-|.++.+...+.|..-.
T Consensus       204 p~d~e~W~~ladls~~~~--~-i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~  279 (895)
T KOG2076|consen  204 PKDYELWKRLADLSEQLG--N-INQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERI  279 (895)
T ss_pred             CCChHHHHHHHHHHHhcc--c-HHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHH
Confidence            223345555555555555  2 377777777777664 334333333455566677777777777777665322222212


Q ss_pred             ----HHHHHHHHHcCChhHHHHHHHHHhhCC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC----------
Q 004244          258 ----NTLIDGYCKLGRIDDAFKLLRDMGLKG-IEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVP----------  322 (766)
Q Consensus       258 ----~~li~~~~~~g~~~~A~~l~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p----------  322 (766)
                          -..++.+...++-+.|.+.++.....+ -.-+...++.++..|.+...++.|......+......+          
T Consensus       280 ~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~  359 (895)
T KOG2076|consen  280 EDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDER  359 (895)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhh
Confidence                223444555666666776666655421 12234456666677777777777766666665511111          


Q ss_pred             -----------------CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC--CCCChHHHHHHHHHHHhcCCHHHHHHHHH
Q 004244          323 -----------------DEVTYNTLLNGYCKEGNLHQALVLHAEMVRNG--LSPNVVTYTSLINSMCKSGNLNRAMEFFD  383 (766)
Q Consensus       323 -----------------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~  383 (766)
                                       +..+ ..+.-++.+....+....+.....+..  +..++..|.-+..+|...|++.+|+++|.
T Consensus       360 ~~~~~~~~~~~~~~~s~~l~v-~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~  438 (895)
T KOG2076|consen  360 RREEPNALCEVGKELSYDLRV-IRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLS  438 (895)
T ss_pred             ccccccccccCCCCCCccchh-HhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHH
Confidence                             1111 112222333333333333444444443  23345566677777777777777777777


Q ss_pred             HHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH------
Q 004244          384 QMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMAR------  457 (766)
Q Consensus       384 ~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~------  457 (766)
                      .+......-+...|-.+..+|-..|..++|.+.|+..+... +.+...--.|...+-+.|+.++|.+.++.+..      
T Consensus       439 ~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~  517 (895)
T KOG2076|consen  439 PITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNA  517 (895)
T ss_pred             HHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccch
Confidence            77666444456667777777777777777777777776642 22333444455556677777777777766432      


Q ss_pred             --CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCC-----CC-----------------CHH-------------
Q 004244          458 --KGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGV-----LP-----------------DTI-------------  500 (766)
Q Consensus       458 --~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-----~p-----------------~~~-------------  500 (766)
                        .+..|+........+.+.+.|+.++=+.+...|+....     .|                 ...             
T Consensus       518 e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~  597 (895)
T KOG2076|consen  518 EACAWEPERRILAHRCDILFQVGKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKAT  597 (895)
T ss_pred             hhccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccC
Confidence              12233333344444555666665554443333332110     00                 000             


Q ss_pred             ------------------------------HHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHH----HHHHHHHHHH
Q 004244          501 ------------------------------TYSSLIHGLCEQRRITEACELFQEMLSRGM-SPDEF----TYTTLINAYC  545 (766)
Q Consensus       501 ------------------------------~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~----~~~~l~~~~~  545 (766)
                                                    .+..++..+++.+++++|+.+...+..... ..+..    .-...+.+.+
T Consensus       598 ~~~~~~~~l~d~~~~~~~e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~  677 (895)
T KOG2076|consen  598 DDNVMEKALSDGTEFRAVELRGLSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASL  677 (895)
T ss_pred             chHHhhhcccchhhhhhhhhccCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHH
Confidence                                          122333344444444444444444443211 00111    1112223334


Q ss_pred             hcCChHHHHHHHHHHHHC-CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhh
Q 004244          546 TEGDIPQALRLHDEMIQK-GFLP---DVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQN  621 (766)
Q Consensus       546 ~~g~~~~A~~~~~~~~~~-g~~p---~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~  621 (766)
                      ..+++..|...++.|+.. ++..   -...|+...+.+.+.|+-.--.+++.....  ..|+......++.+        
T Consensus       678 ~~~d~~~a~~~lR~~i~~~~~~~~~~q~~l~n~~~s~~~~~~q~v~~~R~~~~~~~--~~~~~~~~l~~i~g--------  747 (895)
T KOG2076|consen  678 YARDPGDAFSYLRSVITQFQFYLDVYQLNLWNLDFSYFSKYGQRVCYLRLIMRLLV--KNKDDTPPLALIYG--------  747 (895)
T ss_pred             hcCCHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--cCccCCcceeeeec--------
Confidence            444444444444444432 1111   112233222233333322222222222221  11111111111100        


Q ss_pred             HHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHh----------ccCChHHHHHHHHHHHHcCCC-CCH
Q 004244          622 VAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYD-IIIHGHS----------KVGNVQKAYDLYKKMVRSGFV-PHT  689 (766)
Q Consensus       622 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~-~l~~~~~----------~~g~~~~A~~~~~~m~~~~~~-p~~  689 (766)
                           +....++.+..|+..+-++...  .|+....+ +++-++.          ++-..-+++.++.+..+.... -..
T Consensus       748 -----h~~~~~~s~~~Al~~y~ra~~~--~pd~Pl~nl~lglafih~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~Q  820 (895)
T KOG2076|consen  748 -----HNLFVNASFKHALQEYMRAFRQ--NPDSPLINLCLGLAFIHLALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQ  820 (895)
T ss_pred             -----hhHhhccchHHHHHHHHHHHHh--CCCCcHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHH
Confidence                 3345678899999988887764  35433332 2222222          112234566676666543211 134


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-----------hHHHHHHHHHHHhcCCChhHHHHHHHH
Q 004244          690 VTIIVLVKALHTAGMNEELSQVIENILRSCRLS-----------DAELAKVLVEINHKEGNMDAVLNVLTE  749 (766)
Q Consensus       690 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~A~~~~~~  749 (766)
                      +++-.++++|-..|-..-|+.+|+++++..|++           -..+..+|.-+|...|+..-|..++++
T Consensus       821 Ea~YNigRayh~~gl~~LA~~YYekvL~~~p~~~~~~~~d~~dLrkeAA~NL~LIY~~SGn~~lArqil~k  891 (895)
T KOG2076|consen  821 EAFYNIGRAYHQIGLVHLAVSYYEKVLEVSPKDVTDPKEDNYDLRKEAAYNLHLIYKKSGNMQLARQILEK  891 (895)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHhCCCccccccccCCcccHHHHHHhhhhhhhccCCcHHHHHHHHHh
Confidence            677789999999999999999999999985322           123445688899999999999998865

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.80  E-value=1e-14  Score=141.22  Aligned_cols=317  Identities=15%  Similarity=0.216  Sum_probs=174.0

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhh
Q 004244          158 HLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEM  237 (766)
Q Consensus       158 ~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  237 (766)
                      ..|.+.++.-+|++|...|...+...--.|+...+-.+..+..-.-++.|-.|.+.| ..+..+|        +.|++.+
T Consensus       127 S~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~-E~S~~sW--------K~G~vAd  197 (625)
T KOG4422|consen  127 SSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG-EDSTSSW--------KSGAVAD  197 (625)
T ss_pred             hhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc-ccccccc--------ccccHHH
Confidence            357777888888888777777666666666554333222121122345555565554 2233333        3444433


Q ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q 004244          238 GLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISR  317 (766)
Q Consensus       238 A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  317 (766)
                        -+|+..     +.+..+|..+|.++|+--..++|.+++++-.....+.+..+||.+|.+-.-    -...+++.+|..
T Consensus       198 --L~~E~~-----PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~----~~~K~Lv~EMis  266 (625)
T KOG4422|consen  198 --LLFETL-----PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----SVGKKLVAEMIS  266 (625)
T ss_pred             --HHHhhc-----CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----hccHHHHHHHHH
Confidence              233332     225567777777777777777777777777666666677777777755322    222667777777


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHH----HHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHH-HHHHHHHHHHC----
Q 004244          318 KGLVPDEVTYNTLLNGYCKEGNLHQA----LVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNR-AMEFFDQMHVR----  388 (766)
Q Consensus       318 ~g~~p~~~~~~~li~~~~~~g~~~~A----~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~----  388 (766)
                      ..+.||..|+|+++.+..+.|+++.|    .+++.+|++.|+.|...+|..+|..+++.++..+ |..+..++...    
T Consensus       267 qkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK  346 (625)
T KOG4422|consen  267 QKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGK  346 (625)
T ss_pred             hhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccC
Confidence            77777777777777777777766543    4566677777777777777777777777666533 33333333321    


Q ss_pred             CCC---C-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004244          389 ELR---P-NEKTYTTLINGFSQHGFLDEAYRLLNEMTKNG----FMPS---IVTYNALIKGHCTGGRVEDAVGVLHGMAR  457 (766)
Q Consensus       389 ~~~---~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g----~~~~---~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  457 (766)
                      ...   | |..-|..-++.|....+.+-|.++..-+....    +.|+   ..-|..+....|+....+.-...++.|.-
T Consensus       347 ~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP  426 (625)
T KOG4422|consen  347 TFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVP  426 (625)
T ss_pred             cccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            111   1 23334444555555555555555444333210    1111   11233444444555555555555555554


Q ss_pred             CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 004244          458 KGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKG  494 (766)
Q Consensus       458 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  494 (766)
                      .-+-|+..+...++.+.--.|.++-.-+++.+++..|
T Consensus       427 ~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~g  463 (625)
T KOG4422|consen  427 SAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYG  463 (625)
T ss_pred             ceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhh
Confidence            4444444444444454444555555555555444443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.79  E-value=1.5e-14  Score=140.01  Aligned_cols=326  Identities=18%  Similarity=0.254  Sum_probs=230.8

Q ss_pred             CHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhc--CChhhH-HHHHHHHHhCCCCcCHHH
Q 004244          180 GVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGV--GDLEMG-LRFFSEMEKNNCLANVVT  256 (766)
Q Consensus       180 ~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~--g~~~~A-~~~~~~m~~~g~~~~~~~  256 (766)
                      .+.+-|.|+.......    +.++.-+|+.|...|++.+...--.|...-|-.  .++--| .+.|-.|.+.| ..+..+
T Consensus       115 ~V~~E~nL~kmIS~~E----vKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~-E~S~~s  189 (625)
T KOG4422|consen  115 QVETENNLLKMISSRE----VKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG-EDSTSS  189 (625)
T ss_pred             hhcchhHHHHHHhhcc----cchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc-cccccc
Confidence            3456677877766533    588999999999999888887777777655433  333222 34555555555 334444


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004244          257 YNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCK  336 (766)
Q Consensus       257 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  336 (766)
                      |        +.|.+.+  -+|+..+     ....+|..||.++|+-...+.|.+++++......+.+..+||.+|.+-.-
T Consensus       190 W--------K~G~vAd--L~~E~~P-----KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~  254 (625)
T KOG4422|consen  190 W--------KSGAVAD--LLFETLP-----KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY  254 (625)
T ss_pred             c--------ccccHHH--HHHhhcC-----CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh
Confidence            4        3455443  4444443     35679999999999999999999999999988778899999998876432


Q ss_pred             cCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHH----HHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHH
Q 004244          337 EGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNR----AMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDE  412 (766)
Q Consensus       337 ~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~----A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  412 (766)
                          ....++..+|....+.||..|+|+++.+..+.|+++.    |.+++.+|.+.|+.|...+|..+|..+++.++..+
T Consensus       255 ----~~~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k  330 (625)
T KOG4422|consen  255 ----SVGKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQK  330 (625)
T ss_pred             ----hccHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchh
Confidence                2337899999999999999999999999999998765    45678889999999999999999999999887644


Q ss_pred             -HHHHHHHHHH----CCCC----CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCCC---HHHHHHHHHHHHc
Q 004244          413 -AYRLLNEMTK----NGFM----PSIVTYNALIKGHCTGGRVEDAVGVLHGMARKG----LAPD---VVSYSTIISGFSR  476 (766)
Q Consensus       413 -A~~l~~~m~~----~g~~----~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~----~~~~---~~~~~~li~~~~~  476 (766)
                       |..++.++..    +.++    .|...|...+..|.+..+.+-|.++..-.....    +.|+   ..-|..+....|+
T Consensus       331 ~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq  410 (625)
T KOG4422|consen  331 VASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQ  410 (625)
T ss_pred             hhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHH
Confidence             5555555543    2222    344567777888888888888888876655421    1122   2234555566666


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 004244          477 SQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRG  529 (766)
Q Consensus       477 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  529 (766)
                      ....+.-...|+.|+..-.-|+..+...++++..-.|.++-.-+++.++...|
T Consensus       411 ~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~g  463 (625)
T KOG4422|consen  411 MESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYG  463 (625)
T ss_pred             HHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhh
Confidence            67777777777777666566666666666666666666666666666666655

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

Probab=99.77  E-value=9.3e-13  Score=134.39  Aligned_cols=509  Identities=12%  Similarity=0.048  Sum_probs=406.9

Q ss_pred             HHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHH
Q 004244          165 AVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSE  244 (766)
Q Consensus       165 A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  244 (766)
                      =..+++...++- .-++..|...+.    ....   +.|+-++.+.++. ++.+...|    .+|.+..-++.|..+++.
T Consensus       365 K~RVlRKALe~i-P~sv~LWKaAVe----lE~~---~darilL~rAvec-cp~s~dLw----lAlarLetYenAkkvLNk  431 (913)
T KOG0495|consen  365 KKRVLRKALEHI-PRSVRLWKAAVE----LEEP---EDARILLERAVEC-CPQSMDLW----LALARLETYENAKKVLNK  431 (913)
T ss_pred             HHHHHHHHHHhC-CchHHHHHHHHh----ccCh---HHHHHHHHHHHHh-ccchHHHH----HHHHHHHHHHHHHHHHHH
Confidence            345666666542 334555555443    2221   5689999888875 45555544    456677889999999999


Q ss_pred             HHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHH----hhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCC
Q 004244          245 MEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDM----GLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGL  320 (766)
Q Consensus       245 m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m----~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  320 (766)
                      ..+. ++.+...|.+-...--.+|+.+...+++++-    ...|+..+...|-.=...+-..|..-.+..+....+..|+
T Consensus       432 aRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigv  510 (913)
T KOG0495|consen  432 AREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGV  510 (913)
T ss_pred             HHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhcc
Confidence            9876 5778889988877777899999999887764    5568888888998888888889999999999999888877


Q ss_pred             CCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHH
Q 004244          321 VPD--EVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYT  398 (766)
Q Consensus       321 ~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~  398 (766)
                      +-.  ..||..-...|.+.+.++-|+.+|...++- .+.+...|...+..--..|..++-..+|++.... ++-....|.
T Consensus       511 Eeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwl  588 (913)
T KOG0495|consen  511 EEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWL  588 (913)
T ss_pred             ccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHH
Confidence            643  457888888899999999999999999876 3457788888887777789999999999999887 344667777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 004244          399 TLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQ  478 (766)
Q Consensus       399 ~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  478 (766)
                      .....+-..|+...|..++.+..+.. +.+...|..-++.......++.|..+|.+....  .|+...|.--+...--.+
T Consensus       589 M~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld  665 (913)
T KOG0495|consen  589 MYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLD  665 (913)
T ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhh
Confidence            88888889999999999999999875 337778888899999999999999999998875  456677766677777789


Q ss_pred             CHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 004244          479 ELDKAFDTKREMVEKGVLPD-TITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLH  557 (766)
Q Consensus       479 ~~~~A~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  557 (766)
                      +.++|++++++..+.  -|+ ...|..+.+.+-+.++++.|.+.|..-.+. ++.....|..|...--+.|.+-.|..++
T Consensus       666 ~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~il  742 (913)
T KOG0495|consen  666 NVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSIL  742 (913)
T ss_pred             hHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHH
Confidence            999999999998875  234 456778888899999999999998877665 3555667888888888999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHH
Q 004244          558 DEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNE  637 (766)
Q Consensus       558 ~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~  637 (766)
                      +...-++ +.+...|...|..-.+.|+.+.|..++.+.++. ++-+...|...|               ...-+.++-..
T Consensus       743 drarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI---------------~le~~~~rkTk  805 (913)
T KOG0495|consen  743 DRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAI---------------WLEPRPQRKTK  805 (913)
T ss_pred             HHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHH---------------HhccCcccchH
Confidence            9998764 668889999999999999999999999999886 555666676666               56666666555


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHH
Q 004244          638 ADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQVIENIL  716 (766)
Q Consensus       638 A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~  716 (766)
                      +...+++     ..-|+.....+...+....++++|.+.|.+.++.  .||. .+|..+......+|.-++-.+++.+..
T Consensus       806 s~DALkk-----ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~--d~d~GD~wa~fykfel~hG~eed~kev~~~c~  878 (913)
T KOG0495|consen  806 SIDALKK-----CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKK--DPDNGDAWAWFYKFELRHGTEEDQKEVLKKCE  878 (913)
T ss_pred             HHHHHHh-----ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHcc--CCccchHHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence            5544443     3347777788899999999999999999999955  4655 788889999999999999999999998


Q ss_pred             HcC
Q 004244          717 RSC  719 (766)
Q Consensus       717 ~~~  719 (766)
                      ...
T Consensus       879 ~~E  881 (913)
T KOG0495|consen  879 TAE  881 (913)
T ss_pred             ccC
Confidence            886

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

Probab=99.76  E-value=3.4e-12  Score=135.79  Aligned_cols=592  Identities=13%  Similarity=0.068  Sum_probs=368.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCC
Q 004244          155 SYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGD  234 (766)
Q Consensus       155 ~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  234 (766)
                      .+++ |+.++|..++.++.+.. ......|..|...+-..|+   ..++...+-.....+ +-|...|..+.....+.|+
T Consensus       149 lfar-g~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd---~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~  222 (895)
T KOG2076|consen  149 LFAR-GDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGD---IEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGN  222 (895)
T ss_pred             HHHh-CCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHccc---HHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhccc
Confidence            3455 99999999999998764 3456688899999988884   388888877665553 5677899999999999999


Q ss_pred             hhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHH----HHHHHHHHHcCChhHHHH
Q 004244          235 LEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISY----NVIINGLCKEGRLKETKG  310 (766)
Q Consensus       235 ~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~----~~li~~~~~~g~~~~a~~  310 (766)
                      ++.|.-.|.+.++.. +++...+---+..|-+.|+..+|..-|.++.....+.|..-.    -.+++.+...++-+.|.+
T Consensus       223 i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~  301 (895)
T KOG2076|consen  223 INQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAK  301 (895)
T ss_pred             HHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            999999999999985 556666666778888999999999999999876432222222    234566777787799999


Q ss_pred             HHHHHHHCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC---------------------------CCCChHHH
Q 004244          311 ILNEISRKG-LVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNG---------------------------LSPNVVTY  362 (766)
Q Consensus       311 ~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g---------------------------~~~~~~~~  362 (766)
                      .++.....+ -..+...++.++..+.+...++.|......+....                           ..++..+ 
T Consensus       302 ~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-  380 (895)
T KOG2076|consen  302 ALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-  380 (895)
T ss_pred             HHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-
Confidence            999888732 12345567888888999999999988887776622                           2222222 


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004244          363 TSLINSMCKSGNLNRAMEFFDQMHVRE--LRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHC  440 (766)
Q Consensus       363 ~~li~~~~~~g~~~~A~~~~~~m~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~  440 (766)
                      --+.-++......+....+.....+..  +.-+...|.-+.+++...|++.+|..+|..+.......+...|-.+..+|-
T Consensus       381 ~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~  460 (895)
T KOG2076|consen  381 IRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYM  460 (895)
T ss_pred             HhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHH
Confidence            122233334444444444555555554  334577889999999999999999999999998866667889999999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC--------CCCCCHHHHHHHHHHHHhc
Q 004244          441 TGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEK--------GVLPDTITYSSLIHGLCEQ  512 (766)
Q Consensus       441 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--------~~~p~~~~~~~li~~~~~~  512 (766)
                      ..|..++|.+.++..+...+. +...--.|...+.+.|+.++|.+.+..+..-        +..|+........+.+.+.
T Consensus       461 ~l~e~e~A~e~y~kvl~~~p~-~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~  539 (895)
T KOG2076|consen  461 ELGEYEEAIEFYEKVLILAPD-NLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQV  539 (895)
T ss_pred             HHhhHHHHHHHHHHHHhcCCC-chhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHh
Confidence            999999999999999987433 5666677788899999999999999986532        2344555555566677888


Q ss_pred             CCHHHHHHHHHHHHHCC-----CCC-----------------CHHHHHHHHHHHHhcCChHHHHHHHHHH------HHCC
Q 004244          513 RRITEACELFQEMLSRG-----MSP-----------------DEFTYTTLINAYCTEGDIPQALRLHDEM------IQKG  564 (766)
Q Consensus       513 g~~~~A~~~~~~m~~~~-----~~p-----------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~------~~~g  564 (766)
                      |+.++-+.....|+...     +-|                 ...+...++.+-.+.++.....+-...-      ...|
T Consensus       540 gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~  619 (895)
T KOG2076|consen  540 GKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRG  619 (895)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhcc
Confidence            88887665555554321     001                 1111222222322333222211111110      0111


Q ss_pred             CCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCcHH---hHHHHhhhhc------hhhhh------------
Q 004244          565 FLPDV--VTYSVLINGLNKQARTMEAKKLLLKLFYDES-VPSDV---IYNTLIENCT------NIEFQ------------  620 (766)
Q Consensus       565 ~~p~~--~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~-~p~~~---~~~~ll~~~~------~~~~~------------  620 (766)
                      +.-+.  ..+.-++..+++.+++++|..+...+..... .-+..   ....+.-.|+      +..+.            
T Consensus       620 Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~  699 (895)
T KOG2076|consen  620 LSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFY  699 (895)
T ss_pred             CcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhh
Confidence            11111  1233445555666666666666555544311 11111   1111110000      00000            


Q ss_pred             -------hHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHH
Q 004244          621 -------NVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTII  693 (766)
Q Consensus       621 -------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  693 (766)
                             .++...+...+.|+-.--.+.+..+.......++..+...++.+...+.+..|+..+-++...  .||....+
T Consensus       700 ~~~~q~~l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~--~pd~Pl~n  777 (895)
T KOG2076|consen  700 LDVYQLNLWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQ--NPDSPLIN  777 (895)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHh--CCCCcHHH
Confidence                   000011222222222222222222222111112223333344455678888899888777643  56643333


Q ss_pred             -HHHHHHH----------hcCChHHHHHHHHHHHHcCCC-ChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC
Q 004244          694 -VLVKALH----------TAGMNEELSQVIENILRSCRL-SDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLP  757 (766)
Q Consensus       694 -~l~~~~~----------~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  757 (766)
                       +++.++.          ++-..-++..++.+-.+.... ..-.++.+++.+|...|-..-|..++++..+....+
T Consensus       778 l~lglafih~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~~p~~  853 (895)
T KOG2076|consen  778 LCLGLAFIHLALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEVSPKD  853 (895)
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCCCccc
Confidence             3333332          122344567777666655322 245667789999999999999999999998876443

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

Probab=99.74  E-value=1.8e-14  Score=140.28  Aligned_cols=490  Identities=16%  Similarity=0.167  Sum_probs=293.2

Q ss_pred             hHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHH-HHHHHHhcCChhhHHHHHHHHHhCCCCcC------HH
Q 004244          183 SYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNV-LIRGFCGVGDLEMGLRFFSEMEKNNCLAN------VV  255 (766)
Q Consensus       183 ~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~g~~~~------~~  255 (766)
                      +|..|.+.-.+..-+++..+|+..|+-+++...-||.-.... +.+.+.+..++.+|+++++-....  .|+      ..
T Consensus       200 tfsvl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldq--vpsink~~rik  277 (840)
T KOG2003|consen  200 TFSVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQ--VPSINKDMRIK  277 (840)
T ss_pred             hHHHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhh--ccccchhhHHH
Confidence            455554443333333567889999988888777777554432 456678888899999988877664  232      23


Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHH--------
Q 004244          256 TYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTY--------  327 (766)
Q Consensus       256 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~--------  327 (766)
                      ..+.+.-.+.+.|+++.|...|+...+.  .||..+-..++-++..-|+-++..+.|.+|......||..-|        
T Consensus       278 il~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~  355 (840)
T KOG2003|consen  278 ILNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPD  355 (840)
T ss_pred             HHhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcc
Confidence            4455555677889999999999887665  477666555555555678888888889888765333332211        


Q ss_pred             HHHHHHHHhcCC-----------hHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhH
Q 004244          328 NTLLNGYCKEGN-----------LHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKT  396 (766)
Q Consensus       328 ~~li~~~~~~g~-----------~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~  396 (766)
                      ..|+.-..+...           .++++-.-.++..--+.|+-.           .| .+-.++.++.-....+..+.  
T Consensus       356 ~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa-----------~g-~dwcle~lk~s~~~~la~dl--  421 (840)
T KOG2003|consen  356 DNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFA-----------AG-CDWCLESLKASQHAELAIDL--  421 (840)
T ss_pred             hHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchh-----------cc-cHHHHHHHHHhhhhhhhhhh--
Confidence            112221111111           111111111111111111100           00 11112222211111000010  


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH--HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004244          397 YTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIK--GHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGF  474 (766)
Q Consensus       397 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~--~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  474 (766)
                      --.-...+.+.|+++.|.++++-+.+..-..-...-+.|-.  .+..-.++.+|.+.-+......- -+......-...-
T Consensus       422 ei~ka~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dr-yn~~a~~nkgn~~  500 (840)
T KOG2003|consen  422 EINKAGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDR-YNAAALTNKGNIA  500 (840)
T ss_pred             hhhHHHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccc-cCHHHhhcCCcee
Confidence            01112357788999999998888877543322222232222  22223467777777666654321 1222222222334


Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 004244          475 SRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQAL  554 (766)
Q Consensus       475 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  554 (766)
                      ...|++++|.+.|++.....-.-....|+ +.-.+-..|+.++|+..|-++... +..+..+...+.+.|--..+..+|+
T Consensus       501 f~ngd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqai  578 (840)
T KOG2003|consen  501 FANGDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAI  578 (840)
T ss_pred             eecCcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHH
Confidence            56788999999999888753221112222 222466788999999988877653 2346667778888888888999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCC
Q 004244          555 RLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGL  634 (766)
Q Consensus       555 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~  634 (766)
                      +++.+.... ++.|+.....|.+.|-+.|+-.+|.+..-+-.+- ++-+..+..-+.               ..|....-
T Consensus       579 e~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~---------------ayyidtqf  641 (840)
T KOG2003|consen  579 ELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLA---------------AYYIDTQF  641 (840)
T ss_pred             HHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHH---------------HHHHhhHH
Confidence            998887765 6778888889999999999998888876554332 233333333333               56777778


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-hccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 004244          635 MNEADRVFELMLQRNHMPNEAVYDIIIHGH-SKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIE  713 (766)
Q Consensus       635 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~-~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  713 (766)
                      +++|+..|++..-  +.|+..-|..++..| .+.|++.+|+++++....+ ++.|..+..-|++.+...|. .+|.++.+
T Consensus       642 ~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl-~d~key~~  717 (840)
T KOG2003|consen  642 SEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL-KDAKEYAD  717 (840)
T ss_pred             HHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc-hhHHHHHH
Confidence            8899999988776  568888887776554 4689999999999887754 56677788888888777664 33444433


Q ss_pred             H
Q 004244          714 N  714 (766)
Q Consensus       714 ~  714 (766)
                      +
T Consensus       718 k  718 (840)
T KOG2003|consen  718 K  718 (840)
T ss_pred             H
Confidence            3

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

Probab=99.74  E-value=5.6e-12  Score=124.08  Aligned_cols=469  Identities=14%  Similarity=0.101  Sum_probs=275.0

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCH-HHHHHHHH
Q 004244          219 VYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNL-ISYNVIIN  297 (766)
Q Consensus       219 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~~~~~li~  297 (766)
                      ...|-....-=-.++++..|..+|++..... ..+...|.-.+.+-.++..+..|..++++....  -|-+ ..|.-.+.
T Consensus        73 ~~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~y  149 (677)
T KOG1915|consen   73 MQVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIY  149 (677)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHH
Confidence            3334333333344556666666666666544 335555666666666666666666666665442  2222 23333333


Q ss_pred             HHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHH
Q 004244          298 GLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNR  377 (766)
Q Consensus       298 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  377 (766)
                      .--..|++..|.++|++-.+  ..|+...|.+.|+.-.+...++.|..+++..+-.  .|++..|.-....--++|....
T Consensus       150 mEE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~  225 (677)
T KOG1915|consen  150 MEEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVAL  225 (677)
T ss_pred             HHHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHH
Confidence            33445666666666666655  4466666666666666666666666666665542  3666666666666666666666


Q ss_pred             HHHHHHHHHHC-C-CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCH---HHHH-
Q 004244          378 AMEFFDQMHVR-E-LRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPS--IVTYNALIKGHCTGGRV---EDAV-  449 (766)
Q Consensus       378 A~~~~~~m~~~-~-~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~--~~~~~~ll~~~~~~g~~---~~A~-  449 (766)
                      |..+|+...+. | -..+...+.+....-.++..++.|.-+|+-..++= +.+  ...|..+...--+-|+.   ++++ 
T Consensus       226 aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv  304 (677)
T KOG1915|consen  226 ARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDAIV  304 (677)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHHHh
Confidence            66666655543 1 00112233333333344555666666666655541 112  22333333322233432   2222 


Q ss_pred             ----HHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHH--HHHHHHH-----HH---HhcCCH
Q 004244          450 ----GVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTI--TYSSLIH-----GL---CEQRRI  515 (766)
Q Consensus       450 ----~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~--~~~~li~-----~~---~~~g~~  515 (766)
                          --++.+++.+. .|-.+|--.++.-...|+.+...++|++.+.. ++|-..  .|.-.|-     ++   ....++
T Consensus       305 ~KRk~qYE~~v~~np-~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~  382 (677)
T KOG1915|consen  305 GKRKFQYEKEVSKNP-YNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDV  382 (677)
T ss_pred             hhhhhHHHHHHHhCC-CCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence                12333444432 36677777777777778888888888877764 333211  1211111     11   245778


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHH----HhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004244          516 TEACELFQEMLSRGMSPDEFTYTTLINAY----CTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKL  591 (766)
Q Consensus       516 ~~A~~~~~~m~~~~~~p~~~~~~~l~~~~----~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l  591 (766)
                      +.+.++|+..++. ++...+||..+--+|    .++.++..|.+++...+  |.-|...++...|..-.+.++++....+
T Consensus       383 ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkL  459 (677)
T KOG1915|consen  383 ERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKL  459 (677)
T ss_pred             HHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHH
Confidence            8888888888874 455666666554444    36778888888888776  4478888888888888888888888888


Q ss_pred             HHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHhccCCh
Q 004244          592 LLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNH-MPNEAVYDIIIHGHSKVGNV  670 (766)
Q Consensus       592 ~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~  670 (766)
                      +++.++-+ +.+..+|....               ..-...|+.+.|..+|+-+++... ......|.+.|+--...|.+
T Consensus       460 YEkfle~~-Pe~c~~W~kya---------------ElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~  523 (677)
T KOG1915|consen  460 YEKFLEFS-PENCYAWSKYA---------------ELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEF  523 (677)
T ss_pred             HHHHHhcC-hHhhHHHHHHH---------------HHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchH
Confidence            88888742 23445555444               444567888888888888876421 22355677777777788888


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-----hcC-----------ChHHHHHHHHHHHHc
Q 004244          671 QKAYDLYKKMVRSGFVPHTVTIIVLVKALH-----TAG-----------MNEELSQVIENILRS  718 (766)
Q Consensus       671 ~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~-----~~g-----------~~~~A~~~~~~~~~~  718 (766)
                      +.|..+++++++.  .+...+|..++.--.     +.|           ....|..+|+++...
T Consensus       524 ekaR~LYerlL~r--t~h~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~~  585 (677)
T KOG1915|consen  524 EKARALYERLLDR--TQHVKVWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANTY  585 (677)
T ss_pred             HHHHHHHHHHHHh--cccchHHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHHH
Confidence            8888888888854  355556665554433     334           566788888887654

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

Probab=99.72  E-value=2.2e-13  Score=132.85  Aligned_cols=475  Identities=14%  Similarity=0.101  Sum_probs=309.0

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHH-HHHHHHHHcCChhHHHHHHHHHhhCCCCCC------HHHHHHHH
Q 004244          224 VLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYN-TLIDGYCKLGRIDDAFKLLRDMGLKGIEPN------LISYNVII  296 (766)
Q Consensus       224 ~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~-~li~~~~~~g~~~~A~~l~~~m~~~g~~p~------~~~~~~li  296 (766)
                      .|..-|.......+|+..++-+.+....||..... .+.+.+.+..++.+|++.++-....  .|+      +...+.+.
T Consensus       206 nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldq--vpsink~~rikil~nig  283 (840)
T KOG2003|consen  206 NLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQ--VPSINKDMRIKILNNIG  283 (840)
T ss_pred             HHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhh--ccccchhhHHHHHhhcC
Confidence            34455666677888999999888877777754432 3446778888999999988766543  232      23445555


Q ss_pred             HHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHH--------HHHHHH
Q 004244          297 NGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTY--------TSLINS  368 (766)
Q Consensus       297 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~--------~~li~~  368 (766)
                      -.|.+.|.++.|+..|+...+.  .|+..+-..|+-++...|+.++..+.|.+|......+|..-|        ..|+.-
T Consensus       284 vtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~e  361 (840)
T KOG2003|consen  284 VTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNE  361 (840)
T ss_pred             eeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHH
Confidence            5678899999999999988874  488777666777777789999999999998865333332211        222222


Q ss_pred             HHhcCCH-----------HHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          369 MCKSGNL-----------NRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIK  437 (766)
Q Consensus       369 ~~~~g~~-----------~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~  437 (766)
                      -.++..+           ++++-.--+++.--+.|+-.           .| .+-.++.++.-.......+.. .+ -..
T Consensus       362 ai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa-----------~g-~dwcle~lk~s~~~~la~dle-i~-ka~  427 (840)
T KOG2003|consen  362 AIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFA-----------AG-CDWCLESLKASQHAELAIDLE-IN-KAG  427 (840)
T ss_pred             HHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchh-----------cc-cHHHHHHHHHhhhhhhhhhhh-hh-HHH
Confidence            2222211           11111111111111111110           00 001111111110000000110 01 123


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc--cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 004244          438 GHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSR--SQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRI  515 (766)
Q Consensus       438 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  515 (766)
                      -+.+.|+++.|.+++.-..+..-+.....-+.|-..+.-  -.++..|.+.-+...... .-+......-...-...|++
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~  506 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDL  506 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcH
Confidence            467899999999999988876433333333333333322  346777777777665432 12333333333445567999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004244          516 TEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKL  595 (766)
Q Consensus       516 ~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~  595 (766)
                      ++|.+.|++.+..+.......|| +.-.+-..|++++|++.|-.+..- +..+......+...|....+..+|++++.+.
T Consensus       507 dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~  584 (840)
T KOG2003|consen  507 DKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQA  584 (840)
T ss_pred             HHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHh
Confidence            99999999998775333333343 344567889999999999877643 2346777778888898999999999999888


Q ss_pred             HhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHH
Q 004244          596 FYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYD  675 (766)
Q Consensus       596 ~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  675 (766)
                      ... ++.|+.....+.               +.|-+.|+-..|.+.+-.-... ++-+..+...|...|....-+++|+.
T Consensus       585 ~sl-ip~dp~ilskl~---------------dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~  647 (840)
T KOG2003|consen  585 NSL-IPNDPAILSKLA---------------DLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAIN  647 (840)
T ss_pred             ccc-CCCCHHHHHHHH---------------HHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHH
Confidence            763 444555555555               8999999999998877655543 33378888888888888999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHH-HhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCC
Q 004244          676 LYKKMVRSGFVPHTVTIIVLVKAL-HTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGN  739 (766)
Q Consensus       676 ~~~~m~~~~~~p~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  739 (766)
                      +|+++.  -++|+..-|-.++..| .+.|++++|...++.+.++- |.+..+..-|+......|-
T Consensus       648 y~ekaa--liqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkf-pedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  648 YFEKAA--LIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKF-PEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHH--hcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhC-ccchHHHHHHHHHhccccc
Confidence            999986  4689999998766554 57899999999999998875 7778888778887776664

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

Probab=99.69  E-value=3.6e-11  Score=118.53  Aligned_cols=469  Identities=11%  Similarity=0.083  Sum_probs=349.4

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          253 NVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLN  332 (766)
Q Consensus       253 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  332 (766)
                      +...|--....-..++++..|..+|++..... ..+...|.-.+..-.++..+..|..++++.+..-...|. .|--.+.
T Consensus        72 ~~~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdq-lWyKY~y  149 (677)
T KOG1915|consen   72 NMQVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQ-LWYKYIY  149 (677)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHH-HHHHHHH
Confidence            45555555555566788999999999998765 347778888888888999999999999999884322222 3334445


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHH
Q 004244          333 GYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDE  412 (766)
Q Consensus       333 ~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  412 (766)
                      .--..|++..|.++|+.-.+-  .|+...|.+.|+.-.+...++.|..++++..-.  .|++.+|-.....-.++|....
T Consensus       150 mEE~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~  225 (677)
T KOG1915|consen  150 MEEMLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVAL  225 (677)
T ss_pred             HHHHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHH
Confidence            556789999999999998864  799999999999999999999999999998875  5899999999999999999999


Q ss_pred             HHHHHHHHHHC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCC---HHHHHH-
Q 004244          413 AYRLLNEMTKN-G-FMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPD-VVSYSTIISGFSRSQE---LDKAFD-  485 (766)
Q Consensus       413 A~~l~~~m~~~-g-~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~---~~~A~~-  485 (766)
                      |..+|+...+. | -..+...+.+....-..+..++.|.-+|+-.++.-++.. ...|..+...--+-|+   +++++- 
T Consensus       226 aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~  305 (677)
T KOG1915|consen  226 ARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVG  305 (677)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhh
Confidence            99999988764 2 112233455555555567789999999998888633321 3445544444344454   444432 


Q ss_pred             ----HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH--HHHH---H-HH----HHHhcCChH
Q 004244          486 ----TKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEF--TYTT---L-IN----AYCTEGDIP  551 (766)
Q Consensus       486 ----~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~--~~~~---l-~~----~~~~~g~~~  551 (766)
                          -++.++..+ +-|-.+|--.+..-...|+.+...++|++.+.. ++|-..  .|..   | |+    .-....+++
T Consensus       306 KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~e  383 (677)
T KOG1915|consen  306 KRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVE  383 (677)
T ss_pred             hhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence                234455544 347888888888888899999999999999986 455322  1111   1 11    113678999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHH----HHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHh
Q 004244          552 QALRLHDEMIQKGFLPDVVTYSVLI----NGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLK  627 (766)
Q Consensus       552 ~A~~~~~~~~~~g~~p~~~~~~~li----~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~  627 (766)
                      .+.++++..++. ++....|+..+-    .-..++.+...|.+++...+.  .-|...++..-|               .
T Consensus       384 rtr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG--~cPK~KlFk~YI---------------e  445 (677)
T KOG1915|consen  384 RTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIG--KCPKDKLFKGYI---------------E  445 (677)
T ss_pred             HHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhc--cCCchhHHHHHH---------------H
Confidence            999999999984 555555555443    334578999999999998875  678888888888               7


Q ss_pred             hhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcCCh
Q 004244          628 GFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGF-VPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       628 ~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~~~~~l~~~~~~~g~~  705 (766)
                      .-.+.++++....++++.++.+  | +..+|...+..-...|+++.|..+|+-+++... ......|...++--...|.+
T Consensus       446 lElqL~efDRcRkLYEkfle~~--Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~  523 (677)
T KOG1915|consen  446 LELQLREFDRCRKLYEKFLEFS--PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEF  523 (677)
T ss_pred             HHHHHhhHHHHHHHHHHHHhcC--hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchH
Confidence            7788999999999999999964  5 788898888888889999999999999985431 12236777888888899999


Q ss_pred             HHHHHHHHHHHHcCCCChHHHHHHHHHHHh-----cCC-----------ChhHHHHHHHHHH
Q 004244          706 EELSQVIENILRSCRLSDAELAKVLVEINH-----KEG-----------NMDAVLNVLTEMA  751 (766)
Q Consensus       706 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~-----~~g-----------~~~~A~~~~~~m~  751 (766)
                      ++|..++++.++..  ....+|...+..-.     +.|           +...|.++|++..
T Consensus       524 ekaR~LYerlL~rt--~h~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn  583 (677)
T KOG1915|consen  524 EKARALYERLLDRT--QHVKVWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERAN  583 (677)
T ss_pred             HHHHHHHHHHHHhc--ccchHHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHH
Confidence            99999999999885  44456655554333     444           5667788887654

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

Probab=99.64  E-value=4e-12  Score=134.34  Aligned_cols=533  Identities=14%  Similarity=0.118  Sum_probs=295.9

Q ss_pred             HHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 004244          169 VNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKN  248 (766)
Q Consensus       169 ~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  248 (766)
                      +..+...|+.|+.+||.+++..|+..|..   +.|- +|.-|.-...+.+...|+.++.+..+.++.+.+.         
T Consensus        13 la~~e~~gi~PnRvtyqsLiarYc~~gdi---eaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk---------   79 (1088)
T KOG4318|consen   13 LALHEISGILPNRVTYQSLIARYCTKGDI---EAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK---------   79 (1088)
T ss_pred             HHHHHHhcCCCchhhHHHHHHHHcccCCC---cccc-chhhhhcccccccchhHHHHHhcccccccccCCC---------
Confidence            34456667777777777777777777732   3333 7776766666677777777777777777777665         


Q ss_pred             CCCcCHHHHHHHHHHHHHcCChhH---HHHHHHHH----hhCCC-----------------CCCHHHHHHHHHHHHHcCC
Q 004244          249 NCLANVVTYNTLIDGYCKLGRIDD---AFKLLRDM----GLKGI-----------------EPNLISYNVIINGLCKEGR  304 (766)
Q Consensus       249 g~~~~~~~~~~li~~~~~~g~~~~---A~~l~~~m----~~~g~-----------------~p~~~~~~~li~~~~~~g~  304 (766)
                        .|...||+.|..+|...|++..   ..+.++..    ...|+                 -||.   ...+....-.|-
T Consensus        80 --ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda---~n~illlv~egl  154 (1088)
T KOG4318|consen   80 --EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDA---ENAILLLVLEGL  154 (1088)
T ss_pred             --CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhH---HHHHHHHHHHHH
Confidence              4666777777777777777543   22211111    11111                 1221   122333344555


Q ss_pred             hhHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHH
Q 004244          305 LKETKGILNEISRKGL-VPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFD  383 (766)
Q Consensus       305 ~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  383 (766)
                      ++.+++++..+..... .|..+    .++-+.....  ..+++........-.|+..+|.++++.-...|+.+.|..++.
T Consensus       155 waqllkll~~~Pvsa~~~p~~v----fLrqnv~~nt--pvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~  228 (1088)
T KOG4318|consen  155 WAQLLKLLAKVPVSAWNAPFQV----FLRQNVVDNT--PVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLY  228 (1088)
T ss_pred             HHHHHHHHhhCCcccccchHHH----HHHHhccCCc--hHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHH
Confidence            6666666655543211 11111    2333333222  223333332221114889999999999999999999999999


Q ss_pred             HHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 004244          384 QMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPD  463 (766)
Q Consensus       384 ~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~  463 (766)
                      +|.++|++.+..-|..|+-+   .+...-+..+++-|.+.|+.|+..|+...+-.+.++|....+......-.  |  ..
T Consensus       229 emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~h--g--~t  301 (1088)
T KOG4318|consen  229 EMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAH--G--FT  301 (1088)
T ss_pred             HHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhh--h--hh
Confidence            99999999888888888776   77888888899999999999999999888877777555333222111000  0  01


Q ss_pred             HHHHHHHHHHHHccCCHH-----HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--C-CCCHH
Q 004244          464 VVSYSTIISGFSRSQELD-----KAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRG--M-SPDEF  535 (766)
Q Consensus       464 ~~~~~~li~~~~~~g~~~-----~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--~-~p~~~  535 (766)
                      ...+..+..+.....+.+     -....+++..-.|+.....+|...+. ...+|+-++..++-..|..--  . ..++.
T Consensus       302 Aavrsaa~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~-l~hQgk~e~veqlvg~l~npt~r~s~~~V~  380 (1088)
T KOG4318|consen  302 AAVRSAACRGLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEK-LRHQGKGEEVEQLVGQLLNPTLRDSGQNVD  380 (1088)
T ss_pred             HHHHHHHhcccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHH-HHHcCCCchHHHHHhhhcCCccccCcchHH
Confidence            222222222211111111     11222222222244333344443333 333677777777777765321  1 12333


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCcHHhH-----
Q 004244          536 TYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNK---QARTMEAKKLLLKLFYDESVPSDVIY-----  607 (766)
Q Consensus       536 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~---~g~~~~A~~l~~~~~~~~~~p~~~~~-----  607 (766)
                      .|..++.-|.+.-+..-...++.                ...++..   .....+..+++...     .|+..--     
T Consensus       381 a~~~~lrqyFrr~e~~~~~~i~~----------------~~qgls~~l~se~tp~vsell~~l-----rkns~lr~lv~L  439 (1088)
T KOG4318|consen  381 AFGALLRQYFRRIERHICSRIYY----------------AGQGLSLNLNSEDTPRVSELLENL-----RKNSFLRQLVGL  439 (1088)
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHH----------------HHHHHHhhhchhhhHHHHHHHHHh-----CcchHHHHHhhh
Confidence            45444444433221111111111                1111111   11111222222211     1111100     


Q ss_pred             --HHHhhhh------chhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 004244          608 --NTLIENC------TNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKK  679 (766)
Q Consensus       608 --~~ll~~~------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  679 (766)
                        +-++...      ...-.+....++..++..-+..+++..-++.... .-  ...|..|+..++...+.+.|..+..+
T Consensus       440 ss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n~lK~l~~~ekye~~-lf--~g~ya~Li~l~~~hdkle~Al~~~~e  516 (1088)
T KOG4318|consen  440 SSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYNKLKILCDEEKYEDL-LF--AGLYALLIKLMDLHDKLEYALSFVDE  516 (1088)
T ss_pred             hHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-Hh--hhHHHHHhhhHHHHHHHHHHHhchhh
Confidence              0000000      0000122345556777777777776555444432 11  25688888888899999999998888


Q ss_pred             HHHc--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          680 MVRS--GFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCR--LSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       680 m~~~--~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      ....  .+..|..-+..+.+.+.+.+...++.++++++-+.-.  +........+.+.....|+.+.-.++.+-+...|+
T Consensus       517 ~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl  596 (1088)
T KOG4318|consen  517 IDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGL  596 (1088)
T ss_pred             hcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhh
Confidence            7522  2345556677888888888999999888888776421  22355566777778888888888888888877777


Q ss_pred             CC
Q 004244          756 LP  757 (766)
Q Consensus       756 ~~  757 (766)
                      .-
T Consensus       597 ~e  598 (1088)
T KOG4318|consen  597 SE  598 (1088)
T ss_pred             hh
Confidence            55

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

Probab=99.64  E-value=1.8e-15  Score=152.41  Aligned_cols=261  Identities=17%  Similarity=0.164  Sum_probs=111.0

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004244          469 TIISGFSRSQELDKAFDTKREMVEKG-VLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTE  547 (766)
Q Consensus       469 ~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  547 (766)
                      .+...+.+.|++++|++++++..... ...|...|..+.......++.++|...++++...+ +-+...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccc
Confidence            44677888899999999886654443 23355556666667777889999999999998775 3356667777776 688


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCcHHhHHHHhhhhchhhhhhHHHHH
Q 004244          548 GDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDE-SVPSDVIYNTLIENCTNIEFQNVAALL  626 (766)
Q Consensus       548 g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~-~~p~~~~~~~ll~~~~~~~~~~~~~l~  626 (766)
                      +++++|.+++....++  .++...+..++..+.+.|+++++.++++++.... ..++...|....               
T Consensus        91 ~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a---------------  153 (280)
T PF13429_consen   91 GDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALA---------------  153 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHH---------------
T ss_pred             cccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHH---------------
Confidence            9999999998887765  3566777788888889999999999999977543 234555555555               


Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  705 (766)
                      ..+.+.|+.++|++.+++.++.  .| |....+.++..+...|+.+++.++++...+.. +.|+..+..++.++...|+.
T Consensus       154 ~~~~~~G~~~~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~  230 (280)
T PF13429_consen  154 EIYEQLGDPDKALRDYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRY  230 (280)
T ss_dssp             HHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-H
T ss_pred             HHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccc
Confidence            7888999999999999999984  46 57788899999999999999999998887653 45567788899999999999


Q ss_pred             HHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          706 EELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       706 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      ++|..+++++.+.. |.|+.....+++++...|+.++|.+++++...
T Consensus       231 ~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  231 EEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHHHHHS-TT-HHHHHHHHHHHT-----------------
T ss_pred             cccccccccccccc-cccccccccccccccccccccccccccccccc
Confidence            99999999999987 77888888999999999999999999887654

>TIGR00540 hemY_coli hemY protein

Probab=99.61  E-value=3.4e-12  Score=135.50  Aligned_cols=291  Identities=10%  Similarity=0.042  Sum_probs=174.8

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHH
Q 004244          406 QHGFLDEAYRLLNEMTKNGFMPS-IVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAF  484 (766)
Q Consensus       406 ~~g~~~~A~~l~~~m~~~g~~~~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  484 (766)
                      ..|+++.|.+.+.+..+..  |+ ...+-.........|+.+.|...+....+....+.....-.....+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~~--~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHA--AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            3566666666666655542  32 22233334555566666666666666655432222223333455566667777777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH-HHHH---HHHhcCChHHHHHHHHHH
Q 004244          485 DTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYT-TLIN---AYCTEGDIPQALRLHDEM  560 (766)
Q Consensus       485 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~-~l~~---~~~~~g~~~~A~~~~~~~  560 (766)
                      ..++++.+..+. +...+..+...+...|++++|.+.+..+.+.+.. +...+. .-..   .....+..+++.+.+..+
T Consensus       174 ~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       174 HGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            777776666433 4556666666777777777777777777766532 222221 1111   112223333333444444


Q ss_pred             HHCC---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhH--HHHhhhhchhhhhhHHHHHhhhhhcCCH
Q 004244          561 IQKG---FLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIY--NTLIENCTNIEFQNVAALLKGFCMKGLM  635 (766)
Q Consensus       561 ~~~g---~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~--~~ll~~~~~~~~~~~~~l~~~~~~~g~~  635 (766)
                      .+..   .+.+...+..++..+...|+.++|.+.+++.++.  .||....  ..+..              -.....++.
T Consensus       252 ~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~--------------~~~l~~~~~  315 (409)
T TIGR00540       252 WKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLP--------------IPRLKPEDN  315 (409)
T ss_pred             HHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHH--------------hhhcCCCCh
Confidence            4431   1136777778888888888888888888888874  3333310  11110              223445777


Q ss_pred             HHHHHHHHHHHhCCCCC-CH--HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 004244          636 NEADRVFELMLQRNHMP-NE--AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVI  712 (766)
Q Consensus       636 ~~A~~~~~~~~~~~~~p-~~--~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  712 (766)
                      +.+.+.+++..+.  .| |+  ....+++..+.+.|++++|.+.|++.......|+...+..++..+.+.|+.++|.+++
T Consensus       316 ~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~  393 (409)
T TIGR00540       316 EKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMR  393 (409)
T ss_pred             HHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            8888888777764  34 44  5667888888888888888888885433345688877778888888888888888888


Q ss_pred             HHHHHc
Q 004244          713 ENILRS  718 (766)
Q Consensus       713 ~~~~~~  718 (766)
                      ++.+..
T Consensus       394 ~~~l~~  399 (409)
T TIGR00540       394 QDSLGL  399 (409)
T ss_pred             HHHHHH
Confidence            886543

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

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.61  E-value=2.9e-12  Score=135.20  Aligned_cols=287  Identities=12%  Similarity=0.065  Sum_probs=168.9

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 004244          407 HGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDT  486 (766)
Q Consensus       407 ~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  486 (766)
                      .|++++|.+.+....+..-.| ...|........+.|+++.|...+.++.+....+...........+...|+++.|.+.
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            455666665555444331111 1122222333355566666666666665532221111111224455566666666666


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHhcCChHHHHHHHHH
Q 004244          487 KREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDE-------FTYTTLINAYCTEGDIPQALRLHDE  559 (766)
Q Consensus       487 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-------~~~~~l~~~~~~~g~~~~A~~~~~~  559 (766)
                      ++++.+..+. +......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...++++.
T Consensus       176 l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~  254 (398)
T PRK10747        176 VDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKN  254 (398)
T ss_pred             HHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHh
Confidence            6666655432 4555556666666666666666666666655432211       1222233333333444555555555


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHH
Q 004244          560 MIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEAD  639 (766)
Q Consensus       560 ~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~  639 (766)
                      +.+. .+.++.....+...+...|+.++|.+.+++..+.  .|+....  ++               .+....++.++++
T Consensus       255 lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l---------------~~~l~~~~~~~al  314 (398)
T PRK10747        255 QSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LL---------------IPRLKTNNPEQLE  314 (398)
T ss_pred             CCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HH---------------HhhccCCChHHHH
Confidence            5433 3456677777788888888888888888887763  3443211  11               3344557888888


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 004244          640 RVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       640 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      +..+...+.. +.|+..+..++..+.+.|+|++|.+.|+++.+  ..|+...+..+...+.+.|+.++|..++++.+..
T Consensus       315 ~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~--~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~  390 (398)
T PRK10747        315 KVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALK--QRPDAYDYAWLADALDRLHKPEEAAAMRRDGLML  390 (398)
T ss_pred             HHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            8888877652 22666677888888888888888888888874  3688877778888888888888888888877654

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

Probab=99.61  E-value=4.2e-09  Score=108.11  Aligned_cols=537  Identities=12%  Similarity=0.110  Sum_probs=309.3

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCC------CCCC
Q 004244          145 SSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSR------VSPN  218 (766)
Q Consensus       145 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g------~~~~  218 (766)
                      ...+|+..++-....|.++-++.++++..+    .++..-+-.+.-+++.++  + ++|-+.+...+...      -+.+
T Consensus       137 H~rIW~lyl~Fv~~~~lPets~rvyrRYLk----~~P~~~eeyie~L~~~d~--~-~eaa~~la~vln~d~f~sk~gkSn  209 (835)
T KOG2047|consen  137 HDRIWDLYLKFVESHGLPETSIRVYRRYLK----VAPEAREEYIEYLAKSDR--L-DEAAQRLATVLNQDEFVSKKGKSN  209 (835)
T ss_pred             hccchHHHHHHHHhCCChHHHHHHHHHHHh----cCHHHHHHHHHHHHhccc--h-HHHHHHHHHhcCchhhhhhcccch
Confidence            457888889988899999999999998885    344456777888888884  3 88888888775421      2445


Q ss_pred             HHHHHHHHHHHHhcCChh---hHHHHHHHHHhCCCCcC--HHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHH
Q 004244          219 VYTYNVLIRGFCGVGDLE---MGLRFFSEMEKNNCLAN--VVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYN  293 (766)
Q Consensus       219 ~~~~~~li~~~~~~g~~~---~A~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~  293 (766)
                      ...|.-+-+...+.-+.-   ....+++.+...  -+|  ...|++|.+.|.+.|.+++|.+++++....  ...+.-|+
T Consensus       210 ~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt  285 (835)
T KOG2047|consen  210 HQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFT  285 (835)
T ss_pred             hhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHH
Confidence            556666666555543332   223444444433  234  357899999999999999999999887653  23455566


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHH--HCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-----------CCCCChH
Q 004244          294 VIINGLCKEGRLKETKGILNEIS--RKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRN-----------GLSPNVV  360 (766)
Q Consensus       294 ~li~~~~~~g~~~~a~~~~~~m~--~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----------g~~~~~~  360 (766)
                      .+.++|..-..-.-+..+ + +.  +.+-.-+.....             -...-|+.+...           .-+.++.
T Consensus       286 ~ifd~Ya~FEE~~~~~~m-e-~a~~~~~n~ed~~dl~-------------~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~  350 (835)
T KOG2047|consen  286 QIFDAYAQFEESCVAAKM-E-LADEESGNEEDDVDLE-------------LHMARFESLMNRRPLLLNSVLLRQNPHNVE  350 (835)
T ss_pred             HHHHHHHHHHHHHHHHHH-h-hhhhcccChhhhhhHH-------------HHHHHHHHHHhccchHHHHHHHhcCCccHH
Confidence            667777643221111111 1 11  111111122111             112222222211           1123455


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC------HhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHH
Q 004244          361 TYTSLINSMCKSGNLNRAMEFFDQMHVRELRPN------EKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPS---IVT  431 (766)
Q Consensus       361 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~---~~~  431 (766)
                      .|..-+..  ..|+..+-...|.+..+. +.|.      ...|..+.+.|-..|+++.|..+|++..+-..+--   ..+
T Consensus       351 eW~kRV~l--~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~v  427 (835)
T KOG2047|consen  351 EWHKRVKL--YEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEV  427 (835)
T ss_pred             HHHhhhhh--hcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHH
Confidence            55544443  356677777777777654 2221      34567777778888888888888888776543321   234


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004244          432 YNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCE  511 (766)
Q Consensus       432 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~  511 (766)
                      |......-.+..+++.|..+++....-   |....     ..+...+..-.+. ++         -+...|...++..-.
T Consensus       428 w~~waemElrh~~~~~Al~lm~~A~~v---P~~~~-----~~~yd~~~pvQ~r-lh---------rSlkiWs~y~DleEs  489 (835)
T KOG2047|consen  428 WCAWAEMELRHENFEAALKLMRRATHV---PTNPE-----LEYYDNSEPVQAR-LH---------RSLKIWSMYADLEES  489 (835)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHhhhcC---CCchh-----hhhhcCCCcHHHH-HH---------HhHHHHHHHHHHHHH
Confidence            444455555666777777776665432   22211     1222222211110 11         134566666766666


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHh---cCCHHH
Q 004244          512 QRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDV-VTYSVLINGLNK---QARTME  587 (766)
Q Consensus       512 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~li~~~~~---~g~~~~  587 (766)
                      .|-++....+|+++++..+. ++.........+-...-++++.+++++-+..=-.|++ ..|+..+.-+.+   .-+.+.
T Consensus       490 ~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEr  568 (835)
T KOG2047|consen  490 LGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLER  568 (835)
T ss_pred             hccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHH
Confidence            77778888888888776432 2222222222334555677777777765554223443 356655555433   346778


Q ss_pred             HHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHh
Q 004244          588 AKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP--NEAVYDIIIHGHS  665 (766)
Q Consensus       588 A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p--~~~~~~~l~~~~~  665 (766)
                      |..+|++.++ |++|...-+.-++-  +           ..--+.|-...|+.+++++... +.+  -...||..|.--.
T Consensus       569 aRdLFEqaL~-~Cpp~~aKtiyLlY--A-----------~lEEe~GLar~amsiyerat~~-v~~a~~l~myni~I~kaa  633 (835)
T KOG2047|consen  569 ARDLFEQALD-GCPPEHAKTIYLLY--A-----------KLEEEHGLARHAMSIYERATSA-VKEAQRLDMYNIYIKKAA  633 (835)
T ss_pred             HHHHHHHHHh-cCCHHHHHHHHHHH--H-----------HHHHHhhHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHH
Confidence            8888888877 56655433332220  0           2223447777788888886653 333  2456777766555


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCChHHHHHHHHHHHhcCCChh
Q 004244          666 KVGNVQKAYDLYKKMVRSGFVPHT---VTIIVLVKALHTAGMNEELSQVIENILRS-CRLSDAELAKVLVEINHKEGNMD  741 (766)
Q Consensus       666 ~~g~~~~A~~~~~~m~~~~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~  741 (766)
                      ..--+....++|+++++.  -||.   ..+...+..-++.|..++|..++...-+. +|..+...|...=+.-.+.|+-+
T Consensus       634 e~yGv~~TR~iYekaIe~--Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGned  711 (835)
T KOG2047|consen  634 EIYGVPRTREIYEKAIES--LPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGNED  711 (835)
T ss_pred             HHhCCcccHHHHHHHHHh--CChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCCHH
Confidence            544456667777877754  4554   33445566667888888888888877766 44445666766666667777744


Q ss_pred             HHHHH
Q 004244          742 AVLNV  746 (766)
Q Consensus       742 ~A~~~  746 (766)
                      -..++
T Consensus       712 T~keM  716 (835)
T KOG2047|consen  712 TYKEM  716 (835)
T ss_pred             HHHHH
Confidence            44333

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

Probab=99.60  E-value=5.2e-12  Score=125.01  Aligned_cols=120  Identities=10%  Similarity=0.003  Sum_probs=54.2

Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 004244          475 SRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQAL  554 (766)
Q Consensus       475 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  554 (766)
                      .-.|+.-.|..-|+..+.....++. .|--+...|...++.++..+.|.+..+.+ +.++.+|..-...+.-.+++++|.
T Consensus       337 fL~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~  414 (606)
T KOG0547|consen  337 FLKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAI  414 (606)
T ss_pred             hhcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHH
Confidence            3344555555555555544333222 13333334455555555555555555443 333444444444444445555555


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 004244          555 RLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFY  597 (766)
Q Consensus       555 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~  597 (766)
                      .=|++.+... +.+...|..+.-+..+.++++++...|++..+
T Consensus       415 aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk  456 (606)
T KOG0547|consen  415 ADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKK  456 (606)
T ss_pred             HHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555554431 22233343344444445555555555555544

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

Probab=99.59  E-value=2.6e-11  Score=120.20  Aligned_cols=419  Identities=15%  Similarity=0.118  Sum_probs=256.8

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhCCCCcC-HHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCC-HHHHHHHHHHH
Q 004244          222 YNVLIRGFCGVGDLEMGLRFFSEMEKNNCLAN-VVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPN-LISYNVIINGL  299 (766)
Q Consensus       222 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~~~~~li~~~  299 (766)
                      +....+-|.+.|++++|++.+.+.++.  .|| .+-|.....+|...|++++..+.-.+..+.  .|+ +..+..-..++
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAH  193 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHH
Confidence            444566688889999999999988886  466 777888888888899998888877777664  455 34555566667


Q ss_pred             HHcCChhHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-CC--CCCChHHHHHHHHHHHhcCCH
Q 004244          300 CKEGRLKETKGILNEISR-KGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVR-NG--LSPNVVTYTSLINSMCKSGNL  375 (766)
Q Consensus       300 ~~~g~~~~a~~~~~~m~~-~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~g--~~~~~~~~~~li~~~~~~g~~  375 (766)
                      -..|++++|+.=+.-.-- .|+. |..+--.+=+.+-+     .|..-..+-.+ .+  +-|+.....+....+-..  +
T Consensus       194 E~lg~~~eal~D~tv~ci~~~F~-n~s~~~~~eR~Lkk-----~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~--~  265 (606)
T KOG0547|consen  194 EQLGKFDEALFDVTVLCILEGFQ-NASIEPMAERVLKK-----QAMKKAKEKLKENRPPVLPSATFIASYFGSFHAD--P  265 (606)
T ss_pred             HhhccHHHHHHhhhHHHHhhhcc-cchhHHHHHHHHHH-----HHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccc--c
Confidence            677777776532211111 1111 11111100011111     12222222112 21  223333322222222110  0


Q ss_pred             HHHHHHHHHHHHCCCCCCHhHHHHHHHHHHh--c---CCHHHHHHHHHHHHHCC-CC-----CC------HHHHHHHHHH
Q 004244          376 NRAMEFFDQMHVRELRPNEKTYTTLINGFSQ--H---GFLDEAYRLLNEMTKNG-FM-----PS------IVTYNALIKG  438 (766)
Q Consensus       376 ~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~--~---g~~~~A~~l~~~m~~~g-~~-----~~------~~~~~~ll~~  438 (766)
                      .          .....+...+...+..++..  .   ..+.+|...+.+-.... ..     .|      ..+.......
T Consensus       266 ~----------~~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF  335 (606)
T KOG0547|consen  266 K----------PLFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTF  335 (606)
T ss_pred             c----------ccccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhh
Confidence            0          00000000111111111110  0   01222332222211100 00     01      1111111122


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 004244          439 HCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEA  518 (766)
Q Consensus       439 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A  518 (766)
                      +.-.|+.-.|..-|+..+.....+ ...|--+...|...++.++-.+.|.+..+.+.. |+.+|..-.+.+.-.+++++|
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHH
Confidence            334688899999999998875442 333777778899999999999999999988655 667777778888888999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 004244          519 CELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYD  598 (766)
Q Consensus       519 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~  598 (766)
                      ..-|++.+... +.+...|..+.-+.-+.++++++...|++.+++ ++..+..|+-....+..++++++|.+.|+..++.
T Consensus       414 ~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  414 IADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            99999999875 556777777777778999999999999999987 7778899999999999999999999999999873


Q ss_pred             CCCCcHH--hH--HHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHH
Q 004244          599 ESVPSDV--IY--NTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKA  673 (766)
Q Consensus       599 ~~~p~~~--~~--~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A  673 (766)
                        .|+..  ..  ..++.          -++ -...-.+++..|..++++..+  ++| ....|..|...-.+.|+.++|
T Consensus       492 --E~~~~~~~v~~~plV~----------Ka~-l~~qwk~d~~~a~~Ll~KA~e--~Dpkce~A~~tlaq~~lQ~~~i~eA  556 (606)
T KOG0547|consen  492 --EPREHLIIVNAAPLVH----------KAL-LVLQWKEDINQAENLLRKAIE--LDPKCEQAYETLAQFELQRGKIDEA  556 (606)
T ss_pred             --ccccccccccchhhhh----------hhH-hhhchhhhHHHHHHHHHHHHc--cCchHHHHHHHHHHHHHHHhhHHHH
Confidence              34311  10  01110          000 111234888999999999888  445 667888888888899999999


Q ss_pred             HHHHHHHH
Q 004244          674 YDLYKKMV  681 (766)
Q Consensus       674 ~~~~~~m~  681 (766)
                      +++|++..
T Consensus       557 ielFEksa  564 (606)
T KOG0547|consen  557 IELFEKSA  564 (606)
T ss_pred             HHHHHHHH
Confidence            99998865

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

Probab=99.58  E-value=3.7e-11  Score=118.38  Aligned_cols=367  Identities=13%  Similarity=0.074  Sum_probs=241.2

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHH-
Q 004244          319 GLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTY-  397 (766)
Q Consensus       319 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~-  397 (766)
                      +...|...+-.....+-+.|....|+..|...+.. .+..-..|..|....   .+.+.+..+.    .. .+.|.... 
T Consensus       159 ~~~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~-~P~~W~AWleL~~li---t~~e~~~~l~----~~-l~~~~h~M~  229 (559)
T KOG1155|consen  159 GGEKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR-YPWFWSAWLELSELI---TDIEILSILV----VG-LPSDMHWMK  229 (559)
T ss_pred             cccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhc-CCcchHHHHHHHHhh---chHHHHHHHH----hc-CcccchHHH
Confidence            44445544444444566788888999888887764 233444454444332   3333332222    11 12121111 


Q ss_pred             -HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHH
Q 004244          398 -TTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLA--PDVVSYSTIISGF  474 (766)
Q Consensus       398 -~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~li~~~  474 (766)
                       --+..++-...+.+++..-.+.....|++.+...-+....+.....++++|+.+|+++.+..+-  -|..+|+.++..-
T Consensus       230 ~~F~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~  309 (559)
T KOG1155|consen  230 KFFLKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVK  309 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHH
Confidence             1234455556678888888888888887766666666666667788899999999998887321  2566776665432


Q ss_pred             HccCCHH-HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHH
Q 004244          475 SRSQELD-KAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQA  553 (766)
Q Consensus       475 ~~~g~~~-~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A  553 (766)
                      .....+. -|..++. +-    +--+.|..++.+-|.-.++.+.|...|++.++.+ +.....|+.+.+-|....+...|
T Consensus       310 ~~~skLs~LA~~v~~-id----KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AA  383 (559)
T KOG1155|consen  310 NDKSKLSYLAQNVSN-ID----KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAA  383 (559)
T ss_pred             hhhHHHHHHHHHHHH-hc----cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHH
Confidence            2222221 1222211 11    1234567777777888888888888888888875 44566777888888888888888


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcC
Q 004244          554 LRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKG  633 (766)
Q Consensus       554 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g  633 (766)
                      ++-++..++. .+-|-..|-.+..+|.-.+-..-|+-.|++...- .+-|...|.++.               ++|.+.+
T Consensus       384 i~sYRrAvdi-~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~-kPnDsRlw~aLG---------------~CY~kl~  446 (559)
T KOG1155|consen  384 IESYRRAVDI-NPRDYRAWYGLGQAYEIMKMHFYALYYFQKALEL-KPNDSRLWVALG---------------ECYEKLN  446 (559)
T ss_pred             HHHHHHHHhc-CchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhc-CCCchHHHHHHH---------------HHHHHhc
Confidence            8888888876 3667788888888888888888888888888773 233566677766               8888888


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHH----cCCCCC-H-HHHHHHHHHHHhcCChHH
Q 004244          634 LMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVR----SGFVPH-T-VTIIVLVKALHTAGMNEE  707 (766)
Q Consensus       634 ~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~----~~~~p~-~-~~~~~l~~~~~~~g~~~~  707 (766)
                      +.++|++.|......|.. +...+..|+..|-+.++.++|...|++-++    .|...+ . ....-|..-+.+.+++++
T Consensus       447 ~~~eAiKCykrai~~~dt-e~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~  525 (559)
T KOG1155|consen  447 RLEEAIKCYKRAILLGDT-EGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDE  525 (559)
T ss_pred             cHHHHHHHHHHHHhcccc-chHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHH
Confidence            888888888888876532 557788888888888888888888887654    232222 1 233345566667788888


Q ss_pred             HHHHHHHHHHc
Q 004244          708 LSQVIENILRS  718 (766)
Q Consensus       708 A~~~~~~~~~~  718 (766)
                      |..+..++..-
T Consensus       526 As~Ya~~~~~~  536 (559)
T KOG1155|consen  526 ASYYATLVLKG  536 (559)
T ss_pred             HHHHHHHHhcC
Confidence            77766665543

>TIGR00540 hemY_coli hemY protein

Probab=99.58  E-value=7.3e-12  Score=132.93  Aligned_cols=290  Identities=14%  Similarity=0.068  Sum_probs=209.9

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 004244          440 CTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEAC  519 (766)
Q Consensus       440 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~  519 (766)
                      ...|+++.|.+.+....+.... ....+-.....+.+.|+.+.|.+.+.+..+....++..........+...|++++|.
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~~~-~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHAAE-PVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            3679999999999888776432 233344556778889999999999999877643333334444577888999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHH----HHHHHHHhcCCHHHHHHHHHHH
Q 004244          520 ELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYS----VLINGLNKQARTMEAKKLLLKL  595 (766)
Q Consensus       520 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~----~li~~~~~~g~~~~A~~l~~~~  595 (766)
                      ..++.+.+.. +-+...+..+...+...|++++|.+++..+.+.+.. +...+.    ....++...+..+++.+.+.++
T Consensus       174 ~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       174 HGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            9999999985 556778889999999999999999999999988643 333231    1112223334444444566666


Q ss_pred             HhCCCC---CcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHH---HHHHHHHHhccCC
Q 004244          596 FYDESV---PSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAV---YDIIIHGHSKVGN  669 (766)
Q Consensus       596 ~~~~~~---p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~---~~~l~~~~~~~g~  669 (766)
                      ......   .+...+..+.               ..+...|+.++|.+.+++..+..  ||...   ...........++
T Consensus       252 ~~~~p~~~~~~~~l~~~~a---------------~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~  314 (409)
T TIGR00540       252 WKNQPRHRRHNIALKIALA---------------EHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPED  314 (409)
T ss_pred             HHHCCHHHhCCHHHHHHHH---------------HHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCC
Confidence            553211   2555555555               88999999999999999999853  43331   1222233345688


Q ss_pred             hHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHH
Q 004244          670 VQKAYDLYKKMVRSGFVPHT---VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNV  746 (766)
Q Consensus       670 ~~~A~~~~~~m~~~~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  746 (766)
                      .+.+.+.+++..+.  .|+.   ....++++.+.+.|++++|.++|+++......|+...+..++..+.+.|+.++|.++
T Consensus       315 ~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~  392 (409)
T TIGR00540       315 NEKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAM  392 (409)
T ss_pred             hHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            89999999998854  4554   455689999999999999999999544332235555577999999999999999999


Q ss_pred             HHHHH
Q 004244          747 LTEMA  751 (766)
Q Consensus       747 ~~~m~  751 (766)
                      +++..
T Consensus       393 ~~~~l  397 (409)
T TIGR00540       393 RQDSL  397 (409)
T ss_pred             HHHHH
Confidence            98853

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.

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

Probab=99.57  E-value=1.8e-11  Score=129.48  Aligned_cols=486  Identities=15%  Similarity=0.138  Sum_probs=242.8

Q ss_pred             HHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCC
Q 004244          205 EVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKG  284 (766)
Q Consensus       205 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g  284 (766)
                      .++..+...|+.||.+||..+|.-||..|+.+.|- +|.-|.-...+.+...++.++.+....++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            46667788899999999999999999999999998 9999988888888899999999998888887766          


Q ss_pred             CCCCHHHHHHHHHHHHHcCChhHHHHHHHH-HHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-CCCCCChHHH
Q 004244          285 IEPNLISYNVIINGLCKEGRLKETKGILNE-ISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVR-NGLSPNVVTY  362 (766)
Q Consensus       285 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~-m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~g~~~~~~~~  362 (766)
                       .|...||+.+..+|...|++.. .+..++ |..            ++..+...|.-..-..++..+.- .+.-||..  
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~-fe~veqdLe~------------i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~--  143 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLIL-FEVVEQDLES------------INQSFSDHGVGSPERWFLMKIHCCPHSLPDAE--  143 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHH-HHHHHHHHHH------------HHhhhhhhccCcHHHHHHhhcccCcccchhHH--
Confidence             4788899999999999999765 222222 211            11112222222222222211100 01111111  


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC------------------------------CCCCCHhHHHHHHHHHHhcCCHHH
Q 004244          363 TSLINSMCKSGNLNRAMEFFDQMHVR------------------------------ELRPNEKTYTTLINGFSQHGFLDE  412 (766)
Q Consensus       363 ~~li~~~~~~g~~~~A~~~~~~m~~~------------------------------~~~~~~~~~~~li~~~~~~g~~~~  412 (766)
                       ..+....-.|.++.+++++..+...                              .-.|+..+|..+++.-...|+.+-
T Consensus       144 -n~illlv~eglwaqllkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~  222 (1088)
T KOG4318|consen  144 -NAILLLVLEGLWAQLLKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDG  222 (1088)
T ss_pred             -HHHHHHHHHHHHHHHHHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhh
Confidence             1122222223333333333222211                              013455555555555555555555


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 004244          413 AYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVE  492 (766)
Q Consensus       413 A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  492 (766)
                      |..++.+|.+.|++.+..-|-.|+-+   .++...++.++..|.+.|+.|+..|+...+..+...|....+.        
T Consensus       223 Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~--------  291 (1088)
T KOG4318|consen  223 AKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGE--------  291 (1088)
T ss_pred             HHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcc--------
Confidence            55555555555555555544444433   4555555555555555555555555555444444433311111        


Q ss_pred             CCCCCCHH-----HHHHHHHHHHhcCCHHH-----HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 004244          493 KGVLPDTI-----TYSSLIHGLCEQRRITE-----ACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQ  562 (766)
Q Consensus       493 ~~~~p~~~-----~~~~li~~~~~~g~~~~-----A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  562 (766)
                      .|. +...     .+..+..+.....+++.     ....+++..-.|+.-....| +++.-...+|+-++..++-..+..
T Consensus       292 e~s-q~~hg~tAavrsaa~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiw-s~c~~l~hQgk~e~veqlvg~l~n  369 (1088)
T KOG4318|consen  292 EGS-QLAHGFTAAVRSAACRGLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIW-SMCEKLRHQGKGEEVEQLVGQLLN  369 (1088)
T ss_pred             ccc-chhhhhhHHHHHHHhcccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHH-HHHHHHHHcCCCchHHHHHhhhcC
Confidence            111 1111     11112111111111110     11111111111222122122 222222335555555555555542


Q ss_pred             C--CCCC-CHHHHHHHHHHHHhcCCH--HHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHH
Q 004244          563 K--GFLP-DVVTYSVLINGLNKQART--MEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNE  637 (766)
Q Consensus       563 ~--g~~p-~~~~~~~li~~~~~~g~~--~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~  637 (766)
                      -  ...+ ++..|..++.-|.+.-+.  .+-.....+.+...  .+..            ..+.+    .-+...-+...
T Consensus       370 pt~r~s~~~V~a~~~~lrqyFrr~e~~~~~~i~~~~qgls~~--l~se------------~tp~v----sell~~lrkns  431 (1088)
T KOG4318|consen  370 PTLRDSGQNVDAFGALLRQYFRRIERHICSRIYYAGQGLSLN--LNSE------------DTPRV----SELLENLRKNS  431 (1088)
T ss_pred             CccccCcchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhh--hchh------------hhHHH----HHHHHHhCcch
Confidence            1  1111 223333333333221110  00000000110000  0000            00000    11111112222


Q ss_pred             HHHHHHHHH----hCCCCC-------CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChH
Q 004244          638 ADRVFELML----QRNHMP-------NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNE  706 (766)
Q Consensus       638 A~~~~~~~~----~~~~~p-------~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  706 (766)
                      +.+.+..+.    ++.+.|       -...-+.++-.++..-+..+++..-++....-+ |  ..|..+++-++...+.+
T Consensus       432 ~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n~lK~l~~~ekye~~lf-~--g~ya~Li~l~~~hdkle  508 (1088)
T KOG4318|consen  432 FLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYNKLKILCDEEKYEDLLF-A--GLYALLIKLMDLHDKLE  508 (1088)
T ss_pred             HHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-h--hHHHHHhhhHHHHHHHH
Confidence            222222221    111111       122345666677777777777765555443222 2  56888999999999999


Q ss_pred             HHHHHHHHHHHcCCC--ChHHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          707 ELSQVIENILRSCRL--SDAELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       707 ~A~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      .|..+.++....+..  -+...+..+.+.+.+.+...++.++++++.+
T Consensus       509 ~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~ks  556 (1088)
T KOG4318|consen  509 YALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYEDKS  556 (1088)
T ss_pred             HHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhhhhH
Confidence            999999998765422  2344567888999999999999999999887

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.57  E-value=1.4e-11  Score=129.89  Aligned_cols=283  Identities=11%  Similarity=0.035  Sum_probs=211.2

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHH--HHHHHHHhcCCHHH
Q 004244          441 TGGRVEDAVGVLHGMARKGLAPDVVS-YSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYS--SLIHGLCEQRRITE  517 (766)
Q Consensus       441 ~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~--~li~~~~~~g~~~~  517 (766)
                      ..|++++|++.+....+...  ++.. |-.......+.|+++.|.+.+.++.+..  |+.....  .....+...|++++
T Consensus        96 ~eGd~~~A~k~l~~~~~~~~--~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~--~~~~~~~~l~~a~l~l~~g~~~~  171 (398)
T PRK10747         96 AEGDYQQVEKLMTRNADHAE--QPVVNYLLAAEAAQQRGDEARANQHLERAAELA--DNDQLPVEITRVRIQLARNENHA  171 (398)
T ss_pred             hCCCHHHHHHHHHHHHhccc--chHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHCCCHHH
Confidence            36999999988887666422  2333 3333445589999999999999998753  4443222  34667889999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH-------HHHHHHHHHHhcCCHHHHHH
Q 004244          518 ACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVV-------TYSVLINGLNKQARTMEAKK  590 (766)
Q Consensus       518 A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~-------~~~~li~~~~~~g~~~~A~~  590 (766)
                      |...++++.+.. +-+...+..+...|.+.|++++|.+++..+.+.+..++..       +|..++.......+.+...+
T Consensus       172 Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~  250 (398)
T PRK10747        172 ARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKR  250 (398)
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            999999999886 6677888999999999999999999999999875443221       23333333334444555566


Q ss_pred             HHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCCh
Q 004244          591 LLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNV  670 (766)
Q Consensus       591 l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  670 (766)
                      +++...+. .+.+......+.               ..+...|+.++|.+.+++..+.  .|+....  ++.+....++.
T Consensus       251 ~w~~lp~~-~~~~~~~~~~~A---------------~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~  310 (398)
T PRK10747        251 WWKNQSRK-TRHQVALQVAMA---------------EHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNP  310 (398)
T ss_pred             HHHhCCHH-HhCCHHHHHHHH---------------HHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCCh
Confidence            66655432 223444444444               8899999999999999999884  4555322  34455567999


Q ss_pred             HHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHH
Q 004244          671 QKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTE  749 (766)
Q Consensus       671 ~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  749 (766)
                      +++++..++..+.  .|+. ..+..++..+...|++++|..+|+++++..  |+...+..++.++.+.|+.++|.+++++
T Consensus       311 ~~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~--P~~~~~~~La~~~~~~g~~~~A~~~~~~  386 (398)
T PRK10747        311 EQLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQR--PDAYDYAWLADALDRLHKPEEAAAMRRD  386 (398)
T ss_pred             HHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9999999999865  4554 667799999999999999999999999986  4455667899999999999999999997


Q ss_pred             HHH
Q 004244          750 MAK  752 (766)
Q Consensus       750 m~~  752 (766)
                      -..
T Consensus       387 ~l~  389 (398)
T PRK10747        387 GLM  389 (398)
T ss_pred             HHh
Confidence            654

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

Probab=99.55  E-value=1.9e-11  Score=115.00  Aligned_cols=299  Identities=15%  Similarity=0.182  Sum_probs=214.8

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHHH
Q 004244          443 GRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPD---TITYSSLIHGLCEQRRITEAC  519 (766)
Q Consensus       443 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~---~~~~~~li~~~~~~g~~~~A~  519 (766)
                      .+.++|.++|-+|.+... .+..+.-+|.+.|.+.|..|.|+++-..+.++.-.+.   ......|..-|...|-+|.|+
T Consensus        49 ~Q~dKAvdlF~e~l~~d~-~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          49 NQPDKAVDLFLEMLQEDP-ETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             cCcchHHHHHHHHHhcCc-hhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            566667777766666422 2444555666667777777777777766665421111   123345566677788888888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004244          520 ELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDV----VTYSVLINGLNKQARTMEAKKLLLKL  595 (766)
Q Consensus       520 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~l~~~~  595 (766)
                      .+|..+.+.+ .--......|+..|-...+|++|++.-+++.+.+-.+..    .-|..+...+....+.+.|..++.+.
T Consensus       128 ~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kA  206 (389)
T COG2956         128 DIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKA  206 (389)
T ss_pred             HHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            8888888765 444556778889999999999999999988876543332    34666777777788999999999999


Q ss_pred             HhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHH
Q 004244          596 FYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYD  675 (766)
Q Consensus       596 ~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  675 (766)
                      .+.  .|+.+--+.+++              +.+...|+++.|++.++.+.+.+..--..+...|..+|.+.|+.++...
T Consensus       207 lqa--~~~cvRAsi~lG--------------~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~  270 (389)
T COG2956         207 LQA--DKKCVRASIILG--------------RVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLN  270 (389)
T ss_pred             Hhh--Cccceehhhhhh--------------HHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence            874  566666666665              7889999999999999999986543346677889999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHh---cCCChhHHHHHHHHHHH
Q 004244          676 LYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINH---KEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       676 ~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~g~~~~A~~~~~~m~~  752 (766)
                      ++.++.+..  +....-..+........-.+.|..++.+-+...  |+...+..|++...   ..|.+.+-+.+++.|+.
T Consensus       271 fL~~~~~~~--~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~--Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvg  346 (389)
T COG2956         271 FLRRAMETN--TGADAELMLADLIELQEGIDAAQAYLTRQLRRK--PTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVG  346 (389)
T ss_pred             HHHHHHHcc--CCccHHHHHHHHHHHhhChHHHHHHHHHHHhhC--CcHHHHHHHHHhhhccccccchhhhHHHHHHHHH
Confidence            999998653  444444445555555555677888877777775  55556667776654   35678888999999999


Q ss_pred             CCCCCCCCCCC
Q 004244          753 DGLLPNSGRST  763 (766)
Q Consensus       753 ~~~~~~~~~~~  763 (766)
                      ..+...+.+.+
T Consensus       347 e~l~~~~~YRC  357 (389)
T COG2956         347 EQLRRKPRYRC  357 (389)
T ss_pred             HHHhhcCCcee
Confidence            88887776653

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.55  E-value=3.8e-10  Score=107.34  Aligned_cols=446  Identities=11%  Similarity=0.064  Sum_probs=192.2

Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHH
Q 004244          201 KFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDM  280 (766)
Q Consensus       201 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m  280 (766)
                      ..|+.+++--...+-.....+--.+..++...|++++|...+.-+.+.. .++...+-.|.-++.-.|.+.+|..+-.+.
T Consensus        39 tGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka  117 (557)
T KOG3785|consen   39 TGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIEAKSIAEKA  117 (557)
T ss_pred             hhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHHHHHHHhhC
Confidence            5666666554433322222223334455556666666666666665543 344455555555555566666666655544


Q ss_pred             hhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChH
Q 004244          281 GLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVV  360 (766)
Q Consensus       281 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~  360 (766)
                      .+     +.-.-..|.+.-.+.++-++...+.+.+...     ..--.+|.......-.+.+|++++..++..+  |+-.
T Consensus       118 ~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn--~ey~  185 (557)
T KOG3785|consen  118 PK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQDN--PEYI  185 (557)
T ss_pred             CC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcC--hhhh
Confidence            22     2222333344444555555555544444331     1111223333333334566666666665532  2222


Q ss_pred             HHHH-HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004244          361 TYTS-LINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGH  439 (766)
Q Consensus       361 ~~~~-li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~  439 (766)
                      ..|. +.-+|.+..-++-+.++++-..+. ++.+..+.|.......+.=.-..|..-.+++.+++-..    | ..+.-+
T Consensus       186 alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~----~-~f~~~l  259 (557)
T KOG3785|consen  186 ALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE----Y-PFIEYL  259 (557)
T ss_pred             hhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc----c-hhHHHH
Confidence            2222 233455555556666665555544 22234444444444433322233333334444332111    0 011222


Q ss_pred             Hhc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-----H
Q 004244          440 CTG-----GRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHG-----L  509 (766)
Q Consensus       440 ~~~-----g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~-----~  509 (766)
                      ++.     .+-+.|++++-.+.+.  .|  ..--.|+-.|.++++..+|..+.+++..  ..|-......+..+     .
T Consensus       260 ~rHNLVvFrngEgALqVLP~L~~~--IP--EARlNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aalGQe~  333 (557)
T KOG3785|consen  260 CRHNLVVFRNGEGALQVLPSLMKH--IP--EARLNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAALGQET  333 (557)
T ss_pred             HHcCeEEEeCCccHHHhchHHHhh--Ch--HhhhhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHhhhhc
Confidence            222     2334555555444432  11  1222344445566666666655554421  12222221111111     1


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 004244          510 CEQRRITEACELFQEMLSRGMSPDEF-TYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEA  588 (766)
Q Consensus       510 ~~~g~~~~A~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A  588 (766)
                      .......-|.+.|+..-+.+...|.. --.++...+.-..++++.+.+++....-=...|...+ .+..+.+..|.+.+|
T Consensus       334 gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~ea  412 (557)
T KOG3785|consen  334 GSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEA  412 (557)
T ss_pred             CcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHH
Confidence            11112333444444433333332221 1223344444445555555555555443222222332 245555556666666


Q ss_pred             HHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHhcc
Q 004244          589 KKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEA-VYDIIIHGHSKV  667 (766)
Q Consensus       589 ~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~  667 (766)
                      .++|-+.....+ .|..+|.++++              .+|.+++.++.|..++-++-.   +.+.. ....+..-|.+.
T Consensus       413 Eelf~~is~~~i-kn~~~Y~s~LA--------------rCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~  474 (557)
T KOG3785|consen  413 EELFIRISGPEI-KNKILYKSMLA--------------RCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCYKA  474 (557)
T ss_pred             HHHHhhhcChhh-hhhHHHHHHHH--------------HHHHhcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHHHH
Confidence            666554432211 33445544443              455556666555554433322   11222 223333445555


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHH
Q 004244          668 GNVQKAYDLYKKMVRSGFVPHTVTI  692 (766)
Q Consensus       668 g~~~~A~~~~~~m~~~~~~p~~~~~  692 (766)
                      +.+--|-+.|+.+..  ..|+++-|
T Consensus       475 ~eFyyaaKAFd~lE~--lDP~pEnW  497 (557)
T KOG3785|consen  475 NEFYYAAKAFDELEI--LDPTPENW  497 (557)
T ss_pred             HHHHHHHHhhhHHHc--cCCCcccc
Confidence            555555555555442  24554444

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

Probab=99.54  E-value=2.1e-12  Score=133.15  Aligned_cols=286  Identities=16%  Similarity=0.105  Sum_probs=152.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 004244          445 VEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGV--LPDTITYSSLIHGLCEQRRITEACELF  522 (766)
Q Consensus       445 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~A~~~~  522 (766)
                      ..+|...|...... ..-...+...+..+|...+++++|.++|+.+.+...  .-+..+|.+.+--+-   +.-+--.+-
T Consensus       335 ~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq---~~v~Ls~La  410 (638)
T KOG1126|consen  335 CREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQ---DEVALSYLA  410 (638)
T ss_pred             HHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHH---hhHHHHHHH
Confidence            34455555553332 111224444455555555555555555555544311  113444444442221   111111122


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 004244          523 QEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLP-DVVTYSVLINGLNKQARTMEAKKLLLKLFYDESV  601 (766)
Q Consensus       523 ~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~  601 (766)
                      +++.+.. +..+.+|.++.+.|.-+++.+.|++.|++.++.  .| ...+|+.+..-+.....+|.|...|+..+.    
T Consensus       411 q~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~----  483 (638)
T KOG1126|consen  411 QDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALG----  483 (638)
T ss_pred             HHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhc----
Confidence            2223322 444566666666666666666666666666654  23 455666555555666666666666666633    


Q ss_pred             CcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHH
Q 004244          602 PSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKM  680 (766)
Q Consensus       602 p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m  680 (766)
                      .|...|++.-+ |+           -.|.++++++.|+-.|+++.+  +.| +.+....++..+-+.|+.|+|+++++++
T Consensus       484 ~~~rhYnAwYG-lG-----------~vy~Kqek~e~Ae~~fqkA~~--INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A  549 (638)
T KOG1126|consen  484 VDPRHYNAWYG-LG-----------TVYLKQEKLEFAEFHFQKAVE--INPSNSVILCHIGRIQHQLKRKDKALQLYEKA  549 (638)
T ss_pred             CCchhhHHHHh-hh-----------hheeccchhhHHHHHHHhhhc--CCccchhHHhhhhHHHHHhhhhhHHHHHHHHH
Confidence            34444444431 11           456666666666666666666  345 4555555666666666666666666666


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC
Q 004244          681 VRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLP  757 (766)
Q Consensus       681 ~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  757 (766)
                      .... +.|+..-..-+..+...+++++|...+|++.+.. |.+..++..++..|-+.|+.+.|+.-|--+.+.+.++
T Consensus       550 ~~ld-~kn~l~~~~~~~il~~~~~~~eal~~LEeLk~~v-P~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg  624 (638)
T KOG1126|consen  550 IHLD-PKNPLCKYHRASILFSLGRYVEALQELEELKELV-PQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKG  624 (638)
T ss_pred             HhcC-CCCchhHHHHHHHHHhhcchHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCcc
Confidence            6332 2223333334555566666666666666666664 5556666666666666666666666666666555443

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

Probab=99.54  E-value=7.1e-10  Score=109.55  Aligned_cols=366  Identities=13%  Similarity=0.056  Sum_probs=231.5

Q ss_pred             CCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHH-HH
Q 004244          355 LSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMP-SIV-TY  432 (766)
Q Consensus       355 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~-~~~-~~  432 (766)
                      ...|...+-.....+-+.|..+.|++.|......- +-.-.+|..|....   -+.+.+.    .....+ +. +.. .-
T Consensus       160 ~~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~-P~~W~AWleL~~li---t~~e~~~----~l~~~l-~~~~h~M~~  230 (559)
T KOG1155|consen  160 GEKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRY-PWFWSAWLELSELI---TDIEILS----ILVVGL-PSDMHWMKK  230 (559)
T ss_pred             ccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhcC-CcchHHHHHHHHhh---chHHHHH----HHHhcC-cccchHHHH
Confidence            34455555555555667788888888887776541 22223333333222   2222222    222111 11 111 11


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHH
Q 004244          433 NALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGV--LPDTITYSSLIHGLC  510 (766)
Q Consensus       433 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--~p~~~~~~~li~~~~  510 (766)
                      -.+..++-...+.+++.+-.......|++-+...-+....+.....++|+|+.+|+++.+..+  .-|..+|+.++  |.
T Consensus       231 ~F~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~L--Yv  308 (559)
T KOG1155|consen  231 FFLKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVL--YV  308 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHH--HH
Confidence            223445556667788888777787777776666666666667777888888888888877632  12556676666  33


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004244          511 EQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKK  590 (766)
Q Consensus       511 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  590 (766)
                      +..+-.-+. +-+.....+ +-.+.|...+.+-|+-.++.++|..+|++.++.+ +.....|+.+..-|....+...|++
T Consensus       309 ~~~~skLs~-LA~~v~~id-KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~  385 (559)
T KOG1155|consen  309 KNDKSKLSY-LAQNVSNID-KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIE  385 (559)
T ss_pred             HhhhHHHHH-HHHHHHHhc-cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHH
Confidence            333222111 111111111 3345567777777888888888888888888763 3345677777788888888888888


Q ss_pred             HHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCC
Q 004244          591 LLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGN  669 (766)
Q Consensus       591 l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~  669 (766)
                      -++++++- .+-|-..|-.+.               ++|.-.+...-|+-.|++..+  ++| |...|.+|+.+|.+.++
T Consensus       386 sYRrAvdi-~p~DyRAWYGLG---------------QaYeim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~  447 (559)
T KOG1155|consen  386 SYRRAVDI-NPRDYRAWYGLG---------------QAYEIMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNR  447 (559)
T ss_pred             HHHHHHhc-CchhHHHHhhhh---------------HHHHHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhcc
Confidence            88888774 344666777777               788888888888888888887  456 78888888888888888


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCC--hHHHHHHHHHHHhcCCChhHH
Q 004244          670 VQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRS----CRLS--DAELAKVLVEINHKEGNMDAV  743 (766)
Q Consensus       670 ~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~g~~~~A  743 (766)
                      .++|++.|.+....| ..+...+..|++.+-+.++.++|.+++++.++.    +...  ...+..-|+.-+.+.+++++|
T Consensus       448 ~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~A  526 (559)
T KOG1155|consen  448 LEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEA  526 (559)
T ss_pred             HHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHH
Confidence            888888888887655 345567777888888888888888888887763    2111  223333366777777777777


Q ss_pred             HHHHHHHHHC
Q 004244          744 LNVLTEMAKD  753 (766)
Q Consensus       744 ~~~~~~m~~~  753 (766)
                      ..+.....+-
T Consensus       527 s~Ya~~~~~~  536 (559)
T KOG1155|consen  527 SYYATLVLKG  536 (559)
T ss_pred             HHHHHHHhcC
Confidence            7655544433

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

Probab=99.54  E-value=4e-14  Score=142.74  Aligned_cols=261  Identities=17%  Similarity=0.170  Sum_probs=92.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004244          434 ALIKGHCTGGRVEDAVGVLHGMARKG-LAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQ  512 (766)
Q Consensus       434 ~ll~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  512 (766)
                      .+...+.+.|++++|.+++....... .+.+...|..+.......++.+.|.+.++++...+.. +...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            34556666777777777775444332 2334455555556666677777777777777765433 44555556655 577


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004244          513 RRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQK-GFLPDVVTYSVLINGLNKQARTMEAKKL  591 (766)
Q Consensus       513 g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~l  591 (766)
                      +++++|.++++...+.  .++...+...+..+.+.|+++++.++++.+... ..+.+...|..+...+.+.|+.++|.+.
T Consensus        91 ~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             cccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            7777777777766554  345555666777777778888888887776643 2345666777777777788888888888


Q ss_pred             HHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCCh
Q 004244          592 LLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNV  670 (766)
Q Consensus       592 ~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  670 (766)
                      +++.++  ..|+ ......++               ..+...|+.+++.++++...+.. +.|+..+..++.+|...|+.
T Consensus       169 ~~~al~--~~P~~~~~~~~l~---------------~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~  230 (280)
T PF13429_consen  169 YRKALE--LDPDDPDARNALA---------------WLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRY  230 (280)
T ss_dssp             HHHHHH--H-TT-HHHHHHHH---------------HHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-H
T ss_pred             HHHHHH--cCCCCHHHHHHHH---------------HHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccc
Confidence            888777  3454 33444455               67777788887777777766542 23555667778888888888


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 004244          671 QKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILR  717 (766)
Q Consensus       671 ~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  717 (766)
                      ++|+..+++..+.. +.|+.....++.++...|+.++|..+.+++.+
T Consensus       231 ~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  231 EEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHHHHHS-TT-HHHHHHHHHHHT-----------------
T ss_pred             cccccccccccccc-cccccccccccccccccccccccccccccccc
Confidence            88888888877542 34556667788888888888888888777654

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

Probab=99.53  E-value=1.5e-10  Score=117.10  Aligned_cols=92  Identities=12%  Similarity=0.053  Sum_probs=65.7

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 004244          218 NVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIIN  297 (766)
Q Consensus       218 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~  297 (766)
                      +..-+..+.+-+..+.++..|.-+-+++...+..|+..-  -+..+++-.|++++|..+...-.-.  ..|..+......
T Consensus        15 s~~~~~~~~r~~l~q~~y~~a~f~adkV~~l~~dp~d~~--~~aq~l~~~~~y~ra~~lit~~~le--~~d~~cryL~~~   90 (611)
T KOG1173|consen   15 SLEKYRRLVRDALMQHRYKTALFWADKVAGLTNDPADIY--WLAQVLYLGRQYERAAHLITTYKLE--KRDIACRYLAAK   90 (611)
T ss_pred             cHHHHHHHHHHHHHHHhhhHHHHHHHHHHhccCChHHHH--HHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHHHHHH
Confidence            455666677766777778888877787776664454443  4567777788888888877665332  347777777788


Q ss_pred             HHHHcCChhHHHHHHH
Q 004244          298 GLCKEGRLKETKGILN  313 (766)
Q Consensus       298 ~~~~~g~~~~a~~~~~  313 (766)
                      .+.+..++++|..++.
T Consensus        91 ~l~~lk~~~~al~vl~  106 (611)
T KOG1173|consen   91 CLVKLKEWDQALLVLG  106 (611)
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            8888888888888876

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

Probab=99.53  E-value=6.7e-11  Score=111.37  Aligned_cols=297  Identities=15%  Similarity=0.149  Sum_probs=222.0

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC------hHHHHH
Q 004244          291 SYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPN------VVTYTS  364 (766)
Q Consensus       291 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~------~~~~~~  364 (766)
                      .|-.=++.+ -..+.++|.++|-+|.+... .+..+..+|.+.|-+.|..|.|+++++.+.++   ||      ......
T Consensus        38 ~Yv~GlNfL-Ls~Q~dKAvdlF~e~l~~d~-~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~q  112 (389)
T COG2956          38 DYVKGLNFL-LSNQPDKAVDLFLEMLQEDP-ETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQ  112 (389)
T ss_pred             HHHhHHHHH-hhcCcchHHHHHHHHHhcCc-hhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHH
Confidence            344444433 35678899999999988432 23445667888899999999999999988875   33      234456


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHH
Q 004244          365 LINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSI----VTYNALIKGHC  440 (766)
Q Consensus       365 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~----~~~~~ll~~~~  440 (766)
                      |..-|...|-+|.|.++|..+.+.+.. -......|+..|-...++++|++.-+++.+.+-.+..    ..|.-+...+.
T Consensus       113 L~~Dym~aGl~DRAE~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~  191 (389)
T COG2956         113 LGRDYMAAGLLDRAEDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQAL  191 (389)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHh
Confidence            778889999999999999998876422 4567788899999999999999999988887644432    24556666666


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004244          441 TGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACE  520 (766)
Q Consensus       441 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  520 (766)
                      ...+++.|..++.+..+.+.+ .+..--.+.+.+...|+++.|.+.++...+.+..--..+...|..+|.+.|+.++...
T Consensus       192 ~~~~~d~A~~~l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~  270 (389)
T COG2956         192 ASSDVDRARELLKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLN  270 (389)
T ss_pred             hhhhHHHHHHHHHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence            778999999999999887543 5555566778899999999999999999998765556678889999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH---hcCCHHHHHHHHHHHHh
Q 004244          521 LFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLN---KQARTMEAKKLLLKLFY  597 (766)
Q Consensus       521 ~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~---~~g~~~~A~~l~~~~~~  597 (766)
                      .+..+.+....++.  -..+...-....-.+.|..++.+-+.+  .|+...+..+++.-.   ..|+..+.+.++++|+.
T Consensus       271 fL~~~~~~~~g~~~--~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvg  346 (389)
T COG2956         271 FLRRAMETNTGADA--ELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVG  346 (389)
T ss_pred             HHHHHHHccCCccH--HHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHH
Confidence            99999887433333  334444334444456666666666555  699999999998764   45667788888888876


Q ss_pred             C
Q 004244          598 D  598 (766)
Q Consensus       598 ~  598 (766)
                      .
T Consensus       347 e  347 (389)
T COG2956         347 E  347 (389)
T ss_pred             H
Confidence            4

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.53  E-value=4.8e-09  Score=110.36  Aligned_cols=492  Identities=14%  Similarity=0.104  Sum_probs=273.7

Q ss_pred             hcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHH---HHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhH
Q 004244          231 GVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDG---YCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKE  307 (766)
Q Consensus       231 ~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~---~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  307 (766)
                      +.++.+.+..-+......+.+.+..++..+-.+   |+..|+.+++  .+-.......-|....+.+++...        
T Consensus       239 ~~~~~~~~i~s~~~~l~~~w~~~~l~ka~l~~~~~~f~~~~~~Ee~--~Lllli~es~i~Re~~~d~ilslm--------  308 (799)
T KOG4162|consen  239 KLSGPKEAIKSYRRALLRSWSLDPLTKARLYKGFALFLPKSGQEEV--ILLLLIEESLIPRENIEDAILSLM--------  308 (799)
T ss_pred             CCCCchHHHHhhhHHhhcccccchhHHHHHhhcccccCCCCcHHHH--HHHHHHHhhccccccHHHHHHHHH--------
Confidence            445556666666666666655555555444332   3344555555  222222221222222222222111        


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004244          308 TKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHV  387 (766)
Q Consensus       308 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  387 (766)
                        -++.++....+.-|...|..+--+....|+++.+.+.|++....- -.....|+.+...|...|.-..|..+++.-..
T Consensus       309 --~~~~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~  385 (799)
T KOG4162|consen  309 --LLLRKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLK  385 (799)
T ss_pred             --HHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhcc
Confidence              112233333344456666666667777777777777777665432 22455666677777777777777777766554


Q ss_pred             CCCCCCHhHHHHHHHH-HH-hcCCHHHHHHHHHHHHHC--CC--CCCHHHHHHHHHHHHhc-----------CCHHHHHH
Q 004244          388 RELRPNEKTYTTLING-FS-QHGFLDEAYRLLNEMTKN--GF--MPSIVTYNALIKGHCTG-----------GRVEDAVG  450 (766)
Q Consensus       388 ~~~~~~~~~~~~li~~-~~-~~g~~~~A~~l~~~m~~~--g~--~~~~~~~~~ll~~~~~~-----------g~~~~A~~  450 (766)
                      ....|+..+--.++.. |. +.+..++++++-.++...  +.  ......|..+.-+|...           ....++.+
T Consensus       386 ~~~~ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslq  465 (799)
T KOG4162|consen  386 KSEQPSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQ  465 (799)
T ss_pred             cccCCCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHH
Confidence            4323433333233322 22 345556665555555441  11  11222333333333211           12445666


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004244          451 VLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGM  530 (766)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  530 (766)
                      .+++..+.+.. |+.+.--+.--|...++++.|.+..++..+.+..-+...|..|.-.+...+++.+|+.+.+.....- 
T Consensus       466 ale~av~~d~~-dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~-  543 (799)
T KOG4162|consen  466 ALEEAVQFDPT-DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF-  543 (799)
T ss_pred             HHHHHHhcCCC-CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh-
Confidence            66666665432 2222222334466667777777777777777555677777777777777777777777777666541 


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC---------------------CC-------CCCHHHHHHHHHHHHhc
Q 004244          531 SPDEFTYTTLINAYCTEGDIPQALRLHDEMIQK---------------------GF-------LPDVVTYSVLINGLNKQ  582 (766)
Q Consensus       531 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---------------------g~-------~p~~~~~~~li~~~~~~  582 (766)
                      ..|......-+..-..-++.++|+.....+...                     |.       .....++..+..-....
T Consensus       544 ~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~  623 (799)
T KOG4162|consen  544 GDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQ  623 (799)
T ss_pred             hhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhh
Confidence            222222222222233345555555544444321                     00       00111222221111100


Q ss_pred             CCHHHHHHHHHHHHhCCC--CCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHH
Q 004244          583 ARTMEAKKLLLKLFYDES--VPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDI  659 (766)
Q Consensus       583 g~~~~A~~l~~~~~~~~~--~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~  659 (766)
                      +  +.+-.-.. +.....  .|+...+ ...        ..+.-....+.+.++.++|...+.+....  .| ....|..
T Consensus       624 ~--~~~~se~~-Lp~s~~~~~~~~~~~-~~~--------~lwllaa~~~~~~~~~~~a~~CL~Ea~~~--~~l~~~~~~~  689 (799)
T KOG4162|consen  624 L--KSAGSELK-LPSSTVLPGPDSLWY-LLQ--------KLWLLAADLFLLSGNDDEARSCLLEASKI--DPLSASVYYL  689 (799)
T ss_pred             h--hhcccccc-cCcccccCCCCchHH-HHH--------HHHHHHHHHHHhcCCchHHHHHHHHHHhc--chhhHHHHHH
Confidence            0  00000000 111111  1221111 110        01112226677889999999888888763  35 7788888


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHH--HHHHHHHcCCCChHHHHHHHHHHHhc
Q 004244          660 IIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQ--VIENILRSCRLSDAELAKVLVEINHK  736 (766)
Q Consensus       660 l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~--~~~~~~~~~~~~~~~~~~~l~~~~~~  736 (766)
                      .+..+...|++++|.+.|..+..  +.|+. .+..+++..+.+.|+..-|..  ++..+++.+ |.+...|..|+.++-+
T Consensus       690 ~G~~~~~~~~~~EA~~af~~Al~--ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~  766 (799)
T KOG4162|consen  690 RGLLLEVKGQLEEAKEAFLVALA--LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKK  766 (799)
T ss_pred             hhHHHHHHHhhHHHHHHHHHHHh--cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHH
Confidence            88999999999999999999884  46765 778899999999998877777  999999999 6778999999999999


Q ss_pred             CCChhHHHHHHHHHHHCC
Q 004244          737 EGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       737 ~g~~~~A~~~~~~m~~~~  754 (766)
                      .|+.++|.+.|.......
T Consensus       767 ~Gd~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  767 LGDSKQAAECFQAALQLE  784 (799)
T ss_pred             ccchHHHHHHHHHHHhhc
Confidence            999999999998866543

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

Probab=99.52  E-value=7.7e-10  Score=112.14  Aligned_cols=94  Identities=12%  Similarity=0.045  Sum_probs=67.0

Q ss_pred             CCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHH
Q 004244          179 PGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYN  258 (766)
Q Consensus       179 ~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~  258 (766)
                      .+..-+..+++-+....+   +.-|.-+-+++...+  -|+..--.+..+++-.|++++|..+...-.-.  ..|..+..
T Consensus        14 ~s~~~~~~~~r~~l~q~~---y~~a~f~adkV~~l~--~dp~d~~~~aq~l~~~~~y~ra~~lit~~~le--~~d~~cry   86 (611)
T KOG1173|consen   14 LSLEKYRRLVRDALMQHR---YKTALFWADKVAGLT--NDPADIYWLAQVLYLGRQYERAAHLITTYKLE--KRDIACRY   86 (611)
T ss_pred             ccHHHHHHHHHHHHHHHh---hhHHHHHHHHHHhcc--CChHHHHHHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHH
Confidence            355566666664444442   367777777776554  44444455888899999999998877665322  24788888


Q ss_pred             HHHHHHHHcCChhHHHHHHHH
Q 004244          259 TLIDGYCKLGRIDDAFKLLRD  279 (766)
Q Consensus       259 ~li~~~~~~g~~~~A~~l~~~  279 (766)
                      ....++.+..++++|..++..
T Consensus        87 L~~~~l~~lk~~~~al~vl~~  107 (611)
T KOG1173|consen   87 LAAKCLVKLKEWDQALLVLGR  107 (611)
T ss_pred             HHHHHHHHHHHHHHHHHHhcc
Confidence            888999999999999999873

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

Probab=99.51  E-value=7.2e-08  Score=99.30  Aligned_cols=525  Identities=12%  Similarity=0.121  Sum_probs=288.2

Q ss_pred             hHHHHHHHHHHcCCCCcHHHHHHHHHHHhh-CCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHH
Q 004244          183 SYNAILDSVIRSGRNNWVKFAEEVYNEMGK-SRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLI  261 (766)
Q Consensus       183 ~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~-~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li  261 (766)
                      .|-..+..+.+.|.   +..-...|+.... ..+......|...+.-....|-++.+..++++..+.    ++..-+-.|
T Consensus       104 Iwl~Ylq~l~~Q~~---iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyi  176 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGL---ITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYI  176 (835)
T ss_pred             HHHHHHHHHHhcch---HHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHH
Confidence            34444444444442   2445555554433 222333445555555555556666666666666553    223345555


Q ss_pred             HHHHHcCChhHHHHHHHHHhhCC------CCCCHHHHHHHHHHHHHcCChhH---HHHHHHHHHHCCCCCCH--HHHHHH
Q 004244          262 DGYCKLGRIDDAFKLLRDMGLKG------IEPNLISYNVIINGLCKEGRLKE---TKGILNEISRKGLVPDE--VTYNTL  330 (766)
Q Consensus       262 ~~~~~~g~~~~A~~l~~~m~~~g------~~p~~~~~~~li~~~~~~g~~~~---a~~~~~~m~~~g~~p~~--~~~~~l  330 (766)
                      ..+++.+++++|.+.+.......      -+.+-..|..+-+...+..+.-.   ...+++.+..  .-+|.  ..|.+|
T Consensus       177 e~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~--rftDq~g~Lw~SL  254 (835)
T KOG2047|consen  177 EYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIR--RFTDQLGFLWCSL  254 (835)
T ss_pred             HHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcc--cCcHHHHHHHHHH
Confidence            55666666666666655553211      11223334444444333322221   2222222222  12332  234555


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHH--HCCCCCCHhHHHHHHHHHHhcC
Q 004244          331 LNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMH--VRELRPNEKTYTTLINGFSQHG  408 (766)
Q Consensus       331 i~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~--~~~~~~~~~~~~~li~~~~~~g  408 (766)
                      .+-|.+.|.++.|..+|++....  ...+.-|+.+.+.|..-..-.-+..+ + +.  +.+-+-+..             
T Consensus       255 AdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~m-e-~a~~~~~n~ed~~-------------  317 (835)
T KOG2047|consen  255 ADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKM-E-LADEESGNEEDDV-------------  317 (835)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHH-h-hhhhcccChhhhh-------------
Confidence            55555555555555555555443  12333344444444332211111110 0 00  001011111             


Q ss_pred             CHHHHHHHHHHHHHCC-----------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC------HHHHHHHH
Q 004244          409 FLDEAYRLLNEMTKNG-----------FMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPD------VVSYSTII  471 (766)
Q Consensus       409 ~~~~A~~l~~~m~~~g-----------~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~------~~~~~~li  471 (766)
                      +++-.+.-|+.+...+           -+.++..|..-+..  ..|+..+-...+.++.+. +.|.      ...|..+.
T Consensus       318 dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l--~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~fa  394 (835)
T KOG2047|consen  318 DLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKL--YEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFA  394 (835)
T ss_pred             hHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhhh--hcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHH
Confidence            1222233333333221           12344455544433  457788888888888764 2222      24588888


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC----------------
Q 004244          472 SGFSRSQELDKAFDTKREMVEKGVLPD---TITYSSLIHGLCEQRRITEACELFQEMLSRGMSP----------------  532 (766)
Q Consensus       472 ~~~~~~g~~~~A~~~~~~m~~~~~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p----------------  532 (766)
                      +.|-..|+++.|..+|++......+--   ..+|..-...-.+..+++.|+++++......-.|                
T Consensus       395 klYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlh  474 (835)
T KOG2047|consen  395 KLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLH  474 (835)
T ss_pred             HHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHH
Confidence            999999999999999999887644321   2455555666667888999999988876432111                


Q ss_pred             -CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHH-hHHHH
Q 004244          533 -DEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDV-IYNTL  610 (766)
Q Consensus       533 -~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~-~~~~l  610 (766)
                       +...|...++.--..|-++....+++.+++..+. ++...-...-.+-.+.-++++.+++++-+..-.-|+.. .|+.-
T Consensus       475 rSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tY  553 (835)
T KOG2047|consen  475 RSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTY  553 (835)
T ss_pred             HhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHH
Confidence             1223444555555678899999999999876543 22222223334556778899999998877653334432 34444


Q ss_pred             hhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH--HHHhccCChHHHHHHHHHHHHcCCCCC
Q 004244          611 IENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIII--HGHSKVGNVQKAYDLYKKMVRSGFVPH  688 (766)
Q Consensus       611 l~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~--~~~~~~g~~~~A~~~~~~m~~~~~~p~  688 (766)
                      +.           ..+.-| ....++.|..+|++.++ |.+|...-+-.|+  ..--+.|....|+.+++++.. ++++.
T Consensus       554 Lt-----------kfi~ry-gg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~-~v~~a  619 (835)
T KOG2047|consen  554 LT-----------KFIKRY-GGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS-AVKEA  619 (835)
T ss_pred             HH-----------HHHHHh-cCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh-cCCHH
Confidence            41           112322 34578999999999999 5667433332333  333356889999999999764 34444


Q ss_pred             H--HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCh-HHHHHHHHHHHhcCCChhHHHHHHHHHH
Q 004244          689 T--VTIIVLVKALHTAGMNEELSQVIENILRSCRLSD-AELAKVLVEINHKEGNMDAVLNVLTEMA  751 (766)
Q Consensus       689 ~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~  751 (766)
                      .  ..|+..+.-....=-......+|+++++.-+..+ .......++.-.+.|..+.|..++..-.
T Consensus       620 ~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~s  685 (835)
T KOG2047|consen  620 QRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGS  685 (835)
T ss_pred             HHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhh
Confidence            3  5677666554444345566788999988743333 3345677888899999999999886543

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

Probab=99.50  E-value=1.8e-10  Score=112.11  Aligned_cols=287  Identities=14%  Similarity=0.080  Sum_probs=165.5

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 004244          407 HGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDT  486 (766)
Q Consensus       407 ~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  486 (766)
                      .|++.+|+++..+-.+.+-. ....|..-..+--..|+.+.+-.++.++.+.-..++...+-+........|+++.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            45555555555554444422 22233333444445555555555555555543333444444445555555555555555


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHhcCChHHHHHHHHH
Q 004244          487 KREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDE-------FTYTTLINAYCTEGDIPQALRLHDE  559 (766)
Q Consensus       487 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-------~~~~~l~~~~~~~g~~~~A~~~~~~  559 (766)
                      .+++.+.+.. ++........+|.+.|++.+...++..+.+.+.-.+.       .+|+.+++-....+..+.-...++.
T Consensus       176 v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            5555554433 3445555555555666666666666665555543332       2455555555555555554455555


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHH
Q 004244          560 MIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEAD  639 (766)
Q Consensus       560 ~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~  639 (766)
                      ...+ .+-++..-.+++.-+.+.|+.++|.++..+.++.+..|...   .+                -.+.+.++.+.-+
T Consensus       255 ~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~---~~----------------~~~l~~~d~~~l~  314 (400)
T COG3071         255 QPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLC---RL----------------IPRLRPGDPEPLI  314 (400)
T ss_pred             ccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH---HH----------------HhhcCCCCchHHH
Confidence            5443 33445555566667777777777777777777765555521   11                2344566666666


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 004244          640 RVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       640 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      +..++-... .+.++..+..|+..|.+.+.|.+|.+.|+..++  ..|+..+|..++.++.+.|+.++|.+..++.+..
T Consensus       315 k~~e~~l~~-h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~  390 (400)
T COG3071         315 KAAEKWLKQ-HPEDPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREALLL  390 (400)
T ss_pred             HHHHHHHHh-CCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            666665543 222556677777777788888888888777763  4677777777777777888887777777776643

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

Probab=99.47  E-value=1.2e-11  Score=127.66  Aligned_cols=288  Identities=16%  Similarity=0.057  Sum_probs=222.5

Q ss_pred             ChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCCHhHHHHHHHHHHhcCCHHHHHHH
Q 004244          339 NLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVREL--RPNEKTYTTLINGFSQHGFLDEAYRL  416 (766)
Q Consensus       339 ~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~l  416 (766)
                      +..+|...|+.+.+. +.-...+...+..+|...+++++|.++|+.+.+...  --+...|.+.+.-+-+.    -++..
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~  408 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSY  408 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHH
Confidence            456888888885554 333446667888999999999999999999887631  12567787777654332    23333


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC
Q 004244          417 LNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVL  496 (766)
Q Consensus       417 ~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  496 (766)
                      +.+-.-.--+..+.+|.++.+.|.-+++.+.|++.|++....+.. ...+|+.+..=+....++|+|...|+..+.....
T Consensus       409 Laq~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r  487 (638)
T KOG1126|consen  409 LAQDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR  487 (638)
T ss_pred             HHHHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch
Confidence            333222223557789999999999999999999999999886332 6788998888889999999999999998765322


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004244          497 PDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLI  576 (766)
Q Consensus       497 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li  576 (766)
                       +...|..|.-.|.+.++++.|.-.|+++.+.+ +-+.+....+...+-+.|+.++|+++++++.... +.|+..--..+
T Consensus       488 -hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld-~kn~l~~~~~~  564 (638)
T KOG1126|consen  488 -HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD-PKNPLCKYHRA  564 (638)
T ss_pred             -hhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC-CCCchhHHHHH
Confidence             33456667778999999999999999999876 6677778888889999999999999999999764 34555544556


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCC
Q 004244          577 NGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHM  651 (766)
Q Consensus       577 ~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  651 (766)
                      ..+...+++++|+..++++.+  +.|+..+...+++              ..|.+.|+.+.|+.-|.-+.+...+
T Consensus       565 ~il~~~~~~~eal~~LEeLk~--~vP~es~v~~llg--------------ki~k~~~~~~~Al~~f~~A~~ldpk  623 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKE--LVPQESSVFALLG--------------KIYKRLGNTDLALLHFSWALDLDPK  623 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHH--hCcchHHHHHHHH--------------HHHHHHccchHHHHhhHHHhcCCCc
Confidence            777889999999999999988  6777766666664              8899999999999999998885433

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

Probab=99.46  E-value=1e-09  Score=106.96  Aligned_cols=287  Identities=14%  Similarity=0.131  Sum_probs=171.9

Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHH
Q 004244          302 EGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEF  381 (766)
Q Consensus       302 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  381 (766)
                      .|++..|+++..+-.+.+-.| ...|..-..+.-..|+.+.+-..+.+..+..-.++...+-+..+.....|+++.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            455555555555544443222 2233334444445555555555555555543334444455555555555555555555


Q ss_pred             HHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHH
Q 004244          382 FDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSI-------VTYNALIKGHCTGGRVEDAVGVLHG  454 (766)
Q Consensus       382 ~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~-------~~~~~ll~~~~~~g~~~~A~~~~~~  454 (766)
                      .+++.+.+.. +..........|.+.|++.+...++..+.+.|.-.|.       .+|+.++.-....+..+.-...++.
T Consensus       176 v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            5555554322 4445555555666666666666666666555543332       2455555555555555554555555


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 004244          455 MARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDE  534 (766)
Q Consensus       455 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  534 (766)
                      .... .+.++..-.+++.-+.+.|+.++|.++..+..+++..|...    ..-.+.+-++.+.-++..+.-.+.. +.++
T Consensus       255 ~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~----~~~~~l~~~d~~~l~k~~e~~l~~h-~~~p  328 (400)
T COG3071         255 QPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLC----RLIPRLRPGDPEPLIKAAEKWLKQH-PEDP  328 (400)
T ss_pred             ccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH----HHHhhcCCCCchHHHHHHHHHHHhC-CCCh
Confidence            4443 23355566667777778888888888887777776655411    1223556677776666666666542 4445


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 004244          535 FTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYD  598 (766)
Q Consensus       535 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~  598 (766)
                      -.+.+|...|.+.+.|.+|...|+...+.  .|+..+|..+.+++.+.|+..+|.++.++.+..
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~  390 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALLL  390 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            67778888888888888888888877764  678888888888888888888888888776543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.46  E-value=1.2e-08  Score=97.39  Aligned_cols=451  Identities=12%  Similarity=0.078  Sum_probs=264.4

Q ss_pred             HHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChh
Q 004244          227 RGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLK  306 (766)
Q Consensus       227 ~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  306 (766)
                      .-+....++..|+.+++--...+-.-...+-.=+..++...|++++|...+.-+..+. .|+...+..+.-.+.-.|.+.
T Consensus        30 edfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~  108 (557)
T KOG3785|consen   30 EDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYI  108 (557)
T ss_pred             HHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHH
Confidence            3455567777777777665543321111222223456667888888888888776643 455556666666666678888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004244          307 ETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMH  386 (766)
Q Consensus       307 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  386 (766)
                      +|..+-++..+     ++..-..+.+..-+.|+-++-..+.+.+.+     ...--.+|.......-.+.+|++++++..
T Consensus       109 eA~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD-----~~EdqLSLAsvhYmR~HYQeAIdvYkrvL  178 (557)
T KOG3785|consen  109 EAKSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQD-----TLEDQLSLASVHYMRMHYQEAIDVYKRVL  178 (557)
T ss_pred             HHHHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhh-----hHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            88777655432     333344455566677777777766665543     22333455556666667888888888887


Q ss_pred             HCCCCCCHhHHHHHH-HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 004244          387 VRELRPNEKTYTTLI-NGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVV  465 (766)
Q Consensus       387 ~~~~~~~~~~~~~li-~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  465 (766)
                      ..  .|+-...|.-+ -+|.+..-++-+.++++...+. ++.+....|....-..+.=+-..|+.-...+.+.+-..   
T Consensus       179 ~d--n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~---  252 (557)
T KOG3785|consen  179 QD--NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE---  252 (557)
T ss_pred             hc--ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc---
Confidence            75  34555555433 4566777788888888777765 23344445544444444333334444444554432211   


Q ss_pred             HHHHHHHHHHcc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004244          466 SYSTIISGFSRS-----QELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTL  540 (766)
Q Consensus       466 ~~~~li~~~~~~-----g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  540 (766)
                        -..+.-.++.     .+-+.|++++-.+.+.  .|  ..-..|+--|.+++++.+|..+.+++.-  ..|-......+
T Consensus       253 --~~f~~~l~rHNLVvFrngEgALqVLP~L~~~--IP--EARlNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgv  324 (557)
T KOG3785|consen  253 --YPFIEYLCRHNLVVFRNGEGALQVLPSLMKH--IP--EARLNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGV  324 (557)
T ss_pred             --chhHHHHHHcCeEEEeCCccHHHhchHHHhh--Ch--HhhhhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHH
Confidence              1122233332     3456777777766653  22  3333455567888888888888877632  13333333333


Q ss_pred             HHHHH-----hcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhh
Q 004244          541 INAYC-----TEGDIPQALRLHDEMIQKGFLPDVV-TYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENC  614 (766)
Q Consensus       541 ~~~~~-----~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~  614 (766)
                      ..+-.     ......-|.+.|+..-+.+..-|.. --.++..++.-..++++.+..+.....--...|...+|..    
T Consensus       325 v~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N~A----  400 (557)
T KOG3785|consen  325 VFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNLNLA----  400 (557)
T ss_pred             HHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhHHH----
Confidence            33221     1113455666666555554443332 3345566666667788888877777654344454444432    


Q ss_pred             chhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHH
Q 004244          615 TNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVY-DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTII  693 (766)
Q Consensus       615 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  693 (766)
                                  ++++..|++.+|.++|-.+....++ |..+| ..|.++|.+.|+++-|.+++-++-   -+.+..+..
T Consensus       401 ------------QAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~---t~~e~fsLL  464 (557)
T KOG3785|consen  401 ------------QAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTN---TPSERFSLL  464 (557)
T ss_pred             ------------HHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcC---CchhHHHHH
Confidence                        6788888888888888776543333 44455 456677888888888877766553   223333333


Q ss_pred             -HHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 004244          694 -VLVKALHTAGMNEELSQVIENILRSCRLS  722 (766)
Q Consensus       694 -~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  722 (766)
                       .++.-|.+.+++=-|.+.|+.+...+|.+
T Consensus       465 qlIAn~CYk~~eFyyaaKAFd~lE~lDP~p  494 (557)
T KOG3785|consen  465 QLIANDCYKANEFYYAAKAFDELEILDPTP  494 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHccCCCc
Confidence             44567888888888888888777776544

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.45  E-value=3.2e-09  Score=109.47  Aligned_cols=438  Identities=14%  Similarity=0.144  Sum_probs=207.1

Q ss_pred             HcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHH
Q 004244          301 KEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAME  380 (766)
Q Consensus       301 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  380 (766)
                      ..+++...++..+.+.+. .+-...|.....-.++..|+-++|....+.-.+..+ .+.+.|..+.-.+....++++|++
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-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDL-KSHVCWHVLGLLQRSDKKYDEAIK   96 (700)
T ss_pred             HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCc-ccchhHHHHHHHHhhhhhHHHHHH
Confidence            344455555555444442 111122222222234445555555555554444322 144445555544555555555555


Q ss_pred             HHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-
Q 004244          381 FFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKG-  459 (766)
Q Consensus       381 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~-  459 (766)
                      .|......+. .|...|.-+.-.-.+.++++-....-.+..+.. +.....|..+..++--.|+...|..+++...+.. 
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 CYRNALKIEK-DNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQN  174 (700)
T ss_pred             HHHHHHhcCC-CcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            5555554432 244444444444444455444444444444331 1223344444444555555555555555554432 


Q ss_pred             CCCCHHHHHHHH------HHHHccCCHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 004244          460 LAPDVVSYSTII------SGFSRSQELDKAFDTKREMVEKGVLPDTITY-SSLIHGLCEQRRITEACELFQEMLSRGMSP  532 (766)
Q Consensus       460 ~~~~~~~~~~li------~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  532 (766)
                      -.|+...+.-..      ......|..++|.+.+..-... + .|-..+ ..-...+.+.+++++|..++..++..  .|
T Consensus       175 ~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i-~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nP  250 (700)
T KOG1156|consen  175 TSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-I-VDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NP  250 (700)
T ss_pred             cCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-H-HHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--Cc
Confidence            123333322221      1234455555555554443321 1 122222 22334455666666666666666665  33


Q ss_pred             CHHHHH-HHHHHHHhcCChHHHH-HHHHHHHHCCCCCCHHHHH-HHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHH
Q 004244          533 DEFTYT-TLINAYCTEGDIPQAL-RLHDEMIQKGFLPDVVTYS-VLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNT  609 (766)
Q Consensus       533 ~~~~~~-~l~~~~~~~g~~~~A~-~~~~~~~~~g~~p~~~~~~-~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~  609 (766)
                      |..-|. .+..++.+-.+.-++. .+|....+.  .|-...-. .-++.+....-.+..-+++..+++.|+++--....+
T Consensus       251 dn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~S  328 (700)
T KOG1156|consen  251 DNLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRS  328 (700)
T ss_pred             hhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--CcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHH
Confidence            433333 3333332222222222 444443332  11111000 001111112222233344455555555443333322


Q ss_pred             HhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHhccCChHHHHHHHHHHHHcCCCC
Q 004244          610 LIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEA--VYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVP  687 (766)
Q Consensus       610 ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~--~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p  687 (766)
                      +...-..  ...+..++..|...-.........+.  ..--+|...  ++..++..+-+.|+++.|.++++.+++  -.|
T Consensus       329 Lyk~p~k--~~~le~Lvt~y~~~L~~~~~f~~~D~--~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AId--HTP  402 (700)
T KOG1156|consen  329 LYKDPEK--VAFLEKLVTSYQHSLSGTGMFNFLDD--GKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAID--HTP  402 (700)
T ss_pred             HHhchhH--hHHHHHHHHHHHhhcccccCCCcccc--cccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhc--cCc
Confidence            2210000  00000011111100000000000000  000134444  445677888899999999999999984  467


Q ss_pred             CH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          688 HT-VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       688 ~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      +. +-|..-++.+...|+.++|..+++++.+.+ .+|..+-..-+.-..++.+.++|.++.......|.
T Consensus       403 TliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  403 TLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             hHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            65 566677888999999999999999999987 44444444677778889999999999999888885

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.44  E-value=4.4e-07  Score=97.95  Aligned_cols=542  Identities=13%  Similarity=0.132  Sum_probs=283.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC---CCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 004244          149 IDLVVKSYSHLNMIDKAVNIVNLAKVH---GFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVL  225 (766)
Q Consensus       149 ~~~l~~~~~~~g~~~~A~~~~~~~~~~---g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  225 (766)
                      +..+..-|.++|.+.+|++.|..+..-   -...+...--.+..-+.+..    ++++.+.++.|...++..|..+.-.+
T Consensus       609 ra~IAqLCEKAGL~qraLehytDl~DIKR~vVhth~L~pEwLv~yFg~ls----ve~s~eclkaml~~NirqNlQi~VQv  684 (1666)
T KOG0985|consen  609 RAEIAQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPEWLVNYFGSLS----VEDSLECLKAMLSANIRQNLQIVVQV  684 (1666)
T ss_pred             HHHHHHHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHHHHHHHHHhcC----HHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            456678889999999999888754321   00001111112333343333    58999999999999999998888888


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhC-----------CCCcCHHHHHHHHHHHHHcCChhHHHHHHHHH------------hh
Q 004244          226 IRGFCGVGDLEMGLRFFSEMEKN-----------NCLANVVTYNTLIDGYCKLGRIDDAFKLLRDM------------GL  282 (766)
Q Consensus       226 i~~~~~~g~~~~A~~~~~~m~~~-----------g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m------------~~  282 (766)
                      ..-|+..=-.+.-.++|+.....           ++..|....-..|.+.|+.|++.+.+++.++-            ++
T Consensus       685 atky~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicresn~YdpErvKNfLke  764 (1666)
T KOG0985|consen  685 ATKYHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKE  764 (1666)
T ss_pred             HHHHHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccccCCHHHHHHHHHh
Confidence            88888877778888888887542           24456666667899999999999988876542            11


Q ss_pred             C---------------CCCCCHHHHH------HHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHH------------HH
Q 004244          283 K---------------GIEPNLISYN------VIINGLCKEGRLKETKGILNEISRKGLVPDEVTY------------NT  329 (766)
Q Consensus       283 ~---------------g~~p~~~~~~------~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~------------~~  329 (766)
                      .               |..+|.+.|-      ..|..|.+.=+....-.+...+....+. ....-            .-
T Consensus       765 AkL~DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~LLD~dC~-E~~ik~Li~~v~gq~~~de  843 (1666)
T KOG0985|consen  765 AKLTDQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGALLDVDCS-EDFIKNLILSVRGQFPVDE  843 (1666)
T ss_pred             ccccccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhhhhcCCCc-HHHHHHHHHHHhccCChHH
Confidence            1               1112222221      1233333332222222222222221111 01111            11


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCC-HHHHHH---HHH-----HH-HHC-----------
Q 004244          330 LLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGN-LNRAME---FFD-----QM-HVR-----------  388 (766)
Q Consensus       330 li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~-~~~A~~---~~~-----~m-~~~-----------  388 (766)
                      |..-.-+.+++.--...++..+..|.. |..++|+|...|...++ ++.-++   .|+     +. .++           
T Consensus       844 Lv~EvEkRNRLklLlp~LE~~i~eG~~-d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYer  922 (1666)
T KOG0985|consen  844 LVEEVEKRNRLKLLLPWLESLIQEGSQ-DPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYER  922 (1666)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHhccCc-chHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeecc
Confidence            223344555555666667777777755 78888888877766543 221110   011     11 011           


Q ss_pred             CCC--------CCHhHHHHHHHHHHhcCCHHHH-----------HHHHHHHHHCCCC--CCHHHHHHHHHHHHhcCCHHH
Q 004244          389 ELR--------PNEKTYTTLINGFSQHGFLDEA-----------YRLLNEMTKNGFM--PSIVTYNALIKGHCTGGRVED  447 (766)
Q Consensus       389 ~~~--------~~~~~~~~li~~~~~~g~~~~A-----------~~l~~~m~~~g~~--~~~~~~~~ll~~~~~~g~~~~  447 (766)
                      |..        -....|..+.+-+.+..+.+--           ..+.++....+++  .|+......++++...+-..+
T Consensus       923 GqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~e 1002 (1666)
T KOG0985|consen  923 GQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNE 1002 (1666)
T ss_pred             cCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHH
Confidence            000        0011122222222333322211           2334444443322  234444445556666666666


Q ss_pred             HHHHHHHHHHCC--CCCCHHHHHHHH---------------------------HHHHccCCHHHHHHHHHHHHHCC----
Q 004244          448 AVGVLHGMARKG--LAPDVVSYSTII---------------------------SGFSRSQELDKAFDTKREMVEKG----  494 (766)
Q Consensus       448 A~~~~~~~~~~~--~~~~~~~~~~li---------------------------~~~~~~g~~~~A~~~~~~m~~~~----  494 (766)
                      -+++++++.-.+  +.-+...-|.|+                           ......+-+++|+.+|++....+    
T Consensus      1003 LIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf~~n~~A~~ 1082 (1666)
T KOG0985|consen 1003 LIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIFKKFDMNVSAIQ 1082 (1666)
T ss_pred             HHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHHHHhcccHHHHH
Confidence            666666554321  000111111111                           11222334556666555431100    


Q ss_pred             -----------------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 004244          495 -----------------VLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLH  557 (766)
Q Consensus       495 -----------------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  557 (766)
                                       -.-.+..|+.+..+-.+.|.+.+|++-|-+.      .|+..|..+++...+.|.+++-.+++
T Consensus      1083 VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL 1156 (1666)
T KOG0985|consen 1083 VLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYL 1156 (1666)
T ss_pred             HHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHH
Confidence                             0113456777777777778877777766442      35667778888888888888888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHH
Q 004244          558 DEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNE  637 (766)
Q Consensus       558 ~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~  637 (766)
                      ....++.-.|.+.+  .++-+|++.++..+-.+++       ..|+......+.               +-|...|.++.
T Consensus      1157 ~MaRkk~~E~~id~--eLi~AyAkt~rl~elE~fi-------~gpN~A~i~~vG---------------drcf~~~~y~a 1212 (1666)
T KOG0985|consen 1157 LMARKKVREPYIDS--ELIFAYAKTNRLTELEEFI-------AGPNVANIQQVG---------------DRCFEEKMYEA 1212 (1666)
T ss_pred             HHHHHhhcCccchH--HHHHHHHHhchHHHHHHHh-------cCCCchhHHHHh---------------HHHhhhhhhHH
Confidence            77777655565554  5777788888877766554       345655555555               45555555555


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHH----------------------HHcCC--CCCHHHHH
Q 004244          638 ADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKM----------------------VRSGF--VPHTVTII  693 (766)
Q Consensus       638 A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m----------------------~~~~~--~p~~~~~~  693 (766)
                      |.-+|....         .|..|...+...|.+..|.+.-+++                      .-.|+  .....-.-
T Consensus      1213 Akl~y~~vS---------N~a~La~TLV~LgeyQ~AVD~aRKAns~ktWK~VcfaCvd~~EFrlAQiCGL~iivhadeLe 1283 (1666)
T KOG0985|consen 1213 AKLLYSNVS---------NFAKLASTLVYLGEYQGAVDAARKANSTKTWKEVCFACVDKEEFRLAQICGLNIIVHADELE 1283 (1666)
T ss_pred             HHHHHHHhh---------hHHHHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHhchhhhhHHHhcCceEEEehHhHH
Confidence            554443322         2333333344444444333332221                      11121  22333344


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhc
Q 004244          694 VLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHK  736 (766)
Q Consensus       694 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  736 (766)
                      .++.-|...|-+++-+.+++..+... ..+.+.+..|+-.|.+
T Consensus      1284 eli~~Yq~rGyFeElIsl~Ea~LGLE-RAHMgmfTELaiLYsk 1325 (1666)
T KOG0985|consen 1284 ELIEYYQDRGYFEELISLLEAGLGLE-RAHMGMFTELAILYSK 1325 (1666)
T ss_pred             HHHHHHHhcCcHHHHHHHHHhhhchh-HHHHHHHHHHHHHHHh
Confidence            55666666666666666666665543 3345555556555554

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.42  E-value=3.3e-11  Score=113.28  Aligned_cols=235  Identities=14%  Similarity=0.050  Sum_probs=197.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          498 DTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLIN  577 (766)
Q Consensus       498 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~  577 (766)
                      |-.--+.+..+|.+.|.+.+|.+.++.-++.  .|-+.||-.|-..|.+..+.+.|+.++.+-++. ++-|+.....+..
T Consensus       222 dwwWk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~AR  298 (478)
T KOG1129|consen  222 DWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQAR  298 (478)
T ss_pred             hHHHHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHH
Confidence            3344467888999999999999999998887  667778888999999999999999999999986 4555555566777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCcHH-hHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 004244          578 GLNKQARTMEAKKLLLKLFYDESVPSDV-IYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAV  656 (766)
Q Consensus       578 ~~~~~g~~~~A~~l~~~~~~~~~~p~~~-~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~  656 (766)
                      .+...++.++|.++++...+.  .|..+ ....+.               ..|.-.++++-|+..|+++++.|.. ++..
T Consensus       299 i~eam~~~~~a~~lYk~vlk~--~~~nvEaiAcia---------------~~yfY~~~PE~AlryYRRiLqmG~~-speL  360 (478)
T KOG1129|consen  299 IHEAMEQQEDALQLYKLVLKL--HPINVEAIACIA---------------VGYFYDNNPEMALRYYRRILQMGAQ-SPEL  360 (478)
T ss_pred             HHHHHHhHHHHHHHHHHHHhc--CCccceeeeeee---------------eccccCCChHHHHHHHHHHHHhcCC-ChHH
Confidence            888899999999999999874  33332 222222               6788899999999999999999875 8889


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Q 004244          657 YDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT--VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEIN  734 (766)
Q Consensus       657 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  734 (766)
                      |+.+.-+|...+++|-++.-|++++..--.|+.  .+|..+.......|++.-|.+.|+-++..+ +.+.+.+++|+-.-
T Consensus       361 f~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~  439 (478)
T KOG1129|consen  361 FCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLA  439 (478)
T ss_pred             HhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHH
Confidence            999999999999999999999999865545654  678889888999999999999999999988 67889999999999


Q ss_pred             hcCCChhHHHHHHHHHHHCC
Q 004244          735 HKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       735 ~~~g~~~~A~~~~~~m~~~~  754 (766)
                      .+.|+.++|..+++......
T Consensus       440 ~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  440 ARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             hhcCchHHHHHHHHHhhhhC
Confidence            99999999999999876654

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.42  E-value=7e-08  Score=101.84  Aligned_cols=436  Identities=12%  Similarity=0.030  Sum_probs=225.8

Q ss_pred             CcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHH-HHHH
Q 004244          251 LANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEV-TYNT  329 (766)
Q Consensus       251 ~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~  329 (766)
                      .-|...|..|.-++...|+++.+-+.|++....- --....|+.+...|...|.-..|..++++-......|+.. .+..
T Consensus       320 qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lm  398 (799)
T KOG4162|consen  320 QNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLM  398 (799)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHH
Confidence            3455666666666666677777766666654321 2234456666666666666666666666655433223322 2222


Q ss_pred             HHHHHH-hcCChHHHHHHHHHHHHC--CC--CCChHHHHHHHHHHHhc-----------CCHHHHHHHHHHHHHCCCCCC
Q 004244          330 LLNGYC-KEGNLHQALVLHAEMVRN--GL--SPNVVTYTSLINSMCKS-----------GNLNRAMEFFDQMHVRELRPN  393 (766)
Q Consensus       330 li~~~~-~~g~~~~A~~~~~~~~~~--g~--~~~~~~~~~li~~~~~~-----------g~~~~A~~~~~~m~~~~~~~~  393 (766)
                      .-..|. +.+.+++++..-.+....  +.  ......|-.+.-+|...           ....++.+.+++..+.+.. |
T Consensus       399 asklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~-d  477 (799)
T KOG4162|consen  399 ASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT-D  477 (799)
T ss_pred             HHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC-C
Confidence            222222 345555555555544441  10  01222333333333211           1123455555555554322 2


Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004244          394 EKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISG  473 (766)
Q Consensus       394 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  473 (766)
                      ....--+.--|+..++++.|.+..++..+-+-..+...|..+.-.+...+++.+|+.+.+...+.-.. |......-+..
T Consensus       478 p~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~-N~~l~~~~~~i  556 (799)
T KOG4162|consen  478 PLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGD-NHVLMDGKIHI  556 (799)
T ss_pred             chHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh-hhhhchhhhhh
Confidence            22222233334455556666666666665544455555655555555666666666665555443100 11111111122


Q ss_pred             HHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCChH
Q 004244          474 FSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSR--GMSPDEFTYTTLINAYCTEGDIP  551 (766)
Q Consensus       474 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~~~~~~~l~~~~~~~g~~~  551 (766)
                      -..-++.++|+.....+...        |...- +....++-....+....+.-.  .......++..+.......+...
T Consensus       557 ~~~~~~~e~~l~t~~~~L~~--------we~~~-~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~  627 (799)
T KOG4162|consen  557 ELTFNDREEALDTCIHKLAL--------WEAEY-GVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSA  627 (799)
T ss_pred             hhhcccHHHHHHHHHHHHHH--------HHhhh-hHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhc
Confidence            22345555555544444321        00000 001111111112222211110  00111223332222221111100


Q ss_pred             HHHHHHHHHHHCCC--CCC------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHH
Q 004244          552 QALRLHDEMIQKGF--LPD------VVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVA  623 (766)
Q Consensus       552 ~A~~~~~~~~~~g~--~p~------~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~  623 (766)
                      .....   +...-.  .|+      ...|....+.+.+.+..++|...+.+.... .......|....            
T Consensus       628 ~se~~---Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G------------  691 (799)
T KOG4162|consen  628 GSELK---LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRG------------  691 (799)
T ss_pred             ccccc---cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhh------------
Confidence            00000   111111  122      234556677788889999998888887663 223333444433            


Q ss_pred             HHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHH--HHHHHHHcCCCCCHHHHHHHHHHHH
Q 004244          624 ALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYD--LYKKMVRSGFVPHTVTIIVLVKALH  700 (766)
Q Consensus       624 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~--~~~~m~~~~~~p~~~~~~~l~~~~~  700 (766)
                         ..+...|..++|.+.|.....  +.| ++....+++.++.+.|+..-|..  ++..+++.+ +-+...|..++..+.
T Consensus       692 ---~~~~~~~~~~EA~~af~~Al~--ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k  765 (799)
T KOG4162|consen  692 ---LLLEVKGQLEEAKEAFLVALA--LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFK  765 (799)
T ss_pred             ---HHHHHHHhhHHHHHHHHHHHh--cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHH
Confidence               567788999999999998887  456 67788999999999999887777  899998654 345589999999999


Q ss_pred             hcCChHHHHHHHHHHHHcCC
Q 004244          701 TAGMNEELSQVIENILRSCR  720 (766)
Q Consensus       701 ~~g~~~~A~~~~~~~~~~~~  720 (766)
                      +.|+.++|...|+.+.+...
T Consensus       766 ~~Gd~~~Aaecf~aa~qLe~  785 (799)
T KOG4162|consen  766 KLGDSKQAAECFQAALQLEE  785 (799)
T ss_pred             HccchHHHHHHHHHHHhhcc
Confidence            99999999999999998753

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.41  E-value=1.1e-07  Score=98.37  Aligned_cols=458  Identities=13%  Similarity=0.131  Sum_probs=230.3

Q ss_pred             hcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHH
Q 004244          231 GVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKG  310 (766)
Q Consensus       231 ~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  310 (766)
                      ..+++...+++.+.+.+. .+-...|.....-.++..|+-++|.+..+.-...++. +.++|.++.-.+-...++++|++
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-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRSDKKYDEAIK   96 (700)
T ss_pred             HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhhhhhHHHHHH
Confidence            445556666666665552 2223333333333445556666666666655543332 55666666555555666666666


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-
Q 004244          311 ILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRE-  389 (766)
Q Consensus       311 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-  389 (766)
                      .|......+. -|...+.-+.-.-.+.|+++..........+.. +.....|..++.++.-.|++..|..+.++..+.. 
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 CYRNALKIEK-DNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQN  174 (700)
T ss_pred             HHHHHHhcCC-CcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            6666666432 134444444444455566666555555555431 2234455666666666666666666666665543 


Q ss_pred             CCCCHhHHHHHH------HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 004244          390 LRPNEKTYTTLI------NGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPD  463 (766)
Q Consensus       390 ~~~~~~~~~~li------~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~  463 (766)
                      -.|+...+....      ......|..++|.+.+..-... +......-..-...+.+.+++++|..++..+...+  ||
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            134444433222      2334455566666655444332 11111122233445566677777777777776653  34


Q ss_pred             HHHHHH-HHHHHHccCCHHHHH-HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004244          464 VVSYST-IISGFSRSQELDKAF-DTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLI  541 (766)
Q Consensus       464 ~~~~~~-li~~~~~~g~~~~A~-~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~  541 (766)
                      ...|.. +..++.+..+.-++. .+|....+.-...... -..=+.......-.+..-+++..+.+.|+++-   +..+.
T Consensus       252 n~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p-~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~v---f~dl~  327 (700)
T KOG1156|consen  252 NLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECP-RRLPLSVLNGEELKEIVDKYLRPLLSKGVPSV---FKDLR  327 (700)
T ss_pred             hHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccc-hhccHHHhCcchhHHHHHHHHHHHhhcCCCch---hhhhH
Confidence            433333 333443333333333 4455444331110000 00001111112223334445555666664432   22333


Q ss_pred             HHHHhcCChHHHHHHHHHHHH----CC----------CCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHH
Q 004244          542 NAYCTEGDIPQALRLHDEMIQ----KG----------FLPDVVTYS--VLINGLNKQARTMEAKKLLLKLFYDESVPSDV  605 (766)
Q Consensus       542 ~~~~~~g~~~~A~~~~~~~~~----~g----------~~p~~~~~~--~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~  605 (766)
                      ..|-.-.+.+--.++.-.+..    .|          -+|....|+  .++..+-+.|+++.|...++..+.  ..|+.+
T Consensus       328 SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AId--HTPTli  405 (700)
T KOG1156|consen  328 SLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAID--HTPTLI  405 (700)
T ss_pred             HHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhc--cCchHH
Confidence            333221111111111111111    11          145554444  455566778888888888888876  355544


Q ss_pred             hHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCC
Q 004244          606 IYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGF  685 (766)
Q Consensus       606 ~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  685 (766)
                      -.-.+-+              ..+...|++++|..++++..+.+ .||...-.--+.-..+.++.++|.++.......|.
T Consensus       406 Ely~~Ka--------------RI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  406 ELYLVKA--------------RIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHH--------------HHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            3332222              67788888888888888887753 23544433455556678888888888877776553


Q ss_pred             C--CC----HHHHHHH--HHHHHhcCChHHHHHHHHHHH
Q 004244          686 V--PH----TVTIIVL--VKALHTAGMNEELSQVIENIL  716 (766)
Q Consensus       686 ~--p~----~~~~~~l--~~~~~~~g~~~~A~~~~~~~~  716 (766)
                      .  .|    ...|..+  +.+|.+.|++.+|.+-+..+-
T Consensus       471 ~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~  509 (700)
T KOG1156|consen  471 GAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIE  509 (700)
T ss_pred             chhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHH
Confidence            1  11    0223322  456667777777766555543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.33  E-value=8.2e-10  Score=108.36  Aligned_cols=200  Identities=15%  Similarity=0.143  Sum_probs=121.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhh
Q 004244          535 FTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENC  614 (766)
Q Consensus       535 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~  614 (766)
                      ..+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+.   
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~---  106 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYG---  106 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHH---
Confidence            445555556666666666666666665441 3334555556666666666666666666665532 11222333333   


Q ss_pred             chhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHH
Q 004244          615 TNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTII  693 (766)
Q Consensus       615 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  693 (766)
                                  ..+...|++++|.+.++++.+....| ....+..++.++...|++++|.+.+++..+.. +.+...+.
T Consensus       107 ------------~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~  173 (234)
T TIGR02521       107 ------------TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLL  173 (234)
T ss_pred             ------------HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHH
Confidence                        55666677777777776666532222 34455566677777777777777777776432 22345666


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHC
Q 004244          694 VLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKD  753 (766)
Q Consensus       694 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  753 (766)
                      .++..+...|++++|..+++++++.. +.+...+..++..+...|+.++|..+.+.+...
T Consensus       174 ~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       174 ELAELYYLRGQYKDARAYLERYQQTY-NQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            67777777777777777777777663 445555666677777777777777777666543

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.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.33  E-value=1.4e-09  Score=114.08  Aligned_cols=238  Identities=19%  Similarity=0.136  Sum_probs=167.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CC-CCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHHC-----CC-C
Q 004244          500 ITYSSLIHGLCEQRRITEACELFQEMLSR-----GM-SPDEF-TYTTLINAYCTEGDIPQALRLHDEMIQK-----GF-L  566 (766)
Q Consensus       500 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~-~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----g~-~  566 (766)
                      .+...+...|...|+++.|..+++..++.     |. .|... ..+.+...|...+++++|..+|+++...     |- .
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            34445666777777777777777766543     21 22322 2344667788889999999998888743     21 1


Q ss_pred             CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHH
Q 004244          567 PD-VVTYSVLINGLNKQARTMEAKKLLLKLFYD-----E-SVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEAD  639 (766)
Q Consensus       567 p~-~~~~~~li~~~~~~g~~~~A~~l~~~~~~~-----~-~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~  639 (766)
                      |. ..+++.|..+|.+.|++++|...+++.++-     + ..|+....              +..+...++..+++++|.
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~--------------l~~~~~~~~~~~~~Eea~  345 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQ--------------LSELAAILQSMNEYEEAK  345 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHH--------------HHHHHHHHHHhcchhHHH
Confidence            22 346677778889999999988888877642     1 11222222              123347899999999999


Q ss_pred             HHHHHHHhC---CCCCC----HHHHHHHHHHHhccCChHHHHHHHHHHHHc----CC--CCC-HHHHHHHHHHHHhcCCh
Q 004244          640 RVFELMLQR---NHMPN----EAVYDIIIHGHSKVGNVQKAYDLYKKMVRS----GF--VPH-TVTIIVLVKALHTAGMN  705 (766)
Q Consensus       640 ~~~~~~~~~---~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~----~~--~p~-~~~~~~l~~~~~~~g~~  705 (766)
                      .+++...+.   -+.++    ..+++.|...|.+.|++++|.+++++++..    +.  .+. ...++.+...|.+.+++
T Consensus       346 ~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~  425 (508)
T KOG1840|consen  346 KLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKY  425 (508)
T ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhccc
Confidence            999877641   12222    467899999999999999999999998742    12  222 35677889999999999


Q ss_pred             HHHHHHHHHHHHc------CCCChHHHHHHHHHHHhcCCChhHHHHHHHHHH
Q 004244          706 EELSQVIENILRS------CRLSDAELAKVLVEINHKEGNMDAVLNVLTEMA  751 (766)
Q Consensus       706 ~~A~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  751 (766)
                      ++|.+.|.+....      +.|....+|..|+..|.+.|++++|.++.+.+.
T Consensus       426 ~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  426 EEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             chHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            9998888875533      334456789999999999999999999988766

>PRK12370 invasion protein regulator; Provisional

Probab=99.31  E-value=9.6e-10  Score=121.38  Aligned_cols=216  Identities=12%  Similarity=-0.037  Sum_probs=112.2

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 004244          513 RRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLL  592 (766)
Q Consensus       513 g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~  592 (766)
                      +++++|...+++..+.+ +.+...+..+...+...|++++|...+++.++.+ +.+...+..+...+...|++++|...+
T Consensus       318 ~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~  395 (553)
T PRK12370        318 NAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTI  395 (553)
T ss_pred             hHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            34566666666666654 4455555566666666666666666666666542 333455555666666666666666666


Q ss_pred             HHHHhCCCCCcHHh-HHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCCh
Q 004244          593 LKLFYDESVPSDVI-YNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNV  670 (766)
Q Consensus       593 ~~~~~~~~~p~~~~-~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~  670 (766)
                      ++.++.  .|+... +..+.               ..+...|++++|+..++++.+.. .| ++..+..+..++...|+.
T Consensus       396 ~~Al~l--~P~~~~~~~~~~---------------~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~  457 (553)
T PRK12370        396 NECLKL--DPTRAAAGITKL---------------WITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKH  457 (553)
T ss_pred             HHHHhc--CCCChhhHHHHH---------------HHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCH
Confidence            666653  333221 11112               23444566666666666665432 23 344455566666666777


Q ss_pred             HHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHH
Q 004244          671 QKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTE  749 (766)
Q Consensus       671 ~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  749 (766)
                      ++|.+.++++...  .|+. .....+...+...|  ++|...++++++.. .........+...|.-.|+.+.+..+ ++
T Consensus       458 ~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~-~~~~~~~~~~~~~~~~~g~~~~~~~~-~~  531 (553)
T PRK12370        458 ELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLESE-QRIDNNPGLLPLVLVAHGEAIAEKMW-NK  531 (553)
T ss_pred             HHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHh-hHhhcCchHHHHHHHHHhhhHHHHHH-HH
Confidence            7776666665422  3333 22333444445545  35666566555431 00011111133344445554544444 55


Q ss_pred             HHHCC
Q 004244          750 MAKDG  754 (766)
Q Consensus       750 m~~~~  754 (766)
                      +.+.|
T Consensus       532 ~~~~~  536 (553)
T PRK12370        532 FKNED  536 (553)
T ss_pred             hhccc
Confidence            55543

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.31  E-value=9.7e-07  Score=95.40  Aligned_cols=218  Identities=12%  Similarity=0.135  Sum_probs=142.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q 004244          151 LVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFC  230 (766)
Q Consensus       151 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  230 (766)
                      .++.+|+..|.+++++-+.   .+-|..||.   -.+|..+.+..    .+.+.++...|....  |....++.+...+.
T Consensus       486 KVi~cfAE~Gqf~KiilY~---kKvGyTPdy---mflLq~l~r~s----PD~~~qFa~~l~Q~~--~~~~die~I~DlFm  553 (1666)
T KOG0985|consen  486 KVIQCFAETGQFKKIILYA---KKVGYTPDY---MFLLQQLKRSS----PDQALQFAMMLVQDE--EPLADIEQIVDLFM  553 (1666)
T ss_pred             HHHHHHHHhcchhHHHHHH---HHcCCCccH---HHHHHHHHccC----hhHHHHHHHHhhccC--CCcccHHHHHHHHH
Confidence            3556666666666665544   345778874   45677777755    488888888887743  33444566667676


Q ss_pred             hcCChhhHHHHHHHHHhCCCCcCH------------------------------HHHHHHHHHHHHcCChhHHHHHHHHH
Q 004244          231 GVGDLEMGLRFFSEMEKNNCLANV------------------------------VTYNTLIDGYCKLGRIDDAFKLLRDM  280 (766)
Q Consensus       231 ~~g~~~~A~~~~~~m~~~g~~~~~------------------------------~~~~~li~~~~~~g~~~~A~~l~~~m  280 (766)
                      .....+.+..++-...+.. .|+.                              .-+..+.+.|-+.|-+.+|++.+..+
T Consensus       554 e~N~iQq~TSFLLdaLK~~-~Pd~g~LQTrLLE~NL~~aPqVADAILgN~mFtHyDra~IAqLCEKAGL~qraLehytDl  632 (1666)
T KOG0985|consen  554 ELNLIQQCTSFLLDALKLN-SPDEGHLQTRLLEMNLVHAPQVADAILGNDMFTHYDRAEIAQLCEKAGLLQRALEHYTDL  632 (1666)
T ss_pred             HHHhhhhhHHHHHHHhcCC-ChhhhhHHHHHHHHHhccchHHHHHHHhccccccccHHHHHHHHHhcchHHHHHHhcccH
Confidence            6666666666655554432 2221                              12345566677788888888777776


Q ss_pred             hhCCCCCCHHHHHHH-----HHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC--
Q 004244          281 GLKGIEPNLISYNVI-----INGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRN--  353 (766)
Q Consensus       281 ~~~g~~p~~~~~~~l-----i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--  353 (766)
                      ..  ++..+ ..+.+     +-.|...-.++++.+.+..|...++..|..+...+..-|+..=-.+.-+++|+....-  
T Consensus       633 ~D--IKR~v-Vhth~L~pEwLv~yFg~lsve~s~eclkaml~~NirqNlQi~VQvatky~eqlg~~~li~lFE~fks~eG  709 (1666)
T KOG0985|consen  633 YD--IKRVV-VHTHLLNPEWLVNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQVATKYHEQLGAQALIELFESFKSYEG  709 (1666)
T ss_pred             HH--HHHHH-HHhccCCHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCHHHHHHHHHhhccchh
Confidence            43  12222 22222     2344555677888888888888888778777777777788777778888888876542  


Q ss_pred             ---------CCCCChHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004244          354 ---------GLSPNVVTYTSLINSMCKSGNLNRAMEFFDQ  384 (766)
Q Consensus       354 ---------g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  384 (766)
                               ++.-|+.+.-..|.+.|+.|++.+..++-++
T Consensus       710 L~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicre  749 (1666)
T KOG0985|consen  710 LYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRE  749 (1666)
T ss_pred             HHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhc
Confidence                     2445666677788999999999998888654

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.30  E-value=1.8e-09  Score=105.91  Aligned_cols=201  Identities=12%  Similarity=0.059  Sum_probs=129.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004244          499 TITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLING  578 (766)
Q Consensus       499 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~  578 (766)
                      ...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            3445555666666666666666666666543 3345556666666667777777777777666542 3344556666666


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 004244          579 LNKQARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVY  657 (766)
Q Consensus       579 ~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~  657 (766)
                      +...|++++|.+.+++.......+. ...+..+.               ..+...|++++|...+++..+.. +.+...+
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~---------------~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~  172 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAG---------------LCALKAGDFDKAEKYLTRALQID-PQRPESL  172 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHHhC-cCChHHH
Confidence            6777777777777777765322121 22222233               56777788888888888777642 1245667


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 004244          658 DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       658 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      ..++..+...|++++|.+.++++.+. .+.+...+..++..+...|+.++|..+.+.+...
T Consensus       173 ~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       173 LELAELYYLRGQYKDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            77778888888888888888887754 2334456666677777788888888877766544

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=99.30  E-value=2.1e-07  Score=95.26  Aligned_cols=453  Identities=13%  Similarity=0.142  Sum_probs=228.6

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHH--HHHHHH--
Q 004244          225 LIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNV--IINGLC--  300 (766)
Q Consensus       225 li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~--li~~~~--  300 (766)
                      =++.+.+.|++++|.+..+.+...+ +.+...+..-+-++.+.+++++|+.+.+.-..      ..+++.  +=.+||  
T Consensus        18 ~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~------~~~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   18 DLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA------LLVINSFFFEKAYCEY   90 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch------hhhcchhhHHHHHHHH
Confidence            4556677788888888888887765 44566666666677777888888866554321      111222  234444  


Q ss_pred             HcCChhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC-ChHHHHHHHHHHHhcCCHHHH
Q 004244          301 KEGRLKETKGILNEISRKGLVPDE-VTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSP-NVVTYTSLINSMCKSGNLNRA  378 (766)
Q Consensus       301 ~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~-~~~~~~~li~~~~~~g~~~~A  378 (766)
                      +.++.++|+..+.     |..++. .+...-...+.+.|++++|..+|+.+.+.+.+. +...-..++..-    -...+
T Consensus        91 rlnk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~----a~l~~  161 (652)
T KOG2376|consen   91 RLNKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVA----AALQV  161 (652)
T ss_pred             HcccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHH----HhhhH
Confidence            5777888877776     333333 244455566777888888888888877764331 111112222111    11111


Q ss_pred             HHHHHHHHHCCCCCCHhHHHHHH---HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004244          379 MEFFDQMHVRELRPNEKTYTTLI---NGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGM  455 (766)
Q Consensus       379 ~~~~~~m~~~~~~~~~~~~~~li---~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~  455 (766)
                      . +.+.   ....| ..+|..+-   ..+...|++.+|+++++...+.+..           .++. ++.. -+.+-.+ 
T Consensus       162 ~-~~q~---v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e-----------~l~~-~d~~-eEeie~e-  222 (652)
T KOG2376|consen  162 Q-LLQS---VPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICRE-----------KLED-EDTN-EEEIEEE-  222 (652)
T ss_pred             H-HHHh---ccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH-----------hhcc-cccc-hhhHHHH-
Confidence            1 1221   11122 23443333   3445677777777777776432100           0000 0000 0000000 


Q ss_pred             HHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHH----HHHHHHHHHhcCCHH--HHHHHH-------
Q 004244          456 ARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTIT----YSSLIHGLCEQRRIT--EACELF-------  522 (766)
Q Consensus       456 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~----~~~li~~~~~~g~~~--~A~~~~-------  522 (766)
                            .+ ..--.|...+...|+.++|..++...+...+. |...    -|.|+. .....++-  .++..+       
T Consensus       223 ------l~-~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~~-D~~~~Av~~NNLva-~~~d~~~~d~~~l~~k~~~~~~l  293 (652)
T KOG2376|consen  223 ------LN-PIRVQLAYVLQLQGQTAEASSIYVDIIKRNPA-DEPSLAVAVNNLVA-LSKDQNYFDGDLLKSKKSQVFKL  293 (652)
T ss_pred             ------HH-HHHHHHHHHHHHhcchHHHHHHHHHHHHhcCC-CchHHHHHhcchhh-hccccccCchHHHHHHHHHHHHh
Confidence                  00 01112233344455555555555555544322 2211    111111 11111110  111111       


Q ss_pred             -----HHHHHCCCCCCHHHH-HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HhcCCHHHHHHHHHHH
Q 004244          523 -----QEMLSRGMSPDEFTY-TTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGL-NKQARTMEAKKLLLKL  595 (766)
Q Consensus       523 -----~~m~~~~~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~-~~~g~~~~A~~l~~~~  595 (766)
                           ..+...  .-..+.. +.++..|  .+..+.+.++......  ..|....=..+..+. ++.....+|.+++...
T Consensus       294 ~~~~l~~Ls~~--qk~~i~~N~~lL~l~--tnk~~q~r~~~a~lp~--~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~  367 (652)
T KOG2376|consen  294 AEFLLSKLSKK--QKQAIYRNNALLALF--TNKMDQVRELSASLPG--MSPESLFPILLQEATKVREKKHKKAIELLLQF  367 (652)
T ss_pred             HHHHHHHHHHH--HHHHHHHHHHHHHHH--hhhHHHHHHHHHhCCc--cCchHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence                 111111  0011111 2233333  3444555555444332  234333222222222 2333577788887777


Q ss_pred             HhCCCCCcH--HhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHH--------HHHhCCCCCCHHHHHHHHHHHh
Q 004244          596 FYDESVPSD--VIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFE--------LMLQRNHMPNEAVYDIIIHGHS  665 (766)
Q Consensus       596 ~~~~~~p~~--~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~--------~~~~~~~~p~~~~~~~l~~~~~  665 (766)
                      ...  .|..  .+....+               ......|+++.|++++.        .+.+.+..|-  +...+...+.
T Consensus       368 ~~~--~p~~s~~v~L~~a---------------Ql~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~--~V~aiv~l~~  428 (652)
T KOG2376|consen  368 ADG--HPEKSKVVLLLRA---------------QLKISQGNPEVALEILSLFLESWKSSILEAKHLPG--TVGAIVALYY  428 (652)
T ss_pred             hcc--CCchhHHHHHHHH---------------HHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChh--HHHHHHHHHH
Confidence            653  3333  2222222               67788999999999998        5555554444  4455667777


Q ss_pred             ccCChHHHHHHHHHHHHc--CCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCC
Q 004244          666 KVGNVQKAYDLYKKMVRS--GFVPHT----VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGN  739 (766)
Q Consensus       666 ~~g~~~~A~~~~~~m~~~--~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  739 (766)
                      +.++.+.|..++.+++.-  .-.+..    ..+.-++..-.+.|+.++|...++++++.+ +++..+...++-+|++. +
T Consensus       429 ~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~-d  506 (652)
T KOG2376|consen  429 KIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARL-D  506 (652)
T ss_pred             hccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhc-C
Confidence            888777777777776521  011222    334444555567799999999999999987 67788888899888855 5


Q ss_pred             hhHHHHHHH
Q 004244          740 MDAVLNVLT  748 (766)
Q Consensus       740 ~~~A~~~~~  748 (766)
                      .+.|..+-+
T Consensus       507 ~eka~~l~k  515 (652)
T KOG2376|consen  507 PEKAESLSK  515 (652)
T ss_pred             HHHHHHHhh
Confidence            566665543

>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=99.29  E-value=4.5e-07  Score=96.76  Aligned_cols=50  Identities=18%  Similarity=0.203  Sum_probs=39.7

Q ss_pred             HHhcCC-hHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHH
Q 004244          699 LHTAGM-NEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTE  749 (766)
Q Consensus       699 ~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  749 (766)
                      +.+..+ .++|.++++-+.... +....+|..-.++|.+.|++--|++.+.+
T Consensus       466 L~~t~dPLe~A~kfl~pL~~~a-~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  466 LLKTEDPLEEAMKFLKPLLELA-PDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             HhcCCcHHHHHHHHHHHHHHhC-ccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence            344443 588999999998887 66788888888999999999888887654

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=99.28  E-value=4.8e-07  Score=88.55  Aligned_cols=190  Identities=13%  Similarity=0.025  Sum_probs=91.6

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 004244          510 CEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAK  589 (766)
Q Consensus       510 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  589 (766)
                      ...++++.|+.+-++.++.+ +-+...|-.-.+.+...|+.++|.-.|+...... +-+...|..|+..|...|++.||.
T Consensus       311 ~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~  388 (564)
T KOG1174|consen  311 YDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEAN  388 (564)
T ss_pred             hhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHH
Confidence            34445555555555544432 2233333333344445555555555555554431 234455555555555555555555


Q ss_pred             HHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccC
Q 004244          590 KLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPN-EAVYDIIIHGHSKVG  668 (766)
Q Consensus       590 ~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  668 (766)
                      -+-+...+. +..+..+... +++.            -.+....--++|.+++++.+.  +.|+ ....+.+...+...|
T Consensus       389 ~~An~~~~~-~~~sA~~LtL-~g~~------------V~~~dp~~rEKAKkf~ek~L~--~~P~Y~~AV~~~AEL~~~Eg  452 (564)
T KOG1174|consen  389 ALANWTIRL-FQNSARSLTL-FGTL------------VLFPDPRMREKAKKFAEKSLK--INPIYTPAVNLIAELCQVEG  452 (564)
T ss_pred             HHHHHHHHH-hhcchhhhhh-hcce------------eeccCchhHHHHHHHHHhhhc--cCCccHHHHHHHHHHHHhhC
Confidence            444443332 1111111111 1000            001111123555566555554  3343 334455555566666


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          669 NVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       669 ~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      ..++++.++++.+.  ..||....+.|++.+...+.+++|...|..++..+
T Consensus       453 ~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d  501 (564)
T KOG1174|consen  453 PTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD  501 (564)
T ss_pred             ccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            66666666666552  34666666666666666666666666666666665

>PF13041 PPR_2: PPR repeat family

Probab=99.28  E-value=8.4e-12  Score=87.71  Aligned_cols=47  Identities=55%  Similarity=1.110  Sum_probs=19.2

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 004244          253 NVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGL  299 (766)
Q Consensus       253 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~  299 (766)
                      |+++||++|++|++.|++++|.++|++|.+.|+.||..||+.+|++|
T Consensus         2 ~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~   48 (50)
T PF13041_consen    2 DVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGL   48 (50)
T ss_pred             chHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            33444444444444444444444444444444444444444444433

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.28  E-value=2.7e-07  Score=90.21  Aligned_cols=293  Identities=16%  Similarity=0.083  Sum_probs=197.6

Q ss_pred             hcCCHHHHHHHHHHHHHC-CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHH
Q 004244          371 KSGNLNRAMEFFDQMHVR-ELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIV-TYNALIKGHCTGGRVEDA  448 (766)
Q Consensus       371 ~~g~~~~A~~~~~~m~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~-~~~~ll~~~~~~g~~~~A  448 (766)
                      -.++...|...+-.+... -++-|+.....+.+.+...|+.++|...|++....  .|+.. ......-.+.+.|+.++.
T Consensus       208 ~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~  285 (564)
T KOG1174|consen  208 FNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQD  285 (564)
T ss_pred             HhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhH
Confidence            344444454444443333 23445666777777777777777777777776654  22221 122222334566777777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004244          449 VGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSR  528 (766)
Q Consensus       449 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  528 (766)
                      ..+...+.... +-....|-.-.......++++.|+.+-++.++.+.. +...+-.-...+.+.|++++|.-.|+..+..
T Consensus       286 ~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~L  363 (564)
T KOG1174|consen  286 SALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQML  363 (564)
T ss_pred             HHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhc
Confidence            77777665542 113333444444555677888888888887765432 4444544456778889999999999988876


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHH-hcCCHHHHHHHHHHHHhCCCCCcHHh
Q 004244          529 GMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLI-NGLN-KQARTMEAKKLLLKLFYDESVPSDVI  606 (766)
Q Consensus       529 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li-~~~~-~~g~~~~A~~l~~~~~~~~~~p~~~~  606 (766)
                      . +.+...|..|+..|...|++.+|..+-+...+. ++.+..+...+. ..+. ...--++|.+++++.+.  ..|+-.-
T Consensus       364 a-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P~Y~~  439 (564)
T KOG1174|consen  364 A-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INPIYTP  439 (564)
T ss_pred             c-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCCccHH
Confidence            3 567889999999999999999998888777764 455666665442 2222 33345788899988876  4666443


Q ss_pred             HHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCC
Q 004244          607 YNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFV  686 (766)
Q Consensus       607 ~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  686 (766)
                      -...++              ..+...|+.++++.++++.+.  ..||....+.|++.+...+.+++|.+.|..++.  +.
T Consensus       440 AV~~~A--------------EL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr--~d  501 (564)
T KOG1174|consen  440 AVNLIA--------------ELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR--QD  501 (564)
T ss_pred             HHHHHH--------------HHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cC
Confidence            333332              778889999999999999886  457888889999999999999999999999883  45


Q ss_pred             CCH
Q 004244          687 PHT  689 (766)
Q Consensus       687 p~~  689 (766)
                      |+.
T Consensus       502 P~~  504 (564)
T KOG1174|consen  502 PKS  504 (564)
T ss_pred             ccc
Confidence            654

>PF13041 PPR_2: PPR repeat family

Probab=99.27  E-value=1.1e-11  Score=87.12  Aligned_cols=50  Identities=48%  Similarity=0.922  Sum_probs=43.9

Q ss_pred             CCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHH
Q 004244          217 PNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCK  266 (766)
Q Consensus       217 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~  266 (766)
                      ||+.+||++|++|++.|++++|.++|++|.+.|+.||..||+++|++||+
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            78888888888888888888888888888888888888888888888875

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.26  E-value=3.2e-07  Score=99.27  Aligned_cols=453  Identities=13%  Similarity=0.055  Sum_probs=252.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCC-CCCCHHHHHH
Q 004244          146 SAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSR-VSPNVYTYNV  224 (766)
Q Consensus       146 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~  224 (766)
                      ...|..|...|...-+..+|.+.|+.+.+.+ .-+...+....+.+++..  .| +.|..+.-...+.. ...-...|-.
T Consensus       492 apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~--~w-e~a~~I~l~~~qka~a~~~k~nW~~  567 (1238)
T KOG1127|consen  492 APAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEES--TW-EEAFEICLRAAQKAPAFACKENWVQ  567 (1238)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccc--cH-HHHHHHHHHHhhhchHHHHHhhhhh
Confidence            4567777777777777888888888776543 224556667777777766  55 77777733332211 0111222333


Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHH--HHHHHHHc
Q 004244          225 LIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNV--IINGLCKE  302 (766)
Q Consensus       225 li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~--li~~~~~~  302 (766)
                      +.-.|.+.++...|+.-|+...... +.|...|..+..+|..+|++..|.++|.+...-  .|+. +|..  ..-..|..
T Consensus       568 rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s-~y~~fk~A~~ecd~  643 (1238)
T KOG1127|consen  568 RGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLS-KYGRFKEAVMECDN  643 (1238)
T ss_pred             ccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHh-HHHHHHHHHHHHHh
Confidence            4444667788888888888887765 457888999999999999999999999887664  3432 2222  23345678


Q ss_pred             CChhHHHHHHHHHHHC------CCCCCHHHHHHHHHHHHhcCChHHHHHHHHH-------HHHCCCCCChHHHHHHHHHH
Q 004244          303 GRLKETKGILNEISRK------GLVPDEVTYNTLLNGYCKEGNLHQALVLHAE-------MVRNGLSPNVVTYTSLINSM  369 (766)
Q Consensus       303 g~~~~a~~~~~~m~~~------g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~-------~~~~g~~~~~~~~~~li~~~  369 (766)
                      |++.+|+..+......      +..--..++..+...+...|-...|...+++       ........+...|..+.+++
T Consensus       644 GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac  723 (1238)
T KOG1127|consen  644 GKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDAC  723 (1238)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHH
Confidence            8888888888777642      1111122333333333333333333333332       22222112222222222111


Q ss_pred             Hh---cC-C-H-HHHHHH-HHHHHHCCC--------------------CCCHhHHHHHHHHHHh------c--CCHHHHH
Q 004244          370 CK---SG-N-L-NRAMEF-FDQMHVREL--------------------RPNEKTYTTLINGFSQ------H--GFLDEAY  414 (766)
Q Consensus       370 ~~---~g-~-~-~~A~~~-~~~m~~~~~--------------------~~~~~~~~~li~~~~~------~--g~~~~A~  414 (766)
                      .-   .. + + ..-..+ +.+....+.                    ..+..+|..++..|.+      .  .+...|.
T Consensus       724 ~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai  803 (1238)
T KOG1127|consen  724 YIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAI  803 (1238)
T ss_pred             HHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHH
Confidence            00   00 0 0 000000 111111111                    1123344444433332      1  1233566


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 004244          415 RLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKG  494 (766)
Q Consensus       415 ~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  494 (766)
                      ..+.+.++.. ..+..+|+.|.-. ...|++.-|..-|-.-.... +....+|..+...+.+..+++-|...|.......
T Consensus       804 ~c~KkaV~L~-ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLd  880 (1238)
T KOG1127|consen  804 RCCKKAVSLC-ANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLD  880 (1238)
T ss_pred             HHHHHHHHHh-hccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcC
Confidence            6676666542 3355666665443 55577777766665554442 2366778888888888999999999999887764


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHH--HHH--CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH----------H
Q 004244          495 VLPDTITYSSLIHGLCEQRRITEACELFQE--MLS--RGMSPDEFTYTTLINAYCTEGDIPQALRLHDE----------M  560 (766)
Q Consensus       495 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~--m~~--~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~----------~  560 (766)
                      +. |...|-.........|+.-++..+|..  ...  .|-.++..-|..........|+.++-+...+.          .
T Consensus       881 P~-nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~y  959 (1238)
T KOG1127|consen  881 PL-NLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYY  959 (1238)
T ss_pred             ch-hhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHH
Confidence            33 566666555556677888888888876  222  23234444444444444566665554443333          3


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCcHHhHHHHh
Q 004244          561 IQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYD-ESVPSDVIYNTLI  611 (766)
Q Consensus       561 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~-~~~p~~~~~~~ll  611 (766)
                      .. |.+.+...|.+......+.+.+.+|.++..+.+.- ....|...|+.+.
T Consensus       960 f~-~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak 1010 (1238)
T KOG1127|consen  960 FL-GHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAK 1010 (1238)
T ss_pred             Hh-cCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Confidence            32 45666778888888888888888888887775431 1223444555433

>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=5.1e-07  Score=96.30  Aligned_cols=290  Identities=16%  Similarity=0.184  Sum_probs=159.8

Q ss_pred             HHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHH-HHHHHHH----
Q 004244          227 RGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNV-IINGLCK----  301 (766)
Q Consensus       227 ~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~-li~~~~~----  301 (766)
                      ..+...|++++|++.++.-.+. +.............+.+.|+.++|..++..+..++  |+...|.. +..+..-    
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhccc
Confidence            3355667777777777664443 23334455566677777777777777777777664  44444433 3333311    


Q ss_pred             -cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh-HHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHH
Q 004244          302 -EGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNL-HQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAM  379 (766)
Q Consensus       302 -~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~  379 (766)
                       ....+...++++++...-  |.......+.-.+.....+ ..+...+..+...|++   .+|+.|-..|....+.+-..
T Consensus        89 ~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~  163 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIE  163 (517)
T ss_pred             ccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHH
Confidence             124556666676665532  3222222221111111122 2334445555566644   34555555555444444444


Q ss_pred             HHHHHHHHC----C----------CCCCHh--HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhc
Q 004244          380 EFFDQMHVR----E----------LRPNEK--TYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPS-IVTYNALIKGHCTG  442 (766)
Q Consensus       380 ~~~~~m~~~----~----------~~~~~~--~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~-~~~~~~ll~~~~~~  442 (766)
                      +++......    +          -+|...  ++.-+...|...|++++|++++++.+++.  |+ +..|..-.+.+-+.
T Consensus       164 ~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht--Pt~~ely~~KarilKh~  241 (517)
T PF12569_consen  164 SLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT--PTLVELYMTKARILKHA  241 (517)
T ss_pred             HHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHC
Confidence            444444322    0          123332  33445566667777777777777777763  33 45566666677777


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH--H----HH--HHHHHHHHhcCC
Q 004244          443 GRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDT--I----TY--SSLIHGLCEQRR  514 (766)
Q Consensus       443 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~----~~--~~li~~~~~~g~  514 (766)
                      |++.+|...++........ |...-+-.+..+.+.|++++|.+++......+..|-.  .    .|  .....+|.+.|+
T Consensus       242 G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~  320 (517)
T PF12569_consen  242 GDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGD  320 (517)
T ss_pred             CCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhh
Confidence            7777777777777765443 5566666666677777777777777666555432211  1    11  334556677777


Q ss_pred             HHHHHHHHHHHHH
Q 004244          515 ITEACELFQEMLS  527 (766)
Q Consensus       515 ~~~A~~~~~~m~~  527 (766)
                      +..|++.|....+
T Consensus       321 ~~~ALk~~~~v~k  333 (517)
T PF12569_consen  321 YGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHHHH
Confidence            7777766665554

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 [], [].

>PRK12370 invasion protein regulator; Provisional

Probab=99.25  E-value=5e-09  Score=115.74  Aligned_cols=215  Identities=11%  Similarity=-0.008  Sum_probs=131.0

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 004244          478 QELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLH  557 (766)
Q Consensus       478 g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  557 (766)
                      +++++|...+++..+.+.. +...+..+...+...|++++|...++++.+.+ +.+...+..+...+...|++++|...+
T Consensus       318 ~~~~~A~~~~~~Al~ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~  395 (553)
T PRK12370        318 NAMIKAKEHAIKATELDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTI  395 (553)
T ss_pred             hHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4467777777777766533 56666677777777777777777777777764 445566677777777778888888888


Q ss_pred             HHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHh-HHHHhhhhchhhhhhHHHHHhhhhhcCCH
Q 004244          558 DEMIQKGFLPD-VVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVI-YNTLIENCTNIEFQNVAALLKGFCMKGLM  635 (766)
Q Consensus       558 ~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~-~~~ll~~~~~~~~~~~~~l~~~~~~~g~~  635 (766)
                      ++..+.  .|+ ...+..++..+...|++++|...+++..... .|+... +..+.               ..+...|+.
T Consensus       396 ~~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la---------------~~l~~~G~~  457 (553)
T PRK12370        396 NECLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQV---------------MFLSLKGKH  457 (553)
T ss_pred             HHHHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHH---------------HHHHhCCCH
Confidence            777765  333 2222333444556777788888877776542 233332 33333               566677888


Q ss_pred             HHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 004244          636 NEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRS-GFVPHTVTIIVLVKALHTAGMNEELSQVIE  713 (766)
Q Consensus       636 ~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  713 (766)
                      ++|...++++...  .| +....+.+...|+..|  ++|...++++.+. ...+....+  +...+.-.|+.+.+..+ +
T Consensus       458 ~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~  530 (553)
T PRK12370        458 ELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-N  530 (553)
T ss_pred             HHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-H
Confidence            8888887776543  23 3344455555666666  4677766665532 112322223  33344456676666666 6


Q ss_pred             HHHHcC
Q 004244          714 NILRSC  719 (766)
Q Consensus       714 ~~~~~~  719 (766)
                      ++.+.+
T Consensus       531 ~~~~~~  536 (553)
T PRK12370        531 KFKNED  536 (553)
T ss_pred             Hhhccc
Confidence            665554

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.21  E-value=1.1e-08  Score=103.36  Aligned_cols=235  Identities=13%  Similarity=-0.003  Sum_probs=154.8

Q ss_pred             CCHHHHHHHHHHHHHCCC-CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 004244          478 QELDKAFDTKREMVEKGV-LP--DTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQAL  554 (766)
Q Consensus       478 g~~~~A~~~~~~m~~~~~-~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  554 (766)
                      +..+.++..+.+++.... .|  ....|..+...+...|+.++|...|++.++.. +.+...|+.+...+...|++++|.
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            455666666666665321 12  23456677777888888888888888888774 556778888888888888999998


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCC
Q 004244          555 RLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGL  634 (766)
Q Consensus       555 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~  634 (766)
                      ..|+..++.. +.+..+|..+...+...|++++|.+.|++....  .|+........               ..+...++
T Consensus       119 ~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~---------------~l~~~~~~  180 (296)
T PRK11189        119 EAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWL---------------YLAESKLD  180 (296)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHH---------------HHHHccCC
Confidence            8888888752 334567777788888889999999988888874  45433211111               22345678


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHc---CC--CC-CHHHHHHHHHHHHhcCChHHH
Q 004244          635 MNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRS---GF--VP-HTVTIIVLVKALHTAGMNEEL  708 (766)
Q Consensus       635 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~---~~--~p-~~~~~~~l~~~~~~~g~~~~A  708 (766)
                      .++|...|++.... ..|+...+   .......|+..++ +.++.+.+.   ..  .| ....|..++..+.+.|+.++|
T Consensus       181 ~~~A~~~l~~~~~~-~~~~~~~~---~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A  255 (296)
T PRK11189        181 PKQAKENLKQRYEK-LDKEQWGW---NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEA  255 (296)
T ss_pred             HHHHHHHHHHHHhh-CCccccHH---HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            89999988766543 22332222   2233345665544 344444421   11  12 235788889999999999999


Q ss_pred             HHHHHHHHHcCCCChHHHHHHHHHHHhc
Q 004244          709 SQVIENILRSCRLSDAELAKVLVEINHK  736 (766)
Q Consensus       709 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~  736 (766)
                      +.+|+++++.++++...+-..+++....
T Consensus       256 ~~~~~~Al~~~~~~~~e~~~~~~e~~~~  283 (296)
T PRK11189        256 AALFKLALANNVYNFVEHRYALLELALL  283 (296)
T ss_pred             HHHHHHHHHhCCchHHHHHHHHHHHHHH
Confidence            9999999998855555555555554443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.21  E-value=1.3e-06  Score=89.73  Aligned_cols=459  Identities=15%  Similarity=0.149  Sum_probs=248.7

Q ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHH--HH
Q 004244          185 NAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTL--ID  262 (766)
Q Consensus       185 ~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~l--i~  262 (766)
                      ..++.-+-+.+...-+++|.+....+...+ +.|...+..-+-++.+.+++++|+.+.+.-..      ..+++..  =.
T Consensus        13 ~~l~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~------~~~~~~~~fEK   85 (652)
T KOG2376|consen   13 EALLTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA------LLVINSFFFEK   85 (652)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch------hhhcchhhHHH
Confidence            345555555554444699999999998865 66788888888889999999999955443321      1122222  34


Q ss_pred             HHH--HcCChhHHHHHHHHHhhCCCCCC-HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcC
Q 004244          263 GYC--KLGRIDDAFKLLRDMGLKGIEPN-LISYNVIINGLCKEGRLKETKGILNEISRKGLVP-DEVTYNTLLNGYCKEG  338 (766)
Q Consensus       263 ~~~--~~g~~~~A~~l~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g  338 (766)
                      +||  +.+..++|+..++-     +.++ ..+...-...+.+.|++++|+++|+.+.+.+.+- +...-..++.+    +
T Consensus        86 AYc~Yrlnk~Dealk~~~~-----~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~----~  156 (652)
T KOG2376|consen   86 AYCEYRLNKLDEALKTLKG-----LDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAV----A  156 (652)
T ss_pred             HHHHHHcccHHHHHHHHhc-----ccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHH----H
Confidence            454  78999999999983     3333 3366666777889999999999999998875431 11111122211    1


Q ss_pred             ChHHHHHHHHHHHHCCCCCChHHHHH---HHHHHHhcCCHHHHHHHHHHHHHCC-------CCCCH-------hHHHHHH
Q 004244          339 NLHQALVLHAEMVRNGLSPNVVTYTS---LINSMCKSGNLNRAMEFFDQMHVRE-------LRPNE-------KTYTTLI  401 (766)
Q Consensus       339 ~~~~A~~~~~~~~~~g~~~~~~~~~~---li~~~~~~g~~~~A~~~~~~m~~~~-------~~~~~-------~~~~~li  401 (766)
                      ..-.+. +.+.   ....| ..+|..   ....+...|++.+|+++++...+.+       -.-+.       ..-..|.
T Consensus       157 a~l~~~-~~q~---v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQla  231 (652)
T KOG2376|consen  157 AALQVQ-LLQS---VPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLA  231 (652)
T ss_pred             HhhhHH-HHHh---ccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHH
Confidence            111111 1222   21222 223433   3445667899999999999883321       11111       1112334


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHH----HHHHHHHHHhcCCHHH--HHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004244          402 NGFSQHGFLDEAYRLLNEMTKNGFMPSIVT----YNALIKGHCTGGRVED--AVGVLHGMARKGLAPDVVSYSTIISGFS  475 (766)
Q Consensus       402 ~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~----~~~ll~~~~~~g~~~~--A~~~~~~~~~~~~~~~~~~~~~li~~~~  475 (766)
                      -.+...|+.++|..++....+... +|...    -|.++. .....++-+  ++..++.....                 
T Consensus       232 yVlQ~~Gqt~ea~~iy~~~i~~~~-~D~~~~Av~~NNLva-~~~d~~~~d~~~l~~k~~~~~~-----------------  292 (652)
T KOG2376|consen  232 YVLQLQGQTAEASSIYVDIIKRNP-ADEPSLAVAVNNLVA-LSKDQNYFDGDLLKSKKSQVFK-----------------  292 (652)
T ss_pred             HHHHHhcchHHHHHHHHHHHHhcC-CCchHHHHHhcchhh-hccccccCchHHHHHHHHHHHH-----------------
Confidence            455667777788877777777653 23321    122221 111111111  11111111100                 


Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH--HhcCChHHH
Q 004244          476 RSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAY--CTEGDIPQA  553 (766)
Q Consensus       476 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~--~~~g~~~~A  553 (766)
                         ..+.+...+..-...    ....-+.++..|  .+..+.+.++....-.  ..|... +..++..+  ++......|
T Consensus       293 ---l~~~~l~~Ls~~qk~----~i~~N~~lL~l~--tnk~~q~r~~~a~lp~--~~p~~~-~~~ll~~~t~~~~~~~~ka  360 (652)
T KOG2376|consen  293 ---LAEFLLSKLSKKQKQ----AIYRNNALLALF--TNKMDQVRELSASLPG--MSPESL-FPILLQEATKVREKKHKKA  360 (652)
T ss_pred             ---hHHHHHHHHHHHHHH----HHHHHHHHHHHH--hhhHHHHHHHHHhCCc--cCchHH-HHHHHHHHHHHHHHHHhhh
Confidence               001111111110000    111111222222  3344455444443321  133333 33333332  222346777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--------HHHhCCCCCcHHhHHHHhhhhchhhhhhHHHH
Q 004244          554 LRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLL--------KLFYDESVPSDVIYNTLIENCTNIEFQNVAAL  625 (766)
Q Consensus       554 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~--------~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l  625 (766)
                      .+++...-+..-.-..+..-..+......|+++.|++++.        ...+.+..|-.+.+..                
T Consensus       361 ~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V~aiv----------------  424 (652)
T KOG2376|consen  361 IELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTVGAIV----------------  424 (652)
T ss_pred             HHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHHHHHH----------------
Confidence            7777776654211123455556666788899999999888        4444444454443322                


Q ss_pred             HhhhhhcCCHHHHHHHHHHHHhC--CCCCCHH----HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 004244          626 LKGFCMKGLMNEADRVFELMLQR--NHMPNEA----VYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKAL  699 (766)
Q Consensus       626 ~~~~~~~g~~~~A~~~~~~~~~~--~~~p~~~----~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~  699 (766)
                       ..+.+.++-+.|..++.+.+..  .-.+...    ++.-++..-.+.|+-++|..+++++.+.. ++|..+...++.+|
T Consensus       425 -~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~  502 (652)
T KOG2376|consen  425 -ALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVTAY  502 (652)
T ss_pred             -HHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHHHH
Confidence             5567777777777777766531  0112222    23333444457799999999999999643 57778888888887


Q ss_pred             HhcCChHHHHHHHHH
Q 004244          700 HTAGMNEELSQVIEN  714 (766)
Q Consensus       700 ~~~g~~~~A~~~~~~  714 (766)
                      +.. +.+.|..+-.+
T Consensus       503 ~~~-d~eka~~l~k~  516 (652)
T KOG2376|consen  503 ARL-DPEKAESLSKK  516 (652)
T ss_pred             Hhc-CHHHHHHHhhc
Confidence            764 46666665444

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.18  E-value=1.8e-08  Score=105.89  Aligned_cols=198  Identities=21%  Similarity=0.158  Sum_probs=126.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC-----CC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CC-CCCH-H
Q 004244          400 LINGFSQHGFLDEAYRLLNEMTKN-----GF--MPSIVTYNALIKGHCTGGRVEDAVGVLHGMARK-----GL-APDV-V  465 (766)
Q Consensus       400 li~~~~~~g~~~~A~~l~~~m~~~-----g~--~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~-----~~-~~~~-~  465 (766)
                      +...|...+++++|..+|+++...     |-  +.-..+++.|...|++.|++++|...++...+.     +. .|.+ .
T Consensus       247 ~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~  326 (508)
T KOG1840|consen  247 LALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAA  326 (508)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHH
Confidence            444555556666666666555431     11  111234555555566666666666555554331     11 1122 2


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----C--CC
Q 004244          466 SYSTIISGFSRSQELDKAFDTKREMVEK---GVLPD----TITYSSLIHGLCEQRRITEACELFQEMLSR-----G--MS  531 (766)
Q Consensus       466 ~~~~li~~~~~~g~~~~A~~~~~~m~~~---~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~--~~  531 (766)
                      .++.++..++..+++++|..+++...+.   -+.++    ..+++.|...|...|++++|.+++++.+..     |  ..
T Consensus       327 ~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~  406 (508)
T KOG1840|consen  327 QLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDY  406 (508)
T ss_pred             HHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcCh
Confidence            3455566677777777777777655432   11112    356888899999999999999999988753     1  11


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC----C--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 004244          532 PDEFTYTTLINAYCTEGDIPQALRLHDEMIQK----G--FLPDVVTYSVLINGLNKQARTMEAKKLLLKLFY  597 (766)
Q Consensus       532 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g--~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~  597 (766)
                      -....++.+...|.+.++.++|.++|.+...-    |  .+....+|..|...|...|++++|.++.+....
T Consensus       407 ~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  407 GVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             hhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            22446788888999999999999988876532    2  222346889999999999999999999888763

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.16  E-value=3.6e-09  Score=99.82  Aligned_cols=235  Identities=11%  Similarity=0.021  Sum_probs=147.0

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004244          464 VVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINA  543 (766)
Q Consensus       464 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~  543 (766)
                      -.--+.+..+|.+.|.+.+|.+.++...+.  .|-+.||..|-.+|.+..+++.|+.++.+-++. ++.|+.......+.
T Consensus       223 wwWk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi  299 (478)
T KOG1129|consen  223 WWWKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARI  299 (478)
T ss_pred             HHHHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHH
Confidence            333455666777777777777777766655  344556666667777777777777777776655 23344444455566


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHH
Q 004244          544 YCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVA  623 (766)
Q Consensus       544 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~  623 (766)
                      +...++.++|.++++...+. .+.++....++..+|.-.++.+-|++.+++++..|..... .|+.+.            
T Consensus       300 ~eam~~~~~a~~lYk~vlk~-~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~spe-Lf~Nig------------  365 (478)
T KOG1129|consen  300 HEAMEQQEDALQLYKLVLKL-HPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPE-LFCNIG------------  365 (478)
T ss_pred             HHHHHhHHHHHHHHHHHHhc-CCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChH-HHhhHH------------
Confidence            66667777777777777665 2445556666666666677777777777777776654333 333333            


Q ss_pred             HHHhhhhhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004244          624 ALLKGFCMKGLMNEADRVFELMLQRNHMP--NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHT  701 (766)
Q Consensus       624 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~  701 (766)
                         -+|.-.+.+|-++..|++.......|  -..+|..+.......|++.-|...|+-.+..+ ..+.+.++.|.-.-.+
T Consensus       366 ---LCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r  441 (478)
T KOG1129|consen  366 ---LCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAAR  441 (478)
T ss_pred             ---HHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhh
Confidence               34555667777777777666543333  24456666666667777777777777666432 2334667766666667


Q ss_pred             cCChHHHHHHHHHHHHcC
Q 004244          702 AGMNEELSQVIENILRSC  719 (766)
Q Consensus       702 ~g~~~~A~~~~~~~~~~~  719 (766)
                      .|++++|..+++.+....
T Consensus       442 ~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  442 SGDILGARSLLNAAKSVM  459 (478)
T ss_pred             cCchHHHHHHHHHhhhhC
Confidence            777777777777766665

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.12  E-value=4.4e-06  Score=87.46  Aligned_cols=171  Identities=13%  Similarity=0.089  Sum_probs=88.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHH-------HCCCC-CCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHH
Q 004244          153 VKSYSHLNMIDKAVNIVNLAK-------VHGFM-PGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNV  224 (766)
Q Consensus       153 ~~~~~~~g~~~~A~~~~~~~~-------~~g~~-~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  224 (766)
                      -++|+..|++.+|..+.+...       +.|.. .+.+-..+++..+-+.     +.+|..+|-+--         .-..
T Consensus       497 ercfaai~dvak~r~lhd~~eiadeas~~~ggdgt~fykvra~lail~kk-----fk~ae~ifleqn---------~te~  562 (1636)
T KOG3616|consen  497 ERCFAAIGDVAKARFLHDILEIADEASIEIGGDGTDFYKVRAMLAILEKK-----FKEAEMIFLEQN---------ATEE  562 (1636)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhhCCCCchHHHHHHHHHHHHhh-----hhHHHHHHHhcc---------cHHH
Confidence            366666777777666554321       11221 2222333444444331     367777764421         1123


Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCC
Q 004244          225 LIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGR  304 (766)
Q Consensus       225 li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~  304 (766)
                      -|..|....++++|+.+-+.   .|.+.-...-.+.+.++...|+-++|-++-+.        +..+ .+.|+.|.+.|.
T Consensus       563 aigmy~~lhkwde~i~lae~---~~~p~~eklk~sy~q~l~dt~qd~ka~elk~s--------dgd~-laaiqlyika~~  630 (1636)
T KOG3616|consen  563 AIGMYQELHKWDEAIALAEA---KGHPALEKLKRSYLQALMDTGQDEKAAELKES--------DGDG-LAAIQLYIKAGK  630 (1636)
T ss_pred             HHHHHHHHHhHHHHHHHHHh---cCChHHHHHHHHHHHHHHhcCchhhhhhhccc--------cCcc-HHHHHHHHHcCC
Confidence            45666667777777665432   33333333445566666777777777654321        1112 234677888888


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 004244          305 LKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMV  351 (766)
Q Consensus       305 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  351 (766)
                      +..|......=..  +..|......+..++.+..-+++|-.+|+++.
T Consensus       631 p~~a~~~a~n~~~--l~~de~il~~ia~alik~elydkagdlfeki~  675 (1636)
T KOG3616|consen  631 PAKAARAALNDEE--LLADEEILEHIAAALIKGELYDKAGDLFEKIH  675 (1636)
T ss_pred             chHHHHhhcCHHH--hhccHHHHHHHHHHHHhhHHHHhhhhHHHHhh
Confidence            8777665432211  22355555555555555555555555555543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.12  E-value=3.5e-06  Score=88.13  Aligned_cols=266  Identities=16%  Similarity=0.178  Sum_probs=168.4

Q ss_pred             HHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCh
Q 004244          226 IRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRL  305 (766)
Q Consensus       226 i~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~  305 (766)
                      |.+-.....+.+|+.+++.+....  .-..-|..+.+.|...|+++.|.++|-+..         .++..|..|.+.|++
T Consensus       739 ieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccH
Confidence            344456678888888888887653  233457777889999999999999987542         366778899999999


Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004244          306 KETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQM  385 (766)
Q Consensus       306 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  385 (766)
                      +.|.++-++..  |.+.....|.+-..-+-+.|++.+|.++|-.+-    .|+     .-|.+|-+.|..+..+++.++-
T Consensus       808 ~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k~  876 (1636)
T KOG3616|consen  808 EDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEKH  876 (1636)
T ss_pred             HHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHHh
Confidence            99998877654  344455667666677788899999988875432    233     2467888888888888877664


Q ss_pred             HHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH----------
Q 004244          386 HVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGM----------  455 (766)
Q Consensus       386 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~----------  455 (766)
                      ...   .-..|...+..-+-..|++.+|..-|-+..+         |.+-+++|-..+-+++|.++-+.-          
T Consensus       877 h~d---~l~dt~~~f~~e~e~~g~lkaae~~flea~d---------~kaavnmyk~s~lw~dayriaktegg~n~~k~v~  944 (1636)
T KOG3616|consen  877 HGD---HLHDTHKHFAKELEAEGDLKAAEEHFLEAGD---------FKAAVNMYKASELWEDAYRIAKTEGGANAEKHVA  944 (1636)
T ss_pred             Chh---hhhHHHHHHHHHHHhccChhHHHHHHHhhhh---------HHHHHHHhhhhhhHHHHHHHHhccccccHHHHHH
Confidence            322   1234556677778888888888877755432         445556666666666666554321          


Q ss_pred             ----HHCCCCCCHHH------HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004244          456 ----ARKGLAPDVVS------YSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEM  525 (766)
Q Consensus       456 ----~~~~~~~~~~~------~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  525 (766)
                          ...|-..-+..      ...-++.-+..+.++-|+++-+-..+.. .|.+.  ..+..-+-..|++++|-+.|-+.
T Consensus       945 flwaksiggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~k~k-~~~vh--lk~a~~ledegk~edaskhyvea 1021 (1636)
T KOG3616|consen  945 FLWAKSIGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAKDK-MGEVH--LKLAMFLEDEGKFEDASKHYVEA 1021 (1636)
T ss_pred             HHHHHhhCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhhcc-Cccch--hHHhhhhhhccchhhhhHhhHHH
Confidence                11111100111      1122333455555666666555443321 22222  22333456778888888887777


Q ss_pred             HHC
Q 004244          526 LSR  528 (766)
Q Consensus       526 ~~~  528 (766)
                      ++.
T Consensus      1022 ikl 1024 (1636)
T KOG3616|consen 1022 IKL 1024 (1636)
T ss_pred             hhc
Confidence            664

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.11  E-value=4.6e-07  Score=92.13  Aligned_cols=447  Identities=16%  Similarity=0.114  Sum_probs=246.8

Q ss_pred             HHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCC-HHHHHHHHHHHHHcCC
Q 004244          226 IRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPN-LISYNVIINGLCKEGR  304 (766)
Q Consensus       226 i~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~~~~~li~~~~~~g~  304 (766)
                      .++.+..|+++.|+..|-+.+... ++|.+.|..-..+|.+.|++++|++--.+-.+.  .|+ ...|.....++.-.|+
T Consensus         9 gnaa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~   85 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGD   85 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhccc
Confidence            456677788888888888887765 457888888888888888888887766655443  455 4567777777777788


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCC-HHHHHHHHH
Q 004244          305 LKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGN-LNRAMEFFD  383 (766)
Q Consensus       305 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~-~~~A~~~~~  383 (766)
                      +++|+.-|.+-.+... -|...++-+..++    ..+.+.     +..   --++..|..+..--...+- .+.+....-
T Consensus        86 ~~eA~~ay~~GL~~d~-~n~~L~~gl~~a~----~~~~~~-----~~~---~~~p~~~~~l~~~p~t~~~~~~~~~~~~l  152 (539)
T KOG0548|consen   86 YEEAILAYSEGLEKDP-SNKQLKTGLAQAY----LEDYAA-----DQL---FTKPYFHEKLANLPLTNYSLSDPAYVKIL  152 (539)
T ss_pred             HHHHHHHHHHHhhcCC-chHHHHHhHHHhh----hHHHHh-----hhh---ccCcHHHHHhhcChhhhhhhccHHHHHHH
Confidence            8888888877766431 1344455555544    111111     111   1122223222211111111 011111111


Q ss_pred             HHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHH-----HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-
Q 004244          384 QMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLN-----EMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMAR-  457 (766)
Q Consensus       384 ~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~-----~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~-  457 (766)
                      +....+  |.  .    +..|.....+..+...+.     .+...|..+....-+    -+.+..+   ......++.+ 
T Consensus       153 ~~~~~~--p~--~----l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~----p~~~~~~---~~~~~~d~~ee  217 (539)
T KOG0548|consen  153 EIIQKN--PT--S----LKLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAE----PCKQEHN---GFPIIEDNTEE  217 (539)
T ss_pred             HHhhcC--cH--h----hhcccccHHHHHHHHHHhcCccccccccccccCCCCCC----cccccCC---CCCccchhHHH
Confidence            111111  11  1    011111111111111111     011111110000000    0000000   0000000000 


Q ss_pred             CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 004244          458 KGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTY  537 (766)
Q Consensus       458 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  537 (766)
                      .....-..-...+.....+..+++.|++.+....+..  -+..-++....+|...|.+.++........+.|- ....-|
T Consensus       218 ~~~k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gr-e~rad~  294 (539)
T KOG0548|consen  218 RRVKEKAHKEKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGR-ELRADY  294 (539)
T ss_pred             HHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhH-HHHHHH
Confidence            0000012234556677777888888888888877765  3555566677788888888888887777776652 222223


Q ss_pred             HH-------HHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHH
Q 004244          538 TT-------LINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTL  610 (766)
Q Consensus       538 ~~-------l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~l  610 (766)
                      +.       +..+|.+.++++.|+..+.+.+..--.|+.         +.+....+++.+..+....  +.|+...-   
T Consensus       295 klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~---------ls~lk~~Ek~~k~~e~~a~--~~pe~A~e---  360 (539)
T KOG0548|consen  295 KLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDL---------LSKLKEAEKALKEAERKAY--INPEKAEE---  360 (539)
T ss_pred             HHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHH---------HHHHHHHHHHHHHHHHHHh--hChhHHHH---
Confidence            22       334566677888888888876654223322         2233444555555444433  33333111   


Q ss_pred             hhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-
Q 004244          611 IENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-  689 (766)
Q Consensus       611 l~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-  689 (766)
                      ...++           ..+.+.|++..|+..|.+++... +.|...|..-.-+|.+.|.+.+|+.-.+..++.  .|+. 
T Consensus       361 ~r~kG-----------ne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~~  426 (539)
T KOG0548|consen  361 EREKG-----------NEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNFI  426 (539)
T ss_pred             HHHHH-----------HHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchHH
Confidence            11111           67889999999999999999864 227888999999999999999999988888855  4544 


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHh
Q 004244          690 VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINH  735 (766)
Q Consensus       690 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  735 (766)
                      ..|..-+.++....++++|...|++.++.+ |.+......+.+++.
T Consensus       427 kgy~RKg~al~~mk~ydkAleay~eale~d-p~~~e~~~~~~rc~~  471 (539)
T KOG0548|consen  427 KAYLRKGAALRAMKEYDKALEAYQEALELD-PSNAEAIDGYRRCVE  471 (539)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHH
Confidence            667777778888899999999999999998 555555444455544

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.10  E-value=1.5e-05  Score=84.68  Aligned_cols=90  Identities=18%  Similarity=0.214  Sum_probs=44.0

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-CCCCCCH----HH
Q 004244          462 PDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLS-RGMSPDE----FT  536 (766)
Q Consensus       462 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~~~~p~~----~~  536 (766)
                      .|+...+.-.+.++...++++|..++-...+         |...+. +|+..++.--.++-+.|-- .+-.|+.    ..
T Consensus      1078 sDp~ll~RcadFF~~~~qyekAV~lL~~ar~---------~~~Alq-lC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~v 1147 (1416)
T KOG3617|consen 1078 SDPKLLRRCADFFENNQQYEKAVNLLCLARE---------FSGALQ-LCKNRNVRVTEEFAELMTPTKDDMPNEQERKQV 1147 (1416)
T ss_pred             CCHHHHHHHHHHHHhHHHHHHHHHHHHHHHH---------HHHHHH-HHhcCCCchhHHHHHhcCcCcCCCccHHHHHHH
Confidence            3555555566666666666666665544332         122222 2333333333333333321 1112332    24


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHH
Q 004244          537 YTTLINAYCTEGDIPQALRLHDEMI  561 (766)
Q Consensus       537 ~~~l~~~~~~~g~~~~A~~~~~~~~  561 (766)
                      ...+...|.++|.+..|-+-|-+.-
T Consensus      1148 Leqvae~c~qQG~Yh~AtKKfTQAG 1172 (1416)
T KOG3617|consen 1148 LEQVAELCLQQGAYHAATKKFTQAG 1172 (1416)
T ss_pred             HHHHHHHHHhccchHHHHHHHhhhh
Confidence            4556667777787777776665543

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.08  E-value=4.1e-06  Score=91.01  Aligned_cols=385  Identities=11%  Similarity=0.041  Sum_probs=182.8

Q ss_pred             hHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCH--HHHHHH
Q 004244          183 SYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANV--VTYNTL  260 (766)
Q Consensus       183 ~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~--~~~~~l  260 (766)
                      .|..|...|....  ++ ..|.+.|+...+.. ..|...+....+.|.+..+++.|..+.-...+.. +.-.  ..|--+
T Consensus       494 af~~LG~iYrd~~--Dm-~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka-~a~~~k~nW~~r  568 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSD--DM-KRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKA-PAFACKENWVQR  568 (1238)
T ss_pred             HHHHHHHHHHHHH--HH-HHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhc-hHHHHHhhhhhc
Confidence            3444444444333  22 55666666655542 3445555566666666666666666532222211 0011  112222


Q ss_pred             HHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHH--HHHHHHhcC
Q 004244          261 IDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNT--LLNGYCKEG  338 (766)
Q Consensus       261 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~--li~~~~~~g  338 (766)
                      .-.|.+.++...|..-|+......+ .|...|..+..+|...|++..|.++|.+...  +.|+. +|..  ..-.-|..|
T Consensus       569 G~yyLea~n~h~aV~~fQsALR~dP-kD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP~s-~y~~fk~A~~ecd~G  644 (1238)
T KOG1127|consen  569 GPYYLEAHNLHGAVCEFQSALRTDP-KDYNLWLGLGEAYPESGRYSHALKVFTKASL--LRPLS-KYGRFKEAVMECDNG  644 (1238)
T ss_pred             cccccCccchhhHHHHHHHHhcCCc-hhHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCcHh-HHHHHHHHHHHHHhh
Confidence            2334455566666666666554432 2555666666666666666666666666555  23332 1211  112245566


Q ss_pred             ChHHHHHHHHHHHHC------CCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHH-------CCCCCCHhHHHHHHHHHH
Q 004244          339 NLHQALVLHAEMVRN------GLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHV-------RELRPNEKTYTTLINGFS  405 (766)
Q Consensus       339 ~~~~A~~~~~~~~~~------g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-------~~~~~~~~~~~~li~~~~  405 (766)
                      ++.+|...+..+...      +...-..++..+...+...|-..+|.+++++-++       .....+...|-.+.+   
T Consensus       645 kYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asd---  721 (1238)
T KOG1127|consen  645 KYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASD---  721 (1238)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhH---
Confidence            666666666555432      0001112222222222223333333333333222       111112222221111   


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH---H---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHc---
Q 004244          406 QHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRV---E---DAVGVLHGMARKGLAPDVVSYSTIISGFSR---  476 (766)
Q Consensus       406 ~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~---~---~A~~~~~~~~~~~~~~~~~~~~~li~~~~~---  476 (766)
                             |..+|-... .. .|+......+..-.-+.+..   +   -+.+.+-.-.+  ...+..+|..++..|.+   
T Consensus       722 -------ac~~f~q~e-~~-~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l~~~~~~WyNLGinylr~f~  790 (1238)
T KOG1127|consen  722 -------ACYIFSQEE-PS-IVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--LAIHMYPWYNLGINYLRYFL  790 (1238)
T ss_pred             -------HHHHHHHhc-cc-chHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--HhhccchHHHHhHHHHHHHH
Confidence                   111121111 00 11111111111111122211   1   01111111111  11234445445444433   


Q ss_pred             -----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChH
Q 004244          477 -----SQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIP  551 (766)
Q Consensus       477 -----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  551 (766)
                           ..+...|+..+++.++.. .-+..+|+.|.-. ...|++.-|...|-.-.... +-+..+|..+.-.+.+..+++
T Consensus       791 ~l~et~~~~~~Ai~c~KkaV~L~-ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E  867 (1238)
T KOG1127|consen  791 LLGETMKDACTAIRCCKKAVSLC-ANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFE  867 (1238)
T ss_pred             HcCCcchhHHHHHHHHHHHHHHh-hccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHH
Confidence                 123346777777776652 2266677766544 66677777777776655543 455667777777788888899


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004244          552 QALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLK  594 (766)
Q Consensus       552 ~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~  594 (766)
                      .|...|...... .+.+...|....-.....|+.-++..+|..
T Consensus       868 ~A~~af~~~qSL-dP~nl~~WlG~Ali~eavG~ii~~~~lfaH  909 (1238)
T KOG1127|consen  868 HAEPAFSSVQSL-DPLNLVQWLGEALIPEAVGRIIERLILFAH  909 (1238)
T ss_pred             HhhHHHHhhhhc-CchhhHHHHHHHHhHHHHHHHHHHHHHHHh
Confidence            999888888765 244556665555555677888888888876

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.07  E-value=2.2e-06  Score=90.86  Aligned_cols=329  Identities=16%  Similarity=0.197  Sum_probs=208.5

Q ss_pred             CCCHHHHHHHHHH--HHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhC-C--------
Q 004244          216 SPNVYTYNVLIRG--FCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLK-G--------  284 (766)
Q Consensus       216 ~~~~~~~~~li~~--~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-g--------  284 (766)
                      ..|..|-..+++.  |...|+.+.|.+-.+-+..      ...|..+..+|.+..+.|-|.--+-.|... |        
T Consensus       723 ~Cd~~TRkaml~FSfyvtiG~MD~AfksI~~IkS------~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~  796 (1416)
T KOG3617|consen  723 NCDESTRKAMLDFSFYVTIGSMDAAFKSIQFIKS------DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQ  796 (1416)
T ss_pred             ccCHHHHHhhhceeEEEEeccHHHHHHHHHHHhh------hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHH
Confidence            4577888888753  6678999999887776653      467889999999888887776665555321 0        


Q ss_pred             CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHH
Q 004244          285 IEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTS  364 (766)
Q Consensus       285 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~  364 (766)
                      -.|+ .+=.-..-.....|.+++|..+|.+-++         |..|-..|-..|.+++|.++-+.=-+..   =..||..
T Consensus       797 q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~  863 (1416)
T KOG3617|consen  797 QNGE-EDEAKVAVLAIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYN  863 (1416)
T ss_pred             hCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHH
Confidence            1122 1111122223467889999999988876         4455567778899999998866432221   2345666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHH----------HHCCC---------CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004244          365 LINSMCKSGNLNRAMEFFDQM----------HVREL---------RPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGF  425 (766)
Q Consensus       365 li~~~~~~g~~~~A~~~~~~m----------~~~~~---------~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  425 (766)
                      ...-+-..++.+.|++.|++.          ....+         ..|...|.-...-+-..|+.|.|+.+|.....   
T Consensus       864 yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---  940 (1416)
T KOG3617|consen  864 YAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---  940 (1416)
T ss_pred             HHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---
Confidence            666666778888888877653          22110         12334444455555667888888888876654   


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004244          426 MPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSL  505 (766)
Q Consensus       426 ~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  505 (766)
                            |-++++..|-.|+.++|-++-++-      -|......+...|-..|++.+|..+|.+...         +...
T Consensus       941 ------~fs~VrI~C~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnA  999 (1416)
T KOG3617|consen  941 ------YFSMVRIKCIQGKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNA  999 (1416)
T ss_pred             ------hhhheeeEeeccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHH
Confidence                  556777888889999998876542      2566667788899999999999998877643         2222


Q ss_pred             HHHHHhcC----------------CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH--------HHH
Q 004244          506 IHGLCEQR----------------RITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHD--------EMI  561 (766)
Q Consensus       506 i~~~~~~g----------------~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~--------~~~  561 (766)
                      |+. |+.+                +.-.|-++|++.   |.     -....+..|-+.|.+.+|+++--        +++
T Consensus      1000 IRl-cKEnd~~d~L~nlal~s~~~d~v~aArYyEe~---g~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lI 1070 (1416)
T KOG3617|consen 1000 IRL-CKENDMKDRLANLALMSGGSDLVSAARYYEEL---GG-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLI 1070 (1416)
T ss_pred             HHH-HHhcCHHHHHHHHHhhcCchhHHHHHHHHHHc---ch-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHH
Confidence            222 2222                233333444432   11     12234456777787777776532        122


Q ss_pred             HCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004244          562 QKG--FLPDVVTYSVLINGLNKQARTMEAKKLLLKLF  596 (766)
Q Consensus       562 ~~g--~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~  596 (766)
                      ...  -..|+...+...+.++...++++|..++-...
T Consensus      1071 a~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar 1107 (1416)
T KOG3617|consen 1071 AKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLAR 1107 (1416)
T ss_pred             HHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            222  23466777777788888888888887765543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.06  E-value=4.9e-07  Score=91.91  Aligned_cols=426  Identities=15%  Similarity=0.098  Sum_probs=254.3

Q ss_pred             HHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCh
Q 004244          262 DGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDE-VTYNTLLNGYCKEGNL  340 (766)
Q Consensus       262 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~  340 (766)
                      ++.+..|+++.|...|.+...... +|-+.|..-..+|.+.|++++|++=-.+-++  +.|+. -.|+....++.-.|++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p-~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSP-TNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCC-CccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccH
Confidence            455677888888888887766543 3777788888888888888888776666555  45664 3677777777788888


Q ss_pred             HHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcC-CHHHHHHHHHH
Q 004244          341 HQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHG-FLDEAYRLLNE  419 (766)
Q Consensus       341 ~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~l~~~  419 (766)
                      ++|+.-|.+-++.. +.|...++.+..++    ..+.+.     +..   .-+...|..+..-=...+ ..+.+....-+
T Consensus        87 ~eA~~ay~~GL~~d-~~n~~L~~gl~~a~----~~~~~~-----~~~---~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~  153 (539)
T KOG0548|consen   87 EEAILAYSEGLEKD-PSNKQLKTGLAQAY----LEDYAA-----DQL---FTKPYFHEKLANLPLTNYSLSDPAYVKILE  153 (539)
T ss_pred             HHHHHHHHHHhhcC-CchHHHHHhHHHhh----hHHHHh-----hhh---ccCcHHHHHhhcChhhhhhhccHHHHHHHH
Confidence            88888888777653 23566666666665    111111     111   012222222111000000 01112211111


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----HCC-------CCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 004244          420 MTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMA-----RKG-------LAPDVVSYSTIISGFSRSQELDKAFDTK  487 (766)
Q Consensus       420 m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~-----~~~-------~~~~~~~~~~li~~~~~~g~~~~A~~~~  487 (766)
                      ....+  |..      +..|....++..+...+....     ..+       ..|.    ......+-..++..+-.+  
T Consensus       154 ~~~~~--p~~------l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~----~~~~~~~~~~~d~~ee~~--  219 (539)
T KOG0548|consen  154 IIQKN--PTS------LKLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPC----KQEHNGFPIIEDNTEERR--  219 (539)
T ss_pred             HhhcC--cHh------hhcccccHHHHHHHHHHhcCccccccccccccCCCCCCcc----cccCCCCCccchhHHHHH--
Confidence            11111  111      112222111222222111110     000       1111    000000000000000000  


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC
Q 004244          488 REMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLP  567 (766)
Q Consensus       488 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p  567 (766)
                             ..--..-...+.++..+..+++.|.+-+....+..  .+..-++....+|...|.+.++...-+..++.|...
T Consensus       220 -------~k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~  290 (539)
T KOG0548|consen  220 -------VKEKAHKEKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGREL  290 (539)
T ss_pred             -------HHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHH
Confidence                   00012335567888888999999999999988774  455556777778899998888888877777664311


Q ss_pred             --C----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHH
Q 004244          568 --D----VVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRV  641 (766)
Q Consensus       568 --~----~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  641 (766)
                        +    ...+..+..+|.+.++++.|+..|.+.+.....|+.                        ..+....+++.+.
T Consensus       291 rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~------------------------ls~lk~~Ek~~k~  346 (539)
T KOG0548|consen  291 RADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDL------------------------LSKLKEAEKALKE  346 (539)
T ss_pred             HHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHH------------------------HHHHHHHHHHHHH
Confidence              0    112222344667788999999999997765444432                        2233445666666


Q ss_pred             HHHHHhCCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 004244          642 FELMLQRNHMPNE-AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCR  720 (766)
Q Consensus       642 ~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  720 (766)
                      .+...-  +.|.. .---.-+..+.+.|++.+|+..|.++++.. +-|...|..-+.+|.+.|.+..|+.-.++.++.+ 
T Consensus       347 ~e~~a~--~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-  422 (539)
T KOG0548|consen  347 AERKAY--INPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD-  422 (539)
T ss_pred             HHHHHh--hChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-
Confidence            555443  23432 112233777889999999999999999764 4455788889999999999999999999999998 


Q ss_pred             CChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          721 LSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       721 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      |+....|..-+.++....+|++|.+.|++..+.+
T Consensus       423 p~~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  423 PNFIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            6778888888889988999999999999877766

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.04  E-value=2e-07  Score=94.17  Aligned_cols=226  Identities=13%  Similarity=0.001  Sum_probs=148.4

Q ss_pred             CCHHHHHHHHHHHHHCCC-CC--CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 004244          443 GRVEDAVGVLHGMARKGL-AP--DVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEAC  519 (766)
Q Consensus       443 g~~~~A~~~~~~~~~~~~-~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~  519 (766)
                      +..+.++.-+.+++.... .|  ....|..+...|.+.|+.++|...|++..+.... +...|+.+...+...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHHH
Confidence            455666666666665321 11  2355777777888888888888888888876543 6778888888888889999998


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 004244          520 ELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDE  599 (766)
Q Consensus       520 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~  599 (766)
                      ..|++.++.. +.+..++..+...+...|++++|.+.++...+.  .|+..............++.++|.+.|.+.... 
T Consensus       119 ~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~-  194 (296)
T PRK11189        119 EAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEK-  194 (296)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh-
Confidence            8888888764 445667777888888889999999998888875  343321111122234567888999888776543 


Q ss_pred             CCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhC---C--CCC-CHHHHHHHHHHHhccCChHHH
Q 004244          600 SVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQR---N--HMP-NEAVYDIIIHGHSKVGNVQKA  673 (766)
Q Consensus       600 ~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~--~~p-~~~~~~~l~~~~~~~g~~~~A  673 (766)
                      ..|+...+ .+                 .....|+..++ ..++.+.+.   .  +.| ...+|..++..+.+.|++++|
T Consensus       195 ~~~~~~~~-~~-----------------~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A  255 (296)
T PRK11189        195 LDKEQWGW-NI-----------------VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEA  255 (296)
T ss_pred             CCccccHH-HH-----------------HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            23332221 11                 22234554443 234444321   1  112 346788999999999999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHH
Q 004244          674 YDLYKKMVRSGFVPHTVTII  693 (766)
Q Consensus       674 ~~~~~~m~~~~~~p~~~~~~  693 (766)
                      +..|+++++.+ +||.+-+.
T Consensus       256 ~~~~~~Al~~~-~~~~~e~~  274 (296)
T PRK11189        256 AALFKLALANN-VYNFVEHR  274 (296)
T ss_pred             HHHHHHHHHhC-CchHHHHH
Confidence            99999998653 34654444

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.99  E-value=5.3e-07  Score=81.80  Aligned_cols=199  Identities=12%  Similarity=0.017  Sum_probs=134.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004244          361 TYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHC  440 (766)
Q Consensus       361 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~  440 (766)
                      +...|.-+|...|+...|.+-+++.++... .+..+|..+...|.+.|+.+.|.+.|++..+.. +.+..+.|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DP-s~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDP-SYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            344566667777777777777777776632 256667777777777777777777777777653 334556666677777


Q ss_pred             hcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 004244          441 TGGRVEDAVGVLHGMARKG-LAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEAC  519 (766)
Q Consensus       441 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~  519 (766)
                      ..|++++|...|+.....- ...-..+|..+.-+..+.|+.+.|.+.|++..+.... ...+...+.....+.|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHH
Confidence            7777777777777776641 1122356666666777777777777777777766433 3445566677777777777777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 004244          520 ELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQK  563 (766)
Q Consensus       520 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  563 (766)
                      ..++.....+ .++..+....|..-...|+.+.+-++-..+.+.
T Consensus       194 ~~~~~~~~~~-~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         194 LYLERYQQRG-GAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL  236 (250)
T ss_pred             HHHHHHHhcc-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            7777777765 467777767777777777777777766666554

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.99  E-value=1.6e-06  Score=81.20  Aligned_cols=291  Identities=13%  Similarity=0.133  Sum_probs=163.8

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHH-HHHHH
Q 004244          222 YNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVI-INGLC  300 (766)
Q Consensus       222 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~l-i~~~~  300 (766)
                      +++++..+.+..++++|++++..-.+.. +.+....+.|..+|....++..|...++++...  .|...-|... ...+.
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHH
Confidence            4556666677777888888777776663 225666677777777788888888888777653  3444444322 34455


Q ss_pred             HcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH--HHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHH
Q 004244          301 KEGRLKETKGILNEISRKGLVPDEVTYNTLLNG--YCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRA  378 (766)
Q Consensus       301 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~--~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  378 (766)
                      +.+.+.+|+++...|...   |+...-..-+.+  ....+++..+..+.+.....|   +..+.+.......+.|++++|
T Consensus        90 ~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaA  163 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAA  163 (459)
T ss_pred             HhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHH
Confidence            677788888877777552   222221111222  234667777777776655332   444555555556677888888


Q ss_pred             HHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-------------CHH---------------
Q 004244          379 MEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMP-------------SIV---------------  430 (766)
Q Consensus       379 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~-------------~~~---------------  430 (766)
                      .+-|+...+-+---....|+.-+ +..+.|+++.|+++..++.++|++.             |+.               
T Consensus       164 vqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~e  242 (459)
T KOG4340|consen  164 VQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVE  242 (459)
T ss_pred             HHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHH
Confidence            88887777654333456666544 3445677788888888877766431             111               


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004244          431 TYNALIKGHCTGGRVEDAVGVLHGMARK-GLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGL  509 (766)
Q Consensus       431 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  509 (766)
                      .+|.-...+.+.|+.+.|.+.+.+|.-+ ....|++|...+.-.- ..+++.+..+-+.-+...++- ...||..++-.|
T Consensus       243 AfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nPf-P~ETFANlLlly  320 (459)
T KOG4340|consen  243 AFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNPF-PPETFANLLLLY  320 (459)
T ss_pred             HhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCCC-ChHHHHHHHHHH
Confidence            1222222344556666666666655432 1223444443332211 122333333333334443332 245666666666


Q ss_pred             HhcCCHHHHHHHHHH
Q 004244          510 CEQRRITEACELFQE  524 (766)
Q Consensus       510 ~~~g~~~~A~~~~~~  524 (766)
                      |+..-++.|-.++.+
T Consensus       321 CKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  321 CKNEYFDLAADVLAE  335 (459)
T ss_pred             hhhHHHhHHHHHHhh
Confidence            666666666665544

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.98  E-value=2e-05  Score=75.56  Aligned_cols=207  Identities=13%  Similarity=0.047  Sum_probs=122.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 004244          437 KGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRIT  516 (766)
Q Consensus       437 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  516 (766)
                      ..+...|+...|+.....+++..+ .|...+..-..+|...|++..|+.-++...+..-. +..++-.+-..+...|+.+
T Consensus       163 ~s~~~~GD~~~ai~~i~~llEi~~-Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~  240 (504)
T KOG0624|consen  163 KSASGSGDCQNAIEMITHLLEIQP-WDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAE  240 (504)
T ss_pred             HHHhcCCchhhHHHHHHHHHhcCc-chhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHH
Confidence            334455667777777776666532 36666666667777777777776666655544222 4445555555666667777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004244          517 EACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLF  596 (766)
Q Consensus       517 ~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~  596 (766)
                      .++...++.++.  .||....-      ..-.++.+..+.++.|.                .....++|.++++-.+..+
T Consensus       241 ~sL~~iRECLKl--dpdHK~Cf------~~YKklkKv~K~les~e----------------~~ie~~~~t~cle~ge~vl  296 (504)
T KOG0624|consen  241 NSLKEIRECLKL--DPDHKLCF------PFYKKLKKVVKSLESAE----------------QAIEEKHWTECLEAGEKVL  296 (504)
T ss_pred             HHHHHHHHHHcc--CcchhhHH------HHHHHHHHHHHHHHHHH----------------HHHhhhhHHHHHHHHHHHH
Confidence            766666666654  44443211      11111222222222222                1245667777777777776


Q ss_pred             hCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHH
Q 004244          597 YDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYD  675 (766)
Q Consensus       597 ~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~  675 (766)
                      +.......+.++..---|            .++...|++.+|+....++++  +.| |+.++.--..+|.-...+++|+.
T Consensus       297 k~ep~~~~ir~~~~r~~c------------~C~~~d~~~~eAiqqC~evL~--~d~~dv~~l~dRAeA~l~dE~YD~AI~  362 (504)
T KOG0624|consen  297 KNEPEETMIRYNGFRVLC------------TCYREDEQFGEAIQQCKEVLD--IDPDDVQVLCDRAEAYLGDEMYDDAIH  362 (504)
T ss_pred             hcCCcccceeeeeeheee------------ecccccCCHHHHHHHHHHHHh--cCchHHHHHHHHHHHHhhhHHHHHHHH
Confidence            643322233333322111            566778888888888888887  445 47777777888888888888888


Q ss_pred             HHHHHHHc
Q 004244          676 LYKKMVRS  683 (766)
Q Consensus       676 ~~~~m~~~  683 (766)
                      -|+++.+.
T Consensus       363 dye~A~e~  370 (504)
T KOG0624|consen  363 DYEKALEL  370 (504)
T ss_pred             HHHHHHhc
Confidence            88888754

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.98  E-value=3.2e-06  Score=88.85  Aligned_cols=204  Identities=9%  Similarity=-0.002  Sum_probs=113.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCCH--HHHHHHHH
Q 004244          501 TYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGF-LPDV--VTYSVLIN  577 (766)
Q Consensus       501 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~-~p~~--~~~~~li~  577 (766)
                      ....+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++.....- .|+.  ..|..+..
T Consensus       116 ~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~  194 (355)
T cd05804         116 LLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLAL  194 (355)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHH
Confidence            34445556677777777777777777764 44455666777777777788887777777765421 1222  23445667


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCc-HHhH-HHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHH--H-HHHHhCCC-C
Q 004244          578 GLNKQARTMEAKKLLLKLFYDESVPS-DVIY-NTLIENCTNIEFQNVAALLKGFCMKGLMNEADRV--F-ELMLQRNH-M  651 (766)
Q Consensus       578 ~~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~-~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~--~-~~~~~~~~-~  651 (766)
                      .+...|++++|...+++.......+. .... +..             .++..+...|..+.+.+.  . ........ .
T Consensus       195 ~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~-------------~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~  261 (355)
T cd05804         195 FYLERGDYEAALAIYDTHIAPSAESDPALDLLDAA-------------SLLWRLELAGHVDVGDRWEDLADYAAWHFPDH  261 (355)
T ss_pred             HHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHH-------------HHHHHHHhcCCCChHHHHHHHHHHHHhhcCcc
Confidence            77778888888888877753211111 1111 110             001233334433332222  1 11111100 0


Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCC-------C-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 004244          652 PNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFV-------P-HTVTIIVLVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       652 p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~-------p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      ...........++...|+.++|..+++.+......       . ..........++...|+.++|...+..++..
T Consensus       262 ~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         262 GLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             cchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            01122234666777889999999999888642211       0 1122223345566888889998888888765

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.97  E-value=3.7e-07  Score=82.79  Aligned_cols=198  Identities=13%  Similarity=0.064  Sum_probs=111.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004244          501 TYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLN  580 (766)
Q Consensus       501 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~  580 (766)
                      +...|.-+|...|+...|..-+++.++.+ +.+..++..+...|.+.|+.+.|.+.|+..++.. +-+....|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            34445556666666666666666666654 3344566666666666666666666666666541 334445555566666


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHH
Q 004244          581 KQARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYD  658 (766)
Q Consensus       581 ~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~  658 (766)
                      ..|++++|...|++.+....-+. ..+|..+.               -+..+.|+.+.|.+.|++.++.  .| ...+..
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G---------------~Cal~~gq~~~A~~~l~raL~~--dp~~~~~~l  177 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLG---------------LCALKAGQFDQAEEYLKRALEL--DPQFPPALL  177 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhH---------------HHHhhcCCchhHHHHHHHHHHh--CcCCChHHH
Confidence            66666666666666665422111 12232222               3344566666666666666653  23 344445


Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 004244          659 IIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       659 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      .+...+.+.|++-.|..++++....+ .++..+....+..-...|+.+.|..+=.++.+.
T Consensus       178 ~~a~~~~~~~~y~~Ar~~~~~~~~~~-~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         178 ELARLHYKAGDYAPARLYLERYQQRG-GAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL  236 (250)
T ss_pred             HHHHHHHhcccchHHHHHHHHHHhcc-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            55666666666666666666665544 255555555555556666666555554444443

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.93  E-value=7.4e-06  Score=86.11  Aligned_cols=303  Identities=13%  Similarity=0.053  Sum_probs=181.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004244          431 TYNALIKGHCTGGRVEDAVGVLHGMARKGL-APDV-VSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHG  508 (766)
Q Consensus       431 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~-~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  508 (766)
                      .|..+...+...|+.+.+...+....+... .++. .........+...|++++|.+.+++..+..+. |...+.. ...
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~-~~~   85 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPR-DLLALKL-HLG   85 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHH-hHH
Confidence            344444455555666665555555443311 1121 11222233456678888888888887765322 3334332 212


Q ss_pred             HH----hcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 004244          509 LC----EQRRITEACELFQEMLSRGMSPD-EFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQA  583 (766)
Q Consensus       509 ~~----~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g  583 (766)
                      +.    ..+..+.+.+.++..  .+..|+ ......+...+...|++++|.+.+++..+.. +.+...+..+...+...|
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g  162 (355)
T cd05804          86 AFGLGDFSGMRDHVARVLPLW--APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQG  162 (355)
T ss_pred             HHHhcccccCchhHHHHHhcc--CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcC
Confidence            22    245555555555541  122333 3455566778899999999999999999873 455677888899999999


Q ss_pred             CHHHHHHHHHHHHhCCC-CCcHH--hHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCC-CCCHHHH-H
Q 004244          584 RTMEAKKLLLKLFYDES-VPSDV--IYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNH-MPNEAVY-D  658 (766)
Q Consensus       584 ~~~~A~~l~~~~~~~~~-~p~~~--~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p~~~~~-~  658 (766)
                      ++++|...+++.+.... .|+..  .|..+.               ..+...|++++|...++++..... .+..... +
T Consensus       163 ~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la---------------~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~  227 (355)
T cd05804         163 RFKEGIAFMESWRDTWDCSSMLRGHNWWHLA---------------LFYLERGDYEAALAIYDTHIAPSAESDPALDLLD  227 (355)
T ss_pred             CHHHHHHHHHhhhhccCCCcchhHHHHHHHH---------------HHHHHCCCHHHHHHHHHHHhccccCCChHHHHhh
Confidence            99999999999887422 12221  222333               678899999999999999864322 1122111 1


Q ss_pred             --HHHHHHhccCChHHHHHHHHHHHHc--CCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC---C-----h
Q 004244          659 --IIIHGHSKVGNVQKAYDLYKKMVRS--GFVPH---TVTIIVLVKALHTAGMNEELSQVIENILRSCRL---S-----D  723 (766)
Q Consensus       659 --~l~~~~~~~g~~~~A~~~~~~m~~~--~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~-----~  723 (766)
                        .++.-+...|..+.+... +.+...  ...|.   .......+.++...|+.++|...++.+......   .     .
T Consensus       228 ~~~~l~~~~~~g~~~~~~~w-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~  306 (355)
T cd05804         228 AASLLWRLELAGHVDVGDRW-EDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARD  306 (355)
T ss_pred             HHHHHHHHHhcCCCChHHHH-HHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHh
Confidence              333344455543333332 222110  00011   122235677788999999999999998764311   1     2


Q ss_pred             HHHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          724 AELAKVLVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       724 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      .......+..+...|++++|.+.+.+....+
T Consensus       307 ~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         307 VGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            3334455567789999999999998877654

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.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.93  E-value=1.1e-05  Score=77.45  Aligned_cols=328  Identities=10%  Similarity=0.065  Sum_probs=177.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHh
Q 004244          363 TSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYN-ALIKGHCT  441 (766)
Q Consensus       363 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~-~ll~~~~~  441 (766)
                      .-+...+...|++..|+.-|...++.+.. +-.++-.-...|...|+...|+.-+....+.  +||-..-. .-...+.+
T Consensus        42 lElGk~lla~~Q~sDALt~yHaAve~dp~-~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK  118 (504)
T KOG0624|consen   42 LELGKELLARGQLSDALTHYHAAVEGDPN-NYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLK  118 (504)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHcCCch-hHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhh
Confidence            34555566666666676666666654111 1222222334566666666666666666553  45433211 11233556


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004244          442 GGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACEL  521 (766)
Q Consensus       442 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  521 (766)
                      .|.+++|..-|+..++.......     ...++.+.-..++-                ......+..+...|+...|+..
T Consensus       119 ~Gele~A~~DF~~vl~~~~s~~~-----~~eaqskl~~~~e~----------------~~l~~ql~s~~~~GD~~~ai~~  177 (504)
T KOG0624|consen  119 QGELEQAEADFDQVLQHEPSNGL-----VLEAQSKLALIQEH----------------WVLVQQLKSASGSGDCQNAIEM  177 (504)
T ss_pred             cccHHHHHHHHHHHHhcCCCcch-----hHHHHHHHHhHHHH----------------HHHHHHHHHHhcCCchhhHHHH
Confidence            67777777777766665322110     00111110000000                1111222334445566666666


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 004244          522 FQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESV  601 (766)
Q Consensus       522 ~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~  601 (766)
                      ...+++.. +.|...|..-..+|...|++..|+.-++...+.. ..+..+...+...+...|+.+.++...++-++  ..
T Consensus       178 i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ld  253 (504)
T KOG0624|consen  178 ITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LD  253 (504)
T ss_pred             HHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cC
Confidence            66555542 4455555555556666666666655555444431 23344444455555566666666665555554  34


Q ss_pred             CcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHH---HHHHHHHHhccCChHHHHHHHH
Q 004244          602 PSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAV---YDIIIHGHSKVGNVQKAYDLYK  678 (766)
Q Consensus       602 p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~---~~~l~~~~~~~g~~~~A~~~~~  678 (766)
                      ||...+-.......++ ...+.+ +......++|.++++-.+...+.........   +..+-.++...|++.+|+....
T Consensus       254 pdHK~Cf~~YKklkKv-~K~les-~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~  331 (504)
T KOG0624|consen  254 PDHKLCFPFYKKLKKV-VKSLES-AEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCK  331 (504)
T ss_pred             cchhhHHHHHHHHHHH-HHHHHH-HHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHH
Confidence            5543322211100000 000001 1344567888889988888887543212223   3345566778899999999999


Q ss_pred             HHHHcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 004244          679 KMVRSGFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSCRLS  722 (766)
Q Consensus       679 ~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  722 (766)
                      +.+  .+.|| ..++.--+.+|....+++.|+.-|+++.+.+..+
T Consensus       332 evL--~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn  374 (504)
T KOG0624|consen  332 EVL--DIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESN  374 (504)
T ss_pred             HHH--hcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCccc
Confidence            998  45677 5677777889999999999999999999987433

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.89  E-value=9.6e-06  Score=96.80  Aligned_cols=376  Identities=13%  Similarity=0.045  Sum_probs=229.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCC
Q 004244          331 LNGYCKEGNLHQALVLHAEMVRNGLSPN-VVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGF  409 (766)
Q Consensus       331 i~~~~~~g~~~~A~~~~~~~~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  409 (766)
                      ...+...|++.+|.......   +..+. ..............|+++.+..+++.+.......+..........+...|+
T Consensus       348 a~~~~~~g~~~~Al~~a~~a---~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~  424 (903)
T PRK04841        348 AEAWLAQGFPSEAIHHALAA---GDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHR  424 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHC---CCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCC
Confidence            34455667776665543322   11100 011112233445568888877777665322111122223344555667899


Q ss_pred             HHHHHHHHHHHHHCCC------CCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHcc
Q 004244          410 LDEAYRLLNEMTKNGF------MPSI--VTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDV----VSYSTIISGFSRS  477 (766)
Q Consensus       410 ~~~A~~l~~~m~~~g~------~~~~--~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~  477 (766)
                      +++|..++......--      .+..  .....+...+...|++++|...++...+.....+.    ...+.+...+...
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            9999999988755310      1111  11222334556789999999999988763222222    3455666778889


Q ss_pred             CCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHH
Q 004244          478 QELDKAFDTKREMVEK----GVL-PDTITYSSLIHGLCEQRRITEACELFQEMLSR----GMS--P-DEFTYTTLINAYC  545 (766)
Q Consensus       478 g~~~~A~~~~~~m~~~----~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~--p-~~~~~~~l~~~~~  545 (766)
                      |++++|...+++....    |.. ....++..+...+...|++++|...+++....    +..  + ....+..+...+.
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            9999999999887643    111 11234556677788999999999998887652    211  1 2233455666677


Q ss_pred             hcCChHHHHHHHHHHHHC--CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CcHHhHHHHhhhhchhhhh
Q 004244          546 TEGDIPQALRLHDEMIQK--GFLP--DVVTYSVLINGLNKQARTMEAKKLLLKLFYDESV-PSDVIYNTLIENCTNIEFQ  620 (766)
Q Consensus       546 ~~g~~~~A~~~~~~~~~~--g~~p--~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~-p~~~~~~~ll~~~~~~~~~  620 (766)
                      ..|++++|...+.+....  ...+  ....+..+...+...|++++|.+.+.+....... .....+.....        
T Consensus       585 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~--------  656 (903)
T PRK04841        585 EWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANAD--------  656 (903)
T ss_pred             HhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHH--------
Confidence            889999999999887653  1112  2334444566778899999999999887542111 11111111000        


Q ss_pred             hHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHhccCChHHHHHHHHHHHHc----CCCCCH-HHH
Q 004244          621 NVAALLKGFCMKGLMNEADRVFELMLQRNHMPN---EAVYDIIIHGHSKVGNVQKAYDLYKKMVRS----GFVPHT-VTI  692 (766)
Q Consensus       621 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~----~~~p~~-~~~  692 (766)
                        ...+..+...|+.+.|...+...........   ...+..+..++...|++++|...++++...    |..++. .++
T Consensus       657 --~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~  734 (903)
T PRK04841        657 --KVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNL  734 (903)
T ss_pred             --HHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHH
Confidence              0001344568999999999877654211111   112356777888999999999999998742    333322 456


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          693 IVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       693 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      ..+..++...|+.++|...+.++++..
T Consensus       735 ~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        735 ILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            677888999999999999999999875

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.88  E-value=8.9e-06  Score=97.06  Aligned_cols=373  Identities=12%  Similarity=0.003  Sum_probs=228.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004244          366 INSMCKSGNLNRAMEFFDQMHVRELRPN-EKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGR  444 (766)
Q Consensus       366 i~~~~~~g~~~~A~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~  444 (766)
                      ...+...|++.+|..........   +. ..............|+++.+..+++.+.......+..........+...|+
T Consensus       348 a~~~~~~g~~~~Al~~a~~a~d~---~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~  424 (903)
T PRK04841        348 AEAWLAQGFPSEAIHHALAAGDA---QLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHR  424 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHCCCH---HHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCC
Confidence            34456677777666544433111   00 011112223345567888777777665221111122223334445567899


Q ss_pred             HHHHHHHHHHHHHCCC------CCCH--HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhc
Q 004244          445 VEDAVGVLHGMARKGL------APDV--VSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDT----ITYSSLIHGLCEQ  512 (766)
Q Consensus       445 ~~~A~~~~~~~~~~~~------~~~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~----~~~~~li~~~~~~  512 (766)
                      ++++...+......-.      .+..  .....+...+...|++++|...+++....-...+.    ...+.+...+...
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            9999999988755311      1111  12222334567899999999999988763222222    2445566677889


Q ss_pred             CCHHHHHHHHHHHHHCCC---CCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHH
Q 004244          513 RRITEACELFQEMLSRGM---SPD--EFTYTTLINAYCTEGDIPQALRLHDEMIQK----GFL--P-DVVTYSVLINGLN  580 (766)
Q Consensus       513 g~~~~A~~~~~~m~~~~~---~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g~~--p-~~~~~~~li~~~~  580 (766)
                      |++++|...+++.....-   .+.  ..++..+...+...|++++|...+++....    +..  + ....+..+...+.
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            999999999998875311   111  234556677788999999999999887642    211  1 2233445566677


Q ss_pred             hcCCHHHHHHHHHHHHhCC--CCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCC--CCCCHH-
Q 004244          581 KQARTMEAKKLLLKLFYDE--SVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRN--HMPNEA-  655 (766)
Q Consensus       581 ~~g~~~~A~~l~~~~~~~~--~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~p~~~-  655 (766)
                      ..|++++|...+.+.....  ..+.... ..+            ..+...+...|+.++|...++++....  ...... 
T Consensus       585 ~~G~~~~A~~~~~~al~~~~~~~~~~~~-~~~------------~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~  651 (903)
T PRK04841        585 EWARLDEAEQCARKGLEVLSNYQPQQQL-QCL------------AMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDW  651 (903)
T ss_pred             HhcCHHHHHHHHHHhHHhhhccCchHHH-HHH------------HHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhH
Confidence            8899999999998876531  1121111 111            111266778999999999998875421  111111 


Q ss_pred             -HH--HHHHHHHhccCChHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCC-ChH
Q 004244          656 -VY--DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT---VTIIVLVKALHTAGMNEELSQVIENILRS----CRL-SDA  724 (766)
Q Consensus       656 -~~--~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~-~~~  724 (766)
                       ..  ...+..+...|+.+.|...+............   ..+..+..++...|+.++|...+++++..    +.. ...
T Consensus       652 ~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a  731 (903)
T PRK04841        652 IANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLN  731 (903)
T ss_pred             hhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHH
Confidence             10  11224455689999999998776532111111   12456777888999999999999998865    211 234


Q ss_pred             HHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          725 ELAKVLVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       725 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      .....++.++.+.|+.++|...+.+..+..
T Consensus       732 ~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        732 RNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            566778899999999999999999887655

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.87  E-value=5.5e-06  Score=77.74  Aligned_cols=291  Identities=14%  Similarity=0.156  Sum_probs=184.9

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHH-HHHHHH
Q 004244          257 YNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNT-LLNGYC  335 (766)
Q Consensus       257 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~-li~~~~  335 (766)
                      +++.+..+.+..+++.|.+++..-.++.. .+......+..+|....++..|-+.++++-..  .|...-|.. -...+.
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p-~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSP-RSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHH
Confidence            55666677788899999999988877642 26777888888888999999999999998773  466555543 245677


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCChHHHHHHHHH--HHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHH
Q 004244          336 KEGNLHQALVLHAEMVRNGLSPNVVTYTSLINS--MCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEA  413 (766)
Q Consensus       336 ~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~--~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A  413 (766)
                      +.+.+.+|.++...|...   ++...-..-+.+  ....+++..+..+.++....|   +..+.+.......+.|++++|
T Consensus        90 ~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaA  163 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAA  163 (459)
T ss_pred             HhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHH
Confidence            888999999988877643   222221112222  234678888888888776432   455555555566789999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-------------CH---------------H
Q 004244          414 YRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAP-------------DV---------------V  465 (766)
Q Consensus       414 ~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~-------------~~---------------~  465 (766)
                      .+-|+...+-+--.....|+..+..| +.|+.+.|++...+++++|++.             |+               .
T Consensus       164 vqkFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~e  242 (459)
T KOG4340|consen  164 VQKFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVE  242 (459)
T ss_pred             HHHHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHH
Confidence            99999988754333556777766544 5689999999999988876541             11               1


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004244          466 SYSTIISGFSRSQELDKAFDTKREMVEK-GVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAY  544 (766)
Q Consensus       466 ~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~  544 (766)
                      .+|.-...+.+.++++.|.+.+-.|..+ ....|++|...+.- --..+++.+..+-+.-++..+ +....||..++-.|
T Consensus       243 AfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al-~n~~~~p~~g~~KLqFLL~~n-PfP~ETFANlLlly  320 (459)
T KOG4340|consen  243 AFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQAL-MNMDARPTEGFEKLQFLLQQN-PFPPETFANLLLLY  320 (459)
T ss_pred             HhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHH-hcccCCccccHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            1222222345566666666666665433 12235555443321 112344444555555555443 33445666666667


Q ss_pred             HhcCChHHHHHHHHH
Q 004244          545 CTEGDIPQALRLHDE  559 (766)
Q Consensus       545 ~~~g~~~~A~~~~~~  559 (766)
                      |+..-++.|-.++.+
T Consensus       321 CKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  321 CKNEYFDLAADVLAE  335 (459)
T ss_pred             hhhHHHhHHHHHHhh
Confidence            766666666666544

>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=98.87  E-value=2e-07  Score=92.55  Aligned_cols=255  Identities=14%  Similarity=0.108  Sum_probs=146.7

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 004244          439 HCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEA  518 (766)
Q Consensus       439 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A  518 (766)
                      +.-.|++..++.-.+ ........+.....-+.++|...|+.+.++.   ++... ..|.......+...+...++-+.+
T Consensus        11 ~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl~---ei~~~-~~~~l~av~~la~y~~~~~~~e~~   85 (290)
T PF04733_consen   11 QFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVLS---EIKKS-SSPELQAVRLLAEYLSSPSDKESA   85 (290)
T ss_dssp             HHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHHH---HS-TT-SSCCCHHHHHHHHHHCTSTTHHCH
T ss_pred             HHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHHH---HhccC-CChhHHHHHHHHHHHhCccchHHH
Confidence            334566666665444 2222112223334445566777777665432   22222 245555555444444333455555


Q ss_pred             HHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 004244          519 CELFQEMLSRGMSP-DEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFY  597 (766)
Q Consensus       519 ~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~  597 (766)
                      +.-+++.......+ +..........+...|++++|++++...      .+.......+..|.+.++++.|.+.++.|.+
T Consensus        86 l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~  159 (290)
T PF04733_consen   86 LEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQ  159 (290)
T ss_dssp             HHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            55555444333222 2222233334556678888888777542      3566666677888888888888888888876


Q ss_pred             CCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHH
Q 004244          598 DESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLY  677 (766)
Q Consensus       598 ~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  677 (766)
                        ...|........            +.+..+...+.+.+|..+|+++.+. ..+++.+.+.++.++...|++++|.+++
T Consensus       160 --~~eD~~l~qLa~------------awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L  224 (290)
T PF04733_consen  160 --IDEDSILTQLAE------------AWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELL  224 (290)
T ss_dssp             --CSCCHHHHHHHH------------HHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHH
T ss_pred             --cCCcHHHHHHHH------------HHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence              344544333222            1113333345688899999888765 4567888888888888999999999988


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCh-HHHHHHHHHHHHcCC
Q 004244          678 KKMVRSGFVPHTVTIIVLVKALHTAGMN-EELSQVIENILRSCR  720 (766)
Q Consensus       678 ~~m~~~~~~p~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~  720 (766)
                      +++.+.. +-++.+...++......|+. +.+.++++++....|
T Consensus       225 ~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p  267 (290)
T PF04733_consen  225 EEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSNP  267 (290)
T ss_dssp             HHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTT
T ss_pred             HHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCC
Confidence            8877443 33446777777777777877 667778888777663

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.

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.84  E-value=2e-07  Score=97.92  Aligned_cols=222  Identities=14%  Similarity=0.089  Sum_probs=169.5

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004244          496 LPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVL  575 (766)
Q Consensus       496 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l  575 (766)
                      +|-...-..+...+...|-...|..++++..         .|..++.+|+..|+..+|..+..+..++  +||...|..+
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~L  463 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLL  463 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHh
Confidence            3433444566777788888888888888764         4556777888888888888888888774  7888888888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CH
Q 004244          576 INGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NE  654 (766)
Q Consensus       576 i~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~  654 (766)
                      .+......-+++|.++.+.....    -...++                  ......++++++.+.|+.-.+.  .| ..
T Consensus       464 GDv~~d~s~yEkawElsn~~sar----A~r~~~------------------~~~~~~~~fs~~~~hle~sl~~--nplq~  519 (777)
T KOG1128|consen  464 GDVLHDPSLYEKAWELSNYISAR----AQRSLA------------------LLILSNKDFSEADKHLERSLEI--NPLQL  519 (777)
T ss_pred             hhhccChHHHHHHHHHhhhhhHH----HHHhhc------------------cccccchhHHHHHHHHHHHhhc--Cccch
Confidence            88888888888888888765432    001111                  1223468888898888887763  34 67


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHH
Q 004244          655 AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEI  733 (766)
Q Consensus       655 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  733 (766)
                      .+|..++.+..+.++++.|.+.|...+.  ..||. ..|+.+..++.+.|+..+|...++++++.+ ..+..+|.+....
T Consensus       520 ~~wf~~G~~ALqlek~q~av~aF~rcvt--L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlv  596 (777)
T KOG1128|consen  520 GTWFGLGCAALQLEKEQAAVKAFHRCVT--LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLV  596 (777)
T ss_pred             hHHHhccHHHHHHhhhHHHHHHHHHHhh--cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhh
Confidence            7888888888889999999999888884  46765 889999999999999999999999999887 6667788888888


Q ss_pred             HhcCCChhHHHHHHHHHHHCCC
Q 004244          734 NHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       734 ~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      ..+.|.|++|.+.+.++.+...
T Consensus       597 svdvge~eda~~A~~rll~~~~  618 (777)
T KOG1128|consen  597 SVDVGEFEDAIKAYHRLLDLRK  618 (777)
T ss_pred             hhhcccHHHHHHHHHHHHHhhh
Confidence            8888999999988888766543

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.82  E-value=5.4e-07  Score=92.41  Aligned_cols=247  Identities=15%  Similarity=0.109  Sum_probs=146.0

Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 004244          475 SRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQAL  554 (766)
Q Consensus       475 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  554 (766)
                      .+.|++.+|.-.|+..+..++. +...|..|.......++-..|+..+++.++.. +.|......|.-.|...|.-.+|.
T Consensus       296 m~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHHH
Confidence            3445555555555555544332 44555555555555555555555555555553 444555555555566666666666


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHH-------HHHHhcCCHHHHHHHHHHHHhC-CCCCcHHhHHHHhhhhchhhhhhHHHHH
Q 004244          555 RLHDEMIQKGFLPDVVTYSVLI-------NGLNKQARTMEAKKLLLKLFYD-ESVPSDVIYNTLIENCTNIEFQNVAALL  626 (766)
Q Consensus       555 ~~~~~~~~~g~~p~~~~~~~li-------~~~~~~g~~~~A~~l~~~~~~~-~~~p~~~~~~~ll~~~~~~~~~~~~~l~  626 (766)
                      +.++.-+.... |-...-..-.       ..+.......+..++|-++... +..+|..+...|.               
T Consensus       374 ~~L~~Wi~~~p-~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LG---------------  437 (579)
T KOG1125|consen  374 KMLDKWIRNKP-KYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLG---------------  437 (579)
T ss_pred             HHHHHHHHhCc-cchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhH---------------
Confidence            66555543210 0000000000       0111112233444555554433 3234444555554               


Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCC
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGM  704 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~  704 (766)
                      -.|...|++++|+..|+.++.  ++| |...||-|+..++...+.++|+..|++++  .++|.- .+...|+-.|...|.
T Consensus       438 VLy~ls~efdraiDcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rAL--qLqP~yVR~RyNlgIS~mNlG~  513 (579)
T KOG1125|consen  438 VLYNLSGEFDRAVDCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYNRAL--QLQPGYVRVRYNLGISCMNLGA  513 (579)
T ss_pred             HHHhcchHHHHHHHHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHH--hcCCCeeeeehhhhhhhhhhhh
Confidence            557788899999999998887  456 77889999999998889999999999988  457775 345567778888999


Q ss_pred             hHHHHHHHHHHHHcCCC---------ChHHHHHHHHHHHhcCCChhHH
Q 004244          705 NEELSQVIENILRSCRL---------SDAELAKVLVEINHKEGNMDAV  743 (766)
Q Consensus       705 ~~~A~~~~~~~~~~~~~---------~~~~~~~~l~~~~~~~g~~~~A  743 (766)
                      +++|.+.|-.++.....         .+..+|..|=.++...++.|-+
T Consensus       514 ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l  561 (579)
T KOG1125|consen  514 YKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLL  561 (579)
T ss_pred             HHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHH
Confidence            99999988887755211         1235666666666666666633

>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=98.82  E-value=2.5e-07  Score=91.90  Aligned_cols=253  Identities=13%  Similarity=0.059  Sum_probs=162.3

Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChH
Q 004244          472 SGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIP  551 (766)
Q Consensus       472 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  551 (766)
                      +-+.-.|++..++.-.+ ........+......+.+++...|+++.++   .++.... .|.......+...+...++-+
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e   83 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKE   83 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHH
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchH
Confidence            44556788888886555 222222223445566778889999877654   3333333 666666655555444434555


Q ss_pred             HHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhh
Q 004244          552 QALRLHDEMIQKGFLPDV-VTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFC  630 (766)
Q Consensus       552 ~A~~~~~~~~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~  630 (766)
                      .++.-+++.......++. .........+...|++++|++++++.      .+.......+               ..|.
T Consensus        84 ~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~V---------------qi~L  142 (290)
T PF04733_consen   84 SALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAV---------------QILL  142 (290)
T ss_dssp             CHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHH---------------HHHH
T ss_pred             HHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHH---------------HHHH
Confidence            555555444433323222 33333345567789999999988643      1222223333               8899


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH----hccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChH
Q 004244          631 MKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGH----SKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNE  706 (766)
Q Consensus       631 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~----~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  706 (766)
                      +.++++.|.+.++.|.+.  ..|.... .++.++    .-.+++.+|.-+|+++.+. +.+++.+.+.++.+....|+++
T Consensus       143 ~~~R~dlA~k~l~~~~~~--~eD~~l~-qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~  218 (290)
T PF04733_consen  143 KMNRPDLAEKELKNMQQI--DEDSILT-QLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYE  218 (290)
T ss_dssp             HTT-HHHHHHHHHHHHCC--SCCHHHH-HHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HH
T ss_pred             HcCCHHHHHHHHHHHHhc--CCcHHHH-HHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHH
Confidence            999999999999999874  3454332 233332    2334699999999998754 5678888999999999999999


Q ss_pred             HHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCCh-hHHHHHHHHHHHCCC
Q 004244          707 ELSQVIENILRSCRLSDAELAKVLVEINHKEGNM-DAVLNVLTEMAKDGL  755 (766)
Q Consensus       707 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~m~~~~~  755 (766)
                      +|...+++++..+ +.++.+..+++-+....|+. +.+.+++.++.....
T Consensus       219 eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p  267 (290)
T PF04733_consen  219 EAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSNP  267 (290)
T ss_dssp             HHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTT
T ss_pred             HHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCC
Confidence            9999999999888 67788888888888888888 567778888776543

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.

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.79  E-value=4.3e-07  Score=93.17  Aligned_cols=231  Identities=15%  Similarity=0.126  Sum_probs=177.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004244          508 GLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTME  587 (766)
Q Consensus       508 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~  587 (766)
                      -+.+.|++.+|.-.|+..++.+ +.+...|..|.......++-..|+..+.+.++.. +-+....-.|.-.|...|.-.+
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHH
Confidence            4577899999999999999886 6678899999999999999999999999999862 5567788889999999999999


Q ss_pred             HHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHH-hCCCCCCHHHHHHHHHHHhc
Q 004244          588 AKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELML-QRNHMPNEAVYDIIIHGHSK  666 (766)
Q Consensus       588 A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~p~~~~~~~l~~~~~~  666 (766)
                      |++.+++.+...  |....   +..+--+..+...    ........+....++|-++. +.+..+|+.+...|+-.|.-
T Consensus       372 Al~~L~~Wi~~~--p~y~~---l~~a~~~~~~~~~----~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~l  442 (579)
T KOG1125|consen  372 ALKMLDKWIRNK--PKYVH---LVSAGENEDFENT----KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNL  442 (579)
T ss_pred             HHHHHHHHHHhC--ccchh---ccccCccccccCC----cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhc
Confidence            999999997642  21111   0000000000000    01122223445555665555 55545788888999999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHH
Q 004244          667 VGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLN  745 (766)
Q Consensus       667 ~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  745 (766)
                      .|.+++|++.|+.++.  +.|+. ..|+.|+..+....+.++|+..|.++++.. |.-+.+.+.|+-.+...|.++||.+
T Consensus       443 s~efdraiDcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLq-P~yVR~RyNlgIS~mNlG~ykEA~~  519 (579)
T KOG1125|consen  443 SGEFDRAVDCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQ-PGYVRVRYNLGISCMNLGAYKEAVK  519 (579)
T ss_pred             chHHHHHHHHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcC-CCeeeeehhhhhhhhhhhhHHHHHH
Confidence            9999999999999995  45665 789999999999999999999999999997 5567777889999999999999999


Q ss_pred             HHHHHHH
Q 004244          746 VLTEMAK  752 (766)
Q Consensus       746 ~~~~m~~  752 (766)
                      .|-+...
T Consensus       520 hlL~AL~  526 (579)
T KOG1125|consen  520 HLLEALS  526 (579)
T ss_pred             HHHHHHH
Confidence            9876443

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.74  E-value=6.6e-06  Score=92.47  Aligned_cols=233  Identities=12%  Similarity=0.120  Sum_probs=176.7

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHHC-CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004244          463 DVVSYSTIISGFSRSQELDKAFDTKREMVEK-GVLP---DTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYT  538 (766)
Q Consensus       463 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  538 (766)
                      +...|-..|..+...++.++|.++.++.... ++.-   -...|.++++.-...|.-+...++|+++.+.  ......|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHH
Confidence            5677888888889999999999999988754 2211   1235777777777778888899999999875  22345688


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc--HHhHHHHhhhhch
Q 004244          539 TLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPS--DVIYNTLIENCTN  616 (766)
Q Consensus       539 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~--~~~~~~ll~~~~~  616 (766)
                      .|...|.+.++.++|.++++.|.++ +......|..+++.+.++.+-+.|.+++.++++.  .|.  .+-+.+-.     
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~Iskf----- 1606 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKF----- 1606 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHH-----
Confidence            9999999999999999999999987 5567788999999999999999999999999874  444  22222211     


Q ss_pred             hhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH--HHHHH
Q 004244          617 IEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT--VTIIV  694 (766)
Q Consensus       617 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~~~~~  694 (766)
                               +..-.+.|+.+.+..+|+..+... +--...|+.+++.-.++|+.+.+..+|++++..++.|..  ..|..
T Consensus      1607 ---------AqLEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKk 1676 (1710)
T KOG1070|consen 1607 ---------AQLEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKK 1676 (1710)
T ss_pred             ---------HHHHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHH
Confidence                     166778999999999999988753 226778999999999999999999999999988887765  45555


Q ss_pred             HHHHHHhcCChHHHHHHHHHH
Q 004244          695 LVKALHTAGMNEELSQVIENI  715 (766)
Q Consensus       695 l~~~~~~~g~~~~A~~~~~~~  715 (766)
                      .+.---..|+-+.+..+=.++
T Consensus      1677 wLeyEk~~Gde~~vE~VKarA 1697 (1710)
T KOG1070|consen 1677 WLEYEKSHGDEKNVEYVKARA 1697 (1710)
T ss_pred             HHHHHHhcCchhhHHHHHHHH
Confidence            555555566655444433333

>PF12854 PPR_1: PPR repeat

Probab=98.73  E-value=1.4e-08  Score=63.74  Aligned_cols=31  Identities=68%  Similarity=1.292  Sum_probs=12.6

Q ss_pred             CCcCHHHHHHHHHHHHHcCChhHHHHHHHHH
Q 004244          250 CLANVVTYNTLIDGYCKLGRIDDAFKLLRDM  280 (766)
Q Consensus       250 ~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m  280 (766)
                      +.||++|||+||++||+.|++++|.++|++|
T Consensus         3 ~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    3 CEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            3344444444444444444444444444433

>PF12854 PPR_1: PPR repeat

Probab=98.70  E-value=2e-08  Score=63.07  Aligned_cols=34  Identities=38%  Similarity=0.837  Sum_probs=30.9

Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 004244          213 SRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEME  246 (766)
Q Consensus       213 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  246 (766)
                      .|+.||.+|||+||++||+.|++++|.++|++|.
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            3789999999999999999999999999999884

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.68  E-value=0.0012  Score=71.95  Aligned_cols=95  Identities=22%  Similarity=0.255  Sum_probs=64.6

Q ss_pred             hHHHHHhhhhhcCCHH---HHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004244          621 NVAALLKGFCMKGLMN---EADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLV  696 (766)
Q Consensus       621 ~~~~l~~~~~~~g~~~---~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~  696 (766)
                      .++.|++.+.+.++..   +|+-+++.-...  .| |..+--.+++.|+-.|-...|.++|+.+--+.+.-|...|. +.
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 AVNHLIDLWRKTNDLTDLFEAITLLENGLTK--SPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDTLGHL-IF  514 (932)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHhhc--CCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhccchHH-HH
Confidence            3567778998888865   455555555542  34 55555678899999999999999999886555666654443 23


Q ss_pred             HHHHhcCChHHHHHHHHHHHHc
Q 004244          697 KALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       697 ~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      .-+...|++..+...+...++.
T Consensus       515 ~~~~t~g~~~~~s~~~~~~lkf  536 (932)
T KOG2053|consen  515 RRAETSGRSSFASNTFNEHLKF  536 (932)
T ss_pred             HHHHhcccchhHHHHHHHHHHH
Confidence            3445667777777777766554

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.68  E-value=4e-06  Score=94.17  Aligned_cols=202  Identities=15%  Similarity=0.193  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHH
Q 004244          535 FTYTTLINAYCTEGDIPQALRLHDEMIQK-GFLP---DVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTL  610 (766)
Q Consensus       535 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-g~~p---~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~l  610 (766)
                      ..|-..|....+.++.++|+++.++++.. ++.-   -...|.++++.....|.-+...++|+++.+.  ......|..|
T Consensus      1459 i~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~~L 1536 (1710)
T KOG1070|consen 1459 ILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHLKL 1536 (1710)
T ss_pred             hHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHHHH
Confidence            34444444445555555555555555433 1111   1224444444444445444555555555432  1112223333


Q ss_pred             hhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC--
Q 004244          611 IENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH--  688 (766)
Q Consensus       611 l~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~--  688 (766)
                      .               ..|.+.+..++|.++++.|.++ ..-....|..++..+.++.+-+.|.++++++++.  -|.  
T Consensus      1537 ~---------------~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~e 1598 (1710)
T KOG1070|consen 1537 L---------------GIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQE 1598 (1710)
T ss_pred             H---------------HHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhh
Confidence            3               4555555555555555555532 1123444555555555555555555555555432  122  


Q ss_pred             -HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC
Q 004244          689 -TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLP  757 (766)
Q Consensus       689 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  757 (766)
                       .....-.+..-++.|+.+++..+|+..+... |.-...|+.+++.-.++|+.+.+.++|++....++.|
T Consensus      1599 Hv~~IskfAqLEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1599 HVEFISKFAQLEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSI 1667 (1710)
T ss_pred             hHHHHHHHHHHHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCCh
Confidence             1233334444455555555555555555543 4445555555555555555555555555555555443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.66  E-value=0.00084  Score=68.92  Aligned_cols=419  Identities=13%  Similarity=0.155  Sum_probs=230.4

Q ss_pred             CCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHH
Q 004244          179 PGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYN  258 (766)
Q Consensus       179 ~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~  258 (766)
                      -|..+|+.|+.-+....    .+++++.++++... ++-....|..-|..-.+..+++....+|.+....  ..+...|.
T Consensus        18 ~di~sw~~lire~qt~~----~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvk--vLnlDLW~   90 (656)
T KOG1914|consen   18 YDIDSWSQLIREAQTQP----IDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVK--VLNLDLWK   90 (656)
T ss_pred             ccHHHHHHHHHHHccCC----HHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--HhhHhHHH
Confidence            37778888887665442    48888999888764 4556778888888888889999999999888765  34666777


Q ss_pred             HHHHHHHH-cCChhHHH----HHHHHH-hhCCCCC-CHHHHHHHHHH---------HHHcCChhHHHHHHHHHHHCCCCC
Q 004244          259 TLIDGYCK-LGRIDDAF----KLLRDM-GLKGIEP-NLISYNVIING---------LCKEGRLKETKGILNEISRKGLVP  322 (766)
Q Consensus       259 ~li~~~~~-~g~~~~A~----~l~~~m-~~~g~~p-~~~~~~~li~~---------~~~~g~~~~a~~~~~~m~~~g~~p  322 (766)
                      ..++---+ .|+...+.    +.|+-. .+.|+.+ +...|+..+..         +..+.+++...++++++....+. 
T Consensus        91 lYl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~-  169 (656)
T KOG1914|consen   91 LYLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMH-  169 (656)
T ss_pred             HHHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccc-
Confidence            77654443 23333222    222222 2233322 22335544432         23344566666777776653221 


Q ss_pred             CHHHHHHHHHHHH-----------------hcCChHHHHHHHHHHHH--CCCCCChHHHHHHHHHHHhcCCHHH--HHHH
Q 004244          323 DEVTYNTLLNGYC-----------------KEGNLHQALVLHAEMVR--NGLSPNVVTYTSLINSMCKSGNLNR--AMEF  381 (766)
Q Consensus       323 ~~~~~~~li~~~~-----------------~~g~~~~A~~~~~~~~~--~g~~~~~~~~~~li~~~~~~g~~~~--A~~~  381 (766)
                      +   ...|.+-|+                 +...+..|.++++++..  .|+..+..+       .-..|-.++  +.++
T Consensus       170 n---lEkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~-------vp~~~T~~e~~qv~~  239 (656)
T KOG1914|consen  170 N---LEKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPA-------VPPKGTKDEIQQVEL  239 (656)
T ss_pred             c---HHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCC-------CCCCCChHHHHHHHH
Confidence            1   111111111                 11223333333333322  122211111       000011111  1112


Q ss_pred             HHHHHHC----CCC-CC--------HhHHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC---
Q 004244          382 FDQMHVR----ELR-PN--------EKTYTTLINGFSQHG-FLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGR---  444 (766)
Q Consensus       382 ~~~m~~~----~~~-~~--------~~~~~~li~~~~~~g-~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~---  444 (766)
                      +...++.    ++. .+        ..+|...+..+.-.- -+-++...+.+..               +.+...|+   
T Consensus       240 W~n~I~wEksNpL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s---------------~l~~~~~d~~~  304 (656)
T KOG1914|consen  240 WKNWIKWEKSNPLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEIS---------------DLLTEKGDVPD  304 (656)
T ss_pred             HHHHHHHHhcCCcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhh---------------HHHHHhccccc
Confidence            2111111    000 00        011111111110000 0111111111111               12233333   


Q ss_pred             ----HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc---CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004244          445 ----VEDAVGVLHGMARKGLAPDVVSYSTIISGFSRS---QELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITE  517 (766)
Q Consensus       445 ----~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~---g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  517 (766)
                          -+++..+++...+.-...+..+|..+.+.--..   +..+.....++++...-..--..+|..+++.-.+..-+..
T Consensus       305 a~~~t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlka  384 (656)
T KOG1914|consen  305 AKSLTDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKA  384 (656)
T ss_pred             chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHH
Confidence                345555565555432233444454444322111   1355566666666654222223567778888888888999


Q ss_pred             HHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004244          518 ACELFQEMLSRGMSP-DEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLF  596 (766)
Q Consensus       518 A~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~  596 (766)
                      |..+|.++.+.+..+ ++..+.+++.-||. ++.+.|.++|+.-+++ +..+..--...++-+...++-..|..+|++.+
T Consensus       385 aR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l  462 (656)
T KOG1914|consen  385 ARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVL  462 (656)
T ss_pred             HHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHH
Confidence            999999999887666 77788888887774 7888999999988766 44455566678888899999999999999999


Q ss_pred             hCCCCCc--HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHh
Q 004244          597 YDESVPS--DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQ  647 (766)
Q Consensus       597 ~~~~~p~--~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (766)
                      ..+..|+  ...|..++               +--..-|++..+.++-+++..
T Consensus       463 ~s~l~~~ks~~Iw~r~l---------------~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  463 TSVLSADKSKEIWDRML---------------EYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             hccCChhhhHHHHHHHH---------------HHHHhcccHHHHHHHHHHHHH
Confidence            8755544  45788877               667778999999988877764

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.63  E-value=4e-06  Score=78.68  Aligned_cols=122  Identities=10%  Similarity=0.090  Sum_probs=67.0

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHH
Q 004244          582 QARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDII  660 (766)
Q Consensus       582 ~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l  660 (766)
                      .++.+++...+++.++. .+.+...|..+.               ..|...|++++|...|++..+..  | +...+..+
T Consensus        52 ~~~~~~~i~~l~~~L~~-~P~~~~~w~~Lg---------------~~~~~~g~~~~A~~a~~~Al~l~--P~~~~~~~~l  113 (198)
T PRK10370         52 QQTPEAQLQALQDKIRA-NPQNSEQWALLG---------------EYYLWRNDYDNALLAYRQALQLR--GENAELYAAL  113 (198)
T ss_pred             chhHHHHHHHHHHHHHH-CCCCHHHHHHHH---------------HHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHH
Confidence            45555565556555553 223333444443               55666666666666666666532  3 55555555


Q ss_pred             HHHH-hccCC--hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 004244          661 IHGH-SKVGN--VQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLS  722 (766)
Q Consensus       661 ~~~~-~~~g~--~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  722 (766)
                      ..++ ...|+  .++|.++++++++.. +-+...+..++..+...|++++|+..++++++..++.
T Consensus       114 A~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~~  177 (198)
T PRK10370        114 ATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDLNSPR  177 (198)
T ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            5543 44454  366666666666432 2233555556666666666666666666666665443

>PLN02789 farnesyltranstransferase

Probab=98.61  E-value=3.7e-05  Score=77.59  Aligned_cols=219  Identities=9%  Similarity=0.038  Sum_probs=111.3

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH--HH
Q 004244          511 EQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEG-DIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQART--ME  587 (766)
Q Consensus       511 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~--~~  587 (766)
                      ..++.++|+.+..++++.. +-+..+|+....++...| ++++++..++++.+.. +.+..+|+.-...+.+.|+.  ++
T Consensus        49 ~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~~~  126 (320)
T PLN02789         49 SDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAANK  126 (320)
T ss_pred             cCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhhHH
Confidence            3445555666666555542 223334444444444444 3566666666665542 23333444333333344432  45


Q ss_pred             HHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 004244          588 AKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKV  667 (766)
Q Consensus       588 A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  667 (766)
                      ++.+++++++.. .-+...|....               ..+...|+++++++.++++++.+.. |..+|+.....+.+.
T Consensus       127 el~~~~kal~~d-pkNy~AW~~R~---------------w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~  189 (320)
T PLN02789        127 ELEFTRKILSLD-AKNYHAWSHRQ---------------WVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRS  189 (320)
T ss_pred             HHHHHHHHHHhC-cccHHHHHHHH---------------HHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhc
Confidence            566666665531 22334444443               4455556666666666666664322 455555555444433


Q ss_pred             ---CC----hHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhc----CChHHHHHHHHHHHHcCCCChHHHHHHHHHHHh
Q 004244          668 ---GN----VQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTA----GMNEELSQVIENILRSCRLSDAELAKVLVEINH  735 (766)
Q Consensus       668 ---g~----~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  735 (766)
                         |.    .++++++..+++..  .|+. ..|+.+...+...    ++..+|...+.++...+ +........|++.|+
T Consensus       190 ~~l~~~~~~~e~el~y~~~aI~~--~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~  266 (320)
T PLN02789        190 PLLGGLEAMRDSELKYTIDAILA--NPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLC  266 (320)
T ss_pred             cccccccccHHHHHHHHHHHHHh--CCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHH
Confidence               22    23556666565533  3433 5555555555542    33455666666666554 444555566666666


Q ss_pred             cCC------------------ChhHHHHHHHHHH
Q 004244          736 KEG------------------NMDAVLNVLTEMA  751 (766)
Q Consensus       736 ~~g------------------~~~~A~~~~~~m~  751 (766)
                      ...                  ..++|.++++.+.
T Consensus       267 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        267 EGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             hhhccchhhhhhhhccccccccHHHHHHHHHHHH
Confidence            432                  2366777777773

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.61  E-value=0.0012  Score=67.91  Aligned_cols=187  Identities=12%  Similarity=0.163  Sum_probs=117.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh---cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004244          515 ITEACELFQEMLSRGMSPDEFTYTTLINAYCT---EGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKL  591 (766)
Q Consensus       515 ~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l  591 (766)
                      .+++..+++.....-...+..+|..+..---.   ..+.+....+++++...-...-..+|..+++.-.+..-...|..+
T Consensus       309 t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~i  388 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKI  388 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHH
Confidence            34555555555443222233444433332111   113555556666666442222334666777777777778888888


Q ss_pred             HHHHHhCCCCC-cHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCCh
Q 004244          592 LLKLFYDESVP-SDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNV  670 (766)
Q Consensus       592 ~~~~~~~~~~p-~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  670 (766)
                      |.+..+.+..+ +..++++++               .-|| .++.+-|.++|+-=+.+ ...++..-...++-+...++-
T Consensus       389 F~kaR~~~r~~hhVfVa~A~m---------------Ey~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd  451 (656)
T KOG1914|consen  389 FKKAREDKRTRHHVFVAAALM---------------EYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDD  451 (656)
T ss_pred             HHHHhhccCCcchhhHHHHHH---------------HHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcc
Confidence            88888776666 566666666               4443 57778888888765543 222334445667777788888


Q ss_pred             HHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 004244          671 QKAYDLYKKMVRSGFVPHT--VTIIVLVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       671 ~~A~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      ..|..+|++.+..++.||.  ..|..++.--..-|+...+.++-++....
T Consensus       452 ~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  452 NNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             hhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            8888888888877666665  77888888888888888888877776554

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.59  E-value=5.3e-06  Score=81.31  Aligned_cols=185  Identities=14%  Similarity=0.042  Sum_probs=122.4

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHh--
Q 004244          532 PDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDV---VTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVI--  606 (766)
Q Consensus       532 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~---~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~--  606 (766)
                      .....+..+...+.+.|++++|...++++.... +.+.   ..+..+..++.+.|++++|...++++++.  .|+...  
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~  107 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL--HPNHPDAD  107 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCchH
Confidence            345566777778888888888888888887652 2222   45667777888888888888888888774  333221  


Q ss_pred             --HHHHhhhhchhhhhhHHHHHhhhhhc--------CCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCChHHHHH
Q 004244          607 --YNTLIENCTNIEFQNVAALLKGFCMK--------GLMNEADRVFELMLQRNHMPN-EAVYDIIIHGHSKVGNVQKAYD  675 (766)
Q Consensus       607 --~~~ll~~~~~~~~~~~~~l~~~~~~~--------g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~  675 (766)
                        +..+.               .++...        |+.++|.+.++++.+.  .|+ ...+..+.....    ...   
T Consensus       108 ~a~~~~g---------------~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~----~~~---  163 (235)
T TIGR03302       108 YAYYLRG---------------LSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDY----LRN---  163 (235)
T ss_pred             HHHHHHH---------------HHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHH----HHH---
Confidence              22211               344433        6777788888877764  243 222222211100    000   


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CChHHHHHHHHHHHhcCCChhHHHHHHHHHHHC
Q 004244          676 LYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCR--LSDAELAKVLVEINHKEGNMDAVLNVLTEMAKD  753 (766)
Q Consensus       676 ~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  753 (766)
                          ..       ......++..+...|++++|+..++++++..+  +.....+..++.++.+.|++++|.++++.+...
T Consensus       164 ----~~-------~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       164 ----RL-------AGKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             ----HH-------HHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence                00       01122466778899999999999999998853  234678889999999999999999999988776


Q ss_pred             C
Q 004244          754 G  754 (766)
Q Consensus       754 ~  754 (766)
                      .
T Consensus       233 ~  233 (235)
T TIGR03302       233 Y  233 (235)
T ss_pred             C
Confidence            4

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PLN02789 farnesyltranstransferase

Probab=98.50  E-value=0.00022  Score=72.09  Aligned_cols=207  Identities=8%  Similarity=0.040  Sum_probs=133.8

Q ss_pred             HHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh--
Q 004244          474 FSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQR-RITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDI--  550 (766)
Q Consensus       474 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~--  550 (766)
                      +...+..++|+....+++..... +..+|+.....+...| ++++++..++++.+.+ +.+..+|+.....+.+.|+.  
T Consensus        47 l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~  124 (320)
T PLN02789         47 YASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAA  124 (320)
T ss_pred             HHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhh
Confidence            34456667777777777765432 4445655555566666 5678888888877764 44555666555555556653  


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhh
Q 004244          551 PQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFC  630 (766)
Q Consensus       551 ~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~  630 (766)
                      +++..+++.+++.. +-+..+|+.....+.+.|+++++++.++++++.+. -+...|+...               ..+.
T Consensus       125 ~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~-~N~sAW~~R~---------------~vl~  187 (320)
T PLN02789        125 NKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV-RNNSAWNQRY---------------FVIT  187 (320)
T ss_pred             HHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC-CchhHHHHHH---------------HHHH
Confidence            56777887877652 45677787777777788888888888888887532 2333444433               1121


Q ss_pred             hc---C----CHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhcc----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004244          631 MK---G----LMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKV----GNVQKAYDLYKKMVRSGFVPHTVTIIVLVKA  698 (766)
Q Consensus       631 ~~---g----~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~----g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~  698 (766)
                      +.   |    ..++++....+++..  .| |...|+.+...+...    ++..+|.+.+.+..+.+ ..+......|++.
T Consensus       188 ~~~~l~~~~~~~e~el~y~~~aI~~--~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~  264 (320)
T PLN02789        188 RSPLLGGLEAMRDSELKYTIDAILA--NPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDL  264 (320)
T ss_pred             hccccccccccHHHHHHHHHHHHHh--CCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHH
Confidence            21   2    235677777777774  35 778888888888773    44567989988877532 3344667778888


Q ss_pred             HHhc
Q 004244          699 LHTA  702 (766)
Q Consensus       699 ~~~~  702 (766)
                      ++..
T Consensus       265 ~~~~  268 (320)
T PLN02789        265 LCEG  268 (320)
T ss_pred             HHhh
Confidence            8753

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.50  E-value=1.1e-05  Score=85.23  Aligned_cols=211  Identities=17%  Similarity=0.149  Sum_probs=90.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 004244          434 ALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQR  513 (766)
Q Consensus       434 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  513 (766)
                      .+...+.+.|-...|..++++         ...|..+|.+|+..|+..+|..+..+..++  +||+..|..+.+.....-
T Consensus       403 ~laell~slGitksAl~I~Er---------lemw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s  471 (777)
T KOG1128|consen  403 LLAELLLSLGITKSALVIFER---------LEMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPS  471 (777)
T ss_pred             HHHHHHHHcchHHHHHHHHHh---------HHHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChH
Confidence            334444445555555555442         233444555555555555555554444442  344444444444444444


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004244          514 RITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLL  593 (766)
Q Consensus       514 ~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~  593 (766)
                      -+++|.++.+.....       .-..+.....+.++++++.+.++.-.+.. +.-..+|-.+.-+..+.++++.|.+.|.
T Consensus       472 ~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~  543 (777)
T KOG1128|consen  472 LYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFH  543 (777)
T ss_pred             HHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHH
Confidence            444444444433211       11111111122444555555554444331 2233444444444444455555555554


Q ss_pred             HHHhCCCCCcH-HhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHH
Q 004244          594 KLFYDESVPSD-VIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQK  672 (766)
Q Consensus       594 ~~~~~~~~p~~-~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  672 (766)
                      ..+.  ..||. ..||.+-               .+|.+.|+..+|...+++..+.+. .+...|...+....+.|.+++
T Consensus       544 rcvt--L~Pd~~eaWnNls---------------~ayi~~~~k~ra~~~l~EAlKcn~-~~w~iWENymlvsvdvge~ed  605 (777)
T KOG1128|consen  544 RCVT--LEPDNAEAWNNLS---------------TAYIRLKKKKRAFRKLKEALKCNY-QHWQIWENYMLVSVDVGEFED  605 (777)
T ss_pred             HHhh--cCCCchhhhhhhh---------------HHHHHHhhhHHHHHHHHHHhhcCC-CCCeeeechhhhhhhcccHHH
Confidence            4443  23332 2334433               444455555555555555444331 133333333444444555555


Q ss_pred             HHHHHHHHH
Q 004244          673 AYDLYKKMV  681 (766)
Q Consensus       673 A~~~~~~m~  681 (766)
                      |++.+.++.
T Consensus       606 a~~A~~rll  614 (777)
T KOG1128|consen  606 AIKAYHRLL  614 (777)
T ss_pred             HHHHHHHHH
Confidence            555554443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.49  E-value=5.6e-06  Score=73.37  Aligned_cols=104  Identities=11%  Similarity=0.085  Sum_probs=84.9

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  705 (766)
                      ..+...|++++|...|+.+...  .| +...|..++.++.+.|++++|+..|+++.+.. +.+...+..++.++...|+.
T Consensus        32 ~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~~  108 (144)
T PRK15359         32 YASWQEGDYSRAVIDFSWLVMA--QPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGEP  108 (144)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCH
Confidence            6678899999999999999874  34 78888999999999999999999999998643 34557888888899999999


Q ss_pred             HHHHHHHHHHHHcCCCChHHHHHHHHHHH
Q 004244          706 EELSQVIENILRSCRLSDAELAKVLVEIN  734 (766)
Q Consensus       706 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  734 (766)
                      ++|+..++++++.. |.+...+.....+.
T Consensus       109 ~eAi~~~~~Al~~~-p~~~~~~~~~~~~~  136 (144)
T PRK15359        109 GLAREAFQTAIKMS-YADASWSEIRQNAQ  136 (144)
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            99999999999987 56666665555443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.49  E-value=3.4e-05  Score=85.84  Aligned_cols=135  Identities=12%  Similarity=0.139  Sum_probs=98.8

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHH
Q 004244          565 FLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFEL  644 (766)
Q Consensus       565 ~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  644 (766)
                      +..+...+..|.....+.|++++|..+++...+  ..||.........              ..+.+.+++++|+..+++
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a--------------~~L~~~~~~eeA~~~~~~  145 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILML--------------RGVKRQQGIEAGRAEIEL  145 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHH--------------HHHHHhccHHHHHHHHHH
Confidence            455677777777777788888888888888776  5676655544432              667778888888888888


Q ss_pred             HHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          645 MLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       645 ~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      .....  | +......+..++.+.|++++|.++|+++...  .|+ ..++..++..+...|+.++|...|+++++..
T Consensus       146 ~l~~~--p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~--~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~  218 (694)
T PRK15179        146 YFSGG--SSSAREILLEAKSWDEIGQSEQADACFERLSRQ--HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI  218 (694)
T ss_pred             HhhcC--CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            87743  4 5666677777778888888888888888762  344 4677777888888888888888888887764

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.47  E-value=4.4e-05  Score=71.25  Aligned_cols=160  Identities=16%  Similarity=0.082  Sum_probs=106.2

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchh
Q 004244          538 TTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNI  617 (766)
Q Consensus       538 ~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~  617 (766)
                      ..+-..+.-.|+-+.+..+....... .+.|......++....+.|++.+|...+.+.... -++|...|+.+.      
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lg------  141 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLG------  141 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHH------
Confidence            44555666667777666666664432 2445555556777777777777777777777653 455666666666      


Q ss_pred             hhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004244          618 EFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLV  696 (766)
Q Consensus       618 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~  696 (766)
                               -+|.+.|+.++|..-|.+..+.  .| ++..++.+...+.-.|+.+.|..++.+....+ .-|..+-..+.
T Consensus       142 ---------aaldq~Gr~~~Ar~ay~qAl~L--~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLA  209 (257)
T COG5010         142 ---------AALDQLGRFDEARRAYRQALEL--APNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLA  209 (257)
T ss_pred             ---------HHHHHccChhHHHHHHHHHHHh--ccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHH
Confidence                     6777777777777777777763  34 56667777777777778888877777776543 23445555666


Q ss_pred             HHHHhcCChHHHHHHHHHHHH
Q 004244          697 KALHTAGMNEELSQVIENILR  717 (766)
Q Consensus       697 ~~~~~~g~~~~A~~~~~~~~~  717 (766)
                      ......|++++|..+..+-+.
T Consensus       210 l~~~~~g~~~~A~~i~~~e~~  230 (257)
T COG5010         210 LVVGLQGDFREAEDIAVQELL  230 (257)
T ss_pred             HHHhhcCChHHHHhhcccccc
Confidence            677777777777777655443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.46  E-value=3.7e-06  Score=74.51  Aligned_cols=111  Identities=11%  Similarity=-0.057  Sum_probs=93.8

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 004244          639 DRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       639 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      ..++++.++  ..|+.  +..++..+.+.|++++|.+.|++++... +.+...|..++.++...|++++|...++++++.
T Consensus        13 ~~~~~~al~--~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         13 EDILKQLLS--VDPET--VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHHH--cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            345666666  33543  5567888999999999999999998543 345588889999999999999999999999999


Q ss_pred             CCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          719 CRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       719 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      + |.+...+..++.++...|+.++|.+.+++..+...
T Consensus        88 ~-p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p  123 (144)
T PRK15359         88 D-ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSY  123 (144)
T ss_pred             C-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            8 67888999999999999999999999999887654

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.44  E-value=4.2e-05  Score=71.38  Aligned_cols=157  Identities=13%  Similarity=0.089  Sum_probs=127.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC
Q 004244          573 SVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP  652 (766)
Q Consensus       573 ~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  652 (766)
                      ..+...+...|+-+.+..+..+.... ...|........               ....+.|++.+|+..+++..... ++
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~g---------------k~~~~~g~~~~A~~~~rkA~~l~-p~  132 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQG---------------KNQIRNGNFGEAVSVLRKAARLA-PT  132 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHH---------------HHHHHhcchHHHHHHHHHHhccC-CC
Confidence            55677778889888888888776542 222333333344               77889999999999999999842 34


Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVE  732 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  732 (766)
                      |..+|+.+.-+|.+.|+.++|..-|.+..+.. .-++...+.++-.+.-.|+.+.|..++....... +.+..+-..|+.
T Consensus       133 d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl  210 (257)
T COG5010         133 DWEAWNLLGAALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLAL  210 (257)
T ss_pred             ChhhhhHHHHHHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHH
Confidence            89999999999999999999999999998642 2344778889999999999999999999999876 667778888999


Q ss_pred             HHhcCCChhHHHHHHH
Q 004244          733 INHKEGNMDAVLNVLT  748 (766)
Q Consensus       733 ~~~~~g~~~~A~~~~~  748 (766)
                      .....|++++|.++..
T Consensus       211 ~~~~~g~~~~A~~i~~  226 (257)
T COG5010         211 VVGLQGDFREAEDIAV  226 (257)
T ss_pred             HHhhcCChHHHHhhcc
Confidence            9999999999988754

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.43  E-value=3e-05  Score=86.35  Aligned_cols=122  Identities=12%  Similarity=0.129  Sum_probs=108.0

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCC
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGM  704 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~  704 (766)
                      ......|++++|..+++.+.+.  .| +......++..+.+.+++++|+..+++.+..  .|+. .....++.++.+.|+
T Consensus        94 ~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~~a~~l~~~g~  169 (694)
T PRK15179         94 RALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILLEAKSWDEIGQ  169 (694)
T ss_pred             HHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHhcc
Confidence            7888999999999999999984  56 5677788899999999999999999999954  5665 667788899999999


Q ss_pred             hHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHC
Q 004244          705 NEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKD  753 (766)
Q Consensus       705 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  753 (766)
                      +++|..+|++++..+ +.+...+..++..+.+.|+.++|...|++..+.
T Consensus       170 ~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        170 SEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             hHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999965 677888999999999999999999999987654

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.42  E-value=3.3e-05  Score=75.66  Aligned_cols=194  Identities=15%  Similarity=0.098  Sum_probs=121.7

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH---
Q 004244          497 PDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDE---FTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVV---  570 (766)
Q Consensus       497 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~---  570 (766)
                      .....+..+...+...|++++|...++++.... +.+.   ..+..+..++.+.|++++|...++++.+.. +.+..   
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~  108 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH-PNHPDADY  108 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCchHH
Confidence            356678888889999999999999999998763 2222   466788899999999999999999999762 11221   


Q ss_pred             HHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCC
Q 004244          571 TYSVLINGLNKQ-ARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRN  649 (766)
Q Consensus       571 ~~~~li~~~~~~-g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (766)
                      ++..+..++.+. +....-..-+++.        ...+..++               ..+-......++......+... 
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A--------~~~~~~~~---------------~~~p~~~~~~~a~~~~~~~~~~-  164 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREA--------FEAFQELI---------------RRYPNSEYAPDAKKRMDYLRNR-  164 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHH--------HHHHHHHH---------------HHCCCChhHHHHHHHHHHHHHH-
Confidence            333333333222 0000000001111        11222222               3333333333333333332210 


Q ss_pred             CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCC-CC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          650 HMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGF-VP-HTVTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       650 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                         -......+...+.+.|++++|+..++++++... .| ....+..++.++.+.|+.++|..+++.+....
T Consensus       165 ---~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       165 ---LAGKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             ---HHHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence               011223567789999999999999999986421 12 24678899999999999999999988887654

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).

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.40  E-value=0.0067  Score=66.44  Aligned_cols=223  Identities=12%  Similarity=0.124  Sum_probs=144.2

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHH--HcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCh
Q 004244          158 HLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVI--RSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDL  235 (766)
Q Consensus       158 ~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~--~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  235 (766)
                      ..+++.+|+.-...+.+.  .|+. .|..++.++.  |.|+.   ++|..+++.....+.. |..|...+-.+|...++.
T Consensus        21 d~~qfkkal~~~~kllkk--~Pn~-~~a~vLkaLsl~r~gk~---~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~   93 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKK--HPNA-LYAKVLKALSLFRLGKG---DEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKL   93 (932)
T ss_pred             hhHHHHHHHHHHHHHHHH--CCCc-HHHHHHHHHHHHHhcCc---hhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhh
Confidence            346788888888876653  2433 3444555544  55643   8899888887766544 888999999999999999


Q ss_pred             hhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcC-C---------h
Q 004244          236 EMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEG-R---------L  305 (766)
Q Consensus       236 ~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g-~---------~  305 (766)
                      ++|..++++..+.  .|+......+..+|.+.+++.+-.+.-=+|-+. .+-+...+=++++.+...- .         .
T Consensus        94 d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l  170 (932)
T KOG2053|consen   94 DEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILL  170 (932)
T ss_pred             hHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhH
Confidence            9999999999886  467777777888888888776544443333322 1223333334444443321 1         2


Q ss_pred             hHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHH-HHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHH
Q 004244          306 KETKGILNEISRKG-LVPDEVTYNTLLNGYCKEGNLHQALVLHA-EMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFD  383 (766)
Q Consensus       306 ~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~-~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  383 (766)
                      .-|.+.++.+.+.+ .--+..-...-...+...|++++|.+++. ...+.-...+...-+.-+..+...+++.+..++-.
T Consensus       171 ~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~  250 (932)
T KOG2053|consen  171 ALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSS  250 (932)
T ss_pred             HHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHH
Confidence            23556666666543 22222223333445567888999998884 33333333355555667788888899999999888


Q ss_pred             HHHHCCC
Q 004244          384 QMHVREL  390 (766)
Q Consensus       384 ~m~~~~~  390 (766)
                      ++...|.
T Consensus       251 ~Ll~k~~  257 (932)
T KOG2053|consen  251 RLLEKGN  257 (932)
T ss_pred             HHHHhCC
Confidence            8888753

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.39  E-value=4e-05  Score=71.97  Aligned_cols=121  Identities=9%  Similarity=0.066  Sum_probs=74.1

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHH-HhcCC--hHH
Q 004244          632 KGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVP-HTVTIIVLVKAL-HTAGM--NEE  707 (766)
Q Consensus       632 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~l~~~~-~~~g~--~~~  707 (766)
                      .++.++++..+++.++.. +.|...|..++..|...|++++|+..++++.+.  .| +...+..++.++ ...|+  .++
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~  128 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQ  128 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHH
Confidence            455566666666666532 125666666666666777777777777766643  33 335555555553 45555  366


Q ss_pred             HHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCC
Q 004244          708 LSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLL  756 (766)
Q Consensus       708 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  756 (766)
                      |...++++++.+ |.+..++..++..+.+.|++++|...|+++.+....
T Consensus       129 A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~  176 (198)
T PRK10370        129 TREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDLNSP  176 (198)
T ss_pred             HHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            777777777666 455666666666666777777777777666665544

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.35  E-value=0.00014  Score=67.25  Aligned_cols=191  Identities=18%  Similarity=0.149  Sum_probs=138.8

Q ss_pred             HhcCCHHHHHHHHHHHHHC---C-CCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004244          510 CEQRRITEACELFQEMLSR---G-MSPDEF-TYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQAR  584 (766)
Q Consensus       510 ~~~g~~~~A~~~~~~m~~~---~-~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~  584 (766)
                      +...+.++..+++.++...   | ..++.. .|..+.-+....|+.+.|...++.+.+. ++-+...-..-.-.+-..|+
T Consensus        23 ~~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~  101 (289)
T KOG3060|consen   23 ETVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGN  101 (289)
T ss_pred             ccccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhc
Confidence            4457889999999988753   3 444543 4566666777889999999999998876 43333333222333556899


Q ss_pred             HHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004244          585 TMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGH  664 (766)
Q Consensus       585 ~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~  664 (766)
                      +++|.++++..++.. +.|.+++..-+               ...-..|+--+|++.+....+. +.-|...|.-+...|
T Consensus       102 ~~~A~e~y~~lL~dd-pt~~v~~KRKl---------------Ailka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY  164 (289)
T KOG3060|consen  102 YKEAIEYYESLLEDD-PTDTVIRKRKL---------------AILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIY  164 (289)
T ss_pred             hhhHHHHHHHHhccC-cchhHHHHHHH---------------HHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHH
Confidence            999999999998864 44555555444               4556678888898888888775 445899999999999


Q ss_pred             hccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcC---ChHHHHHHHHHHHHcCC
Q 004244          665 SKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAG---MNEELSQVIENILRSCR  720 (766)
Q Consensus       665 ~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~  720 (766)
                      ...|++++|.-.+++++-  ..|.. ..+..+...++-.|   +.+-|.++|+++++..+
T Consensus       165 ~~~~~f~kA~fClEE~ll--~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~  222 (289)
T KOG3060|consen  165 LSEGDFEKAAFCLEELLL--IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNP  222 (289)
T ss_pred             HhHhHHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCh
Confidence            999999999999999883  35554 44557777776554   56778999999998873

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.30  E-value=0.00038  Score=78.42  Aligned_cols=236  Identities=12%  Similarity=0.125  Sum_probs=138.7

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004244          393 NEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSI-VTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTII  471 (766)
Q Consensus       393 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  471 (766)
                      +...+..|+..+...+++++|.++.+...+.  .|+. ..|..+...+.+.++.+++..+                 .++
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l   90 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL-----------------NLI   90 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh-----------------hhh
Confidence            4666777777777777788887777766654  2332 2233333345555554444333                 233


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChH
Q 004244          472 SGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIP  551 (766)
Q Consensus       472 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  551 (766)
                      +......++.-...+...|.+.+  -+...+..+..+|-+.|+.++|..+|+++++.. +-|..+.|.+.-.|+.. +.+
T Consensus        91 ~~~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~  166 (906)
T PRK14720         91 DSFSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKE  166 (906)
T ss_pred             hhcccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHH
Confidence            33334444433444444444432  234466677777777788888888888877776 55677777777777777 777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhh
Q 004244          552 QALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCM  631 (766)
Q Consensus       552 ~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~  631 (766)
                      +|.+++.+.+..               +...+++.++.+++.++...  .|+.+.+                        
T Consensus       167 KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~--~~~d~d~------------------------  205 (906)
T PRK14720        167 KAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHY--NSDDFDF------------------------  205 (906)
T ss_pred             HHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhc--CcccchH------------------------
Confidence            777777776543               45566777777777777663  3333222                        


Q ss_pred             cCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHH
Q 004244          632 KGLMNEADRVFELMLQR-NHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIVLVKALH  700 (766)
Q Consensus       632 ~g~~~~A~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~  700 (766)
                            -..+.+++... |..--..++..+-..|-+.++|++++++++.+++.  .|+ ......++..|.
T Consensus       206 ------f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~--~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        206 ------FLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEH--DNKNNKAREELIRFYK  268 (906)
T ss_pred             ------HHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhc--CCcchhhHHHHHHHHH
Confidence                  12222222221 11123445555666677778888888888888854  343 345555665554

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.30  E-value=1.4e-05  Score=70.52  Aligned_cols=111  Identities=11%  Similarity=-0.048  Sum_probs=77.1

Q ss_pred             HHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          641 VFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       641 ~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      .++++.+.  .| +......++..+.+.|++++|.+.++++...+ +.+...+..++..+...|++++|..+++++++.+
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~   81 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD   81 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            34444442  34 44555666777777888888888887777543 3345667777777777888888888888877776


Q ss_pred             CCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          720 RLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       720 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                       +.+...+..++.++...|++++|.+.+++..+.+.
T Consensus        82 -p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  116 (135)
T TIGR02552        82 -PDDPRPYFHAAECLLALGEPESALKALDLAIEICG  116 (135)
T ss_pred             -CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence             55566677777888888888888888877776653

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.26  E-value=0.00071  Score=63.29  Aligned_cols=255  Identities=15%  Similarity=0.108  Sum_probs=145.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 004244          437 KGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRIT  516 (766)
Q Consensus       437 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  516 (766)
                      +-+.-.|++..++..-.......  -+...-.-+..+|...|++.....   ++.. |-.|.......+.......++.+
T Consensus        16 Rn~fY~Gnyq~~ine~~~~~~~~--~~~e~d~y~~raylAlg~~~~~~~---eI~~-~~~~~lqAvr~~a~~~~~e~~~~   89 (299)
T KOG3081|consen   16 RNYFYLGNYQQCINEAEKFSSSK--TDVELDVYMYRAYLALGQYQIVIS---EIKE-GKATPLQAVRLLAEYLELESNKK   89 (299)
T ss_pred             HHHHHhhHHHHHHHHHHhhcccc--chhHHHHHHHHHHHHccccccccc---cccc-ccCChHHHHHHHHHHhhCcchhH
Confidence            34445577777766554443321  233444445566666666544332   2222 22344444544444444445544


Q ss_pred             HHHH-HHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004244          517 EACE-LFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKL  595 (766)
Q Consensus       517 ~A~~-~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~  595 (766)
                      .-.. +.+.+.......+......-...|++.|++++|++......    ..+....+  +..+.+..+.+-|.+.+++|
T Consensus        90 ~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~----~lE~~Al~--VqI~lk~~r~d~A~~~lk~m  163 (299)
T KOG3081|consen   90 SILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE----NLEAAALN--VQILLKMHRFDLAEKELKKM  163 (299)
T ss_pred             HHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc----hHHHHHHH--HHHHHHHHHHHHHHHHHHHH
Confidence            4443 33444444333333333344456788888888888776622    12333332  44456777888888888888


Q ss_pred             HhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHH
Q 004244          596 FYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYD  675 (766)
Q Consensus       596 ~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  675 (766)
                      ..-   .+..+.+-|..           +.+......+.+.+|.-+|++|.++ .+|+..+.+..+.++...|++++|..
T Consensus       164 q~i---ded~tLtQLA~-----------awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~  228 (299)
T KOG3081|consen  164 QQI---DEDATLTQLAQ-----------AWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAES  228 (299)
T ss_pred             Hcc---chHHHHHHHHH-----------HHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHH
Confidence            652   23334333331           1113344556688888888888765 56788888888888888888888888


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHH-HHHHHHHHcC
Q 004244          676 LYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELS-QVIENILRSC  719 (766)
Q Consensus       676 ~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~-~~~~~~~~~~  719 (766)
                      ++++++.+. ..++.+...++-.-...|...++. +.+.+.....
T Consensus       229 lL~eaL~kd-~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~~  272 (299)
T KOG3081|consen  229 LLEEALDKD-AKDPETLANLIVLALHLGKDAEVTERNLSQLKLSH  272 (299)
T ss_pred             HHHHHHhcc-CCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHhcC
Confidence            888888653 455667766666666666664443 3444444444

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.25  E-value=0.0002  Score=72.83  Aligned_cols=185  Identities=17%  Similarity=0.128  Sum_probs=110.1

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004244          496 LPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVL  575 (766)
Q Consensus       496 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l  575 (766)
                      .|+...+...+.+.........+..++.+-.+.  .-...-|. ..-.+...|++++|+..++.++.. .+.|+..+...
T Consensus       271 ~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~--~~~aa~YG-~A~~~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~  346 (484)
T COG4783         271 SPDFQLARARIRAKYEALPNQQAADLLAKRSKR--GGLAAQYG-RALQTYLAGQYDEALKLLQPLIAA-QPDNPYYLELA  346 (484)
T ss_pred             CccHHHHHHHHHHHhccccccchHHHHHHHhCc--cchHHHHH-HHHHHHHhcccchHHHHHHHHHHh-CCCCHHHHHHH
Confidence            345555555565544443333333333332221  11122232 233345667778888888777765 34455555566


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHH
Q 004244          576 INGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEA  655 (766)
Q Consensus       576 i~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  655 (766)
                      .+.+.+.++..+|.+.+++++.  ..|+........+              .+|.+.|++.+|+.+++...... +.|+.
T Consensus       347 ~~i~~~~nk~~~A~e~~~kal~--l~P~~~~l~~~~a--------------~all~~g~~~eai~~L~~~~~~~-p~dp~  409 (484)
T COG4783         347 GDILLEANKAKEAIERLKKALA--LDPNSPLLQLNLA--------------QALLKGGKPQEAIRILNRYLFND-PEDPN  409 (484)
T ss_pred             HHHHHHcCChHHHHHHHHHHHh--cCCCccHHHHHHH--------------HHHHhcCChHHHHHHHHHHhhcC-CCCch
Confidence            6777777888888888877776  3455322222222              67777778888777777776542 23677


Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          656 VYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       656 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      .|..|..+|...|+..+|.....+                  .+.-.|++++|+..+..+.+..
T Consensus       410 ~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A~~~l~~A~~~~  455 (484)
T COG4783         410 GWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQAIIFLMRASQQV  455 (484)
T ss_pred             HHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHHHHHHHHHHHhc
Confidence            777777777777777776655444                  3345677777777777777663

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.23  E-value=0.00092  Score=62.06  Aligned_cols=189  Identities=15%  Similarity=0.170  Sum_probs=146.0

Q ss_pred             HccCCHHHHHHHHHHHHHC---C-CCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004244          475 SRSQELDKAFDTKREMVEK---G-VLPDTIT-YSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGD  549 (766)
Q Consensus       475 ~~~g~~~~A~~~~~~m~~~---~-~~p~~~~-~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~  549 (766)
                      +...+.++..+++.++...   | ..++..+ |..++-+....|+.+.|...++.+...- +.+..+-..-...+-..|.
T Consensus        23 ~~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~  101 (289)
T KOG3060|consen   23 ETVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGN  101 (289)
T ss_pred             ccccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhc
Confidence            4567789999999988753   4 4455544 4455667778899999999999998873 3333332222333456799


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhh
Q 004244          550 IPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGF  629 (766)
Q Consensus       550 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~  629 (766)
                      +++|.++++.+++.+ +.|.+++-.=+...-..|+.-+|++-+.+.++. +..|...|.-+-               ..|
T Consensus       102 ~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLa---------------eiY  164 (289)
T KOG3060|consen  102 YKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELA---------------EIY  164 (289)
T ss_pred             hhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHH---------------HHH
Confidence            999999999999874 667788887777777889999999999999886 777888998888               899


Q ss_pred             hhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccC---ChHHHHHHHHHHHHc
Q 004244          630 CMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVG---NVQKAYDLYKKMVRS  683 (766)
Q Consensus       630 ~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g---~~~~A~~~~~~m~~~  683 (766)
                      ...|++++|.-.++++.-  +.| ++..+..+.+.+.-.|   +.+-|.++|.+.++.
T Consensus       165 ~~~~~f~kA~fClEE~ll--~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  165 LSEGDFEKAAFCLEELLL--IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HhHhHHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            999999999999999997  446 6666777777776555   467789999998854

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.22  E-value=0.0017  Score=60.90  Aligned_cols=251  Identities=14%  Similarity=0.154  Sum_probs=144.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhc
Q 004244          153 VKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGV  232 (766)
Q Consensus       153 ~~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  232 (766)
                      |+-|.-.|.+..++..-.......  -++..---+-++|...|..      ..+..++.... .|.......+...+...
T Consensus        15 iRn~fY~Gnyq~~ine~~~~~~~~--~~~e~d~y~~raylAlg~~------~~~~~eI~~~~-~~~lqAvr~~a~~~~~e   85 (299)
T KOG3081|consen   15 IRNYFYLGNYQQCINEAEKFSSSK--TDVELDVYMYRAYLALGQY------QIVISEIKEGK-ATPLQAVRLLAEYLELE   85 (299)
T ss_pred             HHHHHHhhHHHHHHHHHHhhcccc--chhHHHHHHHHHHHHcccc------ccccccccccc-CChHHHHHHHHHHhhCc
Confidence            566666777777776555433221  1222222233444444432      23333444332 44444444444444444


Q ss_pred             CChhhHH-HHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHH
Q 004244          233 GDLEMGL-RFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGI  311 (766)
Q Consensus       233 g~~~~A~-~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  311 (766)
                      ++.+.-. ++.+.+.......+......-...|+..|++++|++......      +......=+..+.+..+.+-|.+.
T Consensus        86 ~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~  159 (299)
T KOG3081|consen   86 SNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKE  159 (299)
T ss_pred             chhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5544433 344445444333343333444456778888888888877621      233333334556677888888888


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004244          312 LNEISRKGLVPDEVTYNTLLNGYCK----EGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHV  387 (766)
Q Consensus       312 ~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  387 (766)
                      +++|.+.   -+..|.+.|..++.+    .+.+.+|.-+|++|.+. .+|+..+.+....++...|++++|..++++...
T Consensus       160 lk~mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~  235 (299)
T KOG3081|consen  160 LKKMQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALD  235 (299)
T ss_pred             HHHHHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHh
Confidence            8888873   245566656555543    45677888888888764 567888888888888888888888888888887


Q ss_pred             CCCCCCHhHHHHHHHHHHhcCCH-HHHHHHHHHHHHC
Q 004244          388 RELRPNEKTYTTLINGFSQHGFL-DEAYRLLNEMTKN  423 (766)
Q Consensus       388 ~~~~~~~~~~~~li~~~~~~g~~-~~A~~l~~~m~~~  423 (766)
                      +... +..+...++-.-...|.. +...+.+.++...
T Consensus       236 kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  236 KDAK-DPETLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             ccCC-CHHHHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            7443 455554444444444443 4445555665554

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.20  E-value=0.00049  Score=70.09  Aligned_cols=139  Identities=16%  Similarity=0.162  Sum_probs=92.5

Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChH
Q 004244          473 GFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPD-EFTYTTLINAYCTEGDIP  551 (766)
Q Consensus       473 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~  551 (766)
                      .+...|++++|+..++.++..- +-|+..+....+.+...++.++|.+.++.+...  .|+ ....-.+.++|.+.|+.+
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChH
Confidence            3455667777777777766542 225555566666777777777777777777765  333 445556677777777777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhh
Q 004244          552 QALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCM  631 (766)
Q Consensus       552 ~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~  631 (766)
                      +|+++++..... .+.|...|..|..+|...|+..+|.....                                 ..|..
T Consensus       392 eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~A---------------------------------E~~~~  437 (484)
T COG4783         392 EAIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLARA---------------------------------EGYAL  437 (484)
T ss_pred             HHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHHH---------------------------------HHHHh
Confidence            777777777654 46677777777777777777777665443                                 34555


Q ss_pred             cCCHHHHHHHHHHHHhC
Q 004244          632 KGLMNEADRVFELMLQR  648 (766)
Q Consensus       632 ~g~~~~A~~~~~~~~~~  648 (766)
                      .|+++.|+..+....+.
T Consensus       438 ~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         438 AGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             CCCHHHHHHHHHHHHHh
Confidence            67777777777776654

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.20  E-value=0.00063  Score=76.70  Aligned_cols=239  Identities=11%  Similarity=0.093  Sum_probs=142.7

Q ss_pred             CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCH-HHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHH
Q 004244          216 SPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANV-VTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNV  294 (766)
Q Consensus       216 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~  294 (766)
                      +.+...+..|+..+...+++++|.++.+...+.  .|+. ..|-.+...+.+.++.+++..+  .+              
T Consensus        28 p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~--------------   89 (906)
T PRK14720         28 LSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NL--------------   89 (906)
T ss_pred             cchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hh--------------
Confidence            345777888888888999999999999877665  3443 3333333466666766555544  22              


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCC
Q 004244          295 IINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGN  374 (766)
Q Consensus       295 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  374 (766)
                       +..+....++.-...+...|...+  -+...+..+..+|-+.|+.++|..+++++++.. +-|+.+.|.+...|... +
T Consensus        90 -l~~~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-d  164 (906)
T PRK14720         90 -IDSFSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-D  164 (906)
T ss_pred             -hhhcccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-h
Confidence             222223333333333333444422  244577778888889999999999999998876 44788888888888888 8


Q ss_pred             HHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004244          375 LNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHG  454 (766)
Q Consensus       375 ~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~  454 (766)
                      +++|.+++.+....               +...+++.++.+++.++..... .+...+                ..+.+.
T Consensus       165 L~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~-~d~d~f----------------~~i~~k  212 (906)
T PRK14720        165 KEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNS-DDFDFF----------------LRIERK  212 (906)
T ss_pred             HHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCc-ccchHH----------------HHHHHH
Confidence            99998888887654               5555566667777766666421 111111                112222


Q ss_pred             HHHC-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004244          455 MARK-GLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLC  510 (766)
Q Consensus       455 ~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  510 (766)
                      +... |..--+.++-.+...|...+++++++.+++.+.+.... |......++.+|.
T Consensus       213 i~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        213 VLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             HHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence            2211 11222334444455555666666666666666655433 4444445555443

>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=98.11  E-value=6.5e-05  Score=77.27  Aligned_cols=122  Identities=16%  Similarity=0.143  Sum_probs=103.9

Q ss_pred             HHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 004244          624 ALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAG  703 (766)
Q Consensus       624 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g  703 (766)
                      .|+..+...++++.|+.+++++.+..  |+.  ...++..+...++-.+|++++++.++.. +-+...+..-+..|.+.+
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence            44577788899999999999999854  554  3457888888899999999999998542 345566667788899999


Q ss_pred             ChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHH
Q 004244          704 MNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMA  751 (766)
Q Consensus       704 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  751 (766)
                      +.+.|..+.+++.+.. |.+...|..|+.+|.+.|++++|+..++.+.
T Consensus       249 ~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  249 KYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999999999997 7889999999999999999999999988776

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=98.08  E-value=0.00019  Score=63.92  Aligned_cols=117  Identities=15%  Similarity=0.148  Sum_probs=91.5

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHhcCCh
Q 004244          631 MKGLMNEADRVFELMLQRNHMPN---EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT--VTIIVLVKALHTAGMN  705 (766)
Q Consensus       631 ~~g~~~~A~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~g~~  705 (766)
                      ..++...+...++.+.+... .+   ....-.+...+...|++++|.+.|+........|+.  .....++..+...|++
T Consensus        23 ~~~~~~~~~~~~~~l~~~~~-~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~  101 (145)
T PF09976_consen   23 QAGDPAKAEAAAEQLAKDYP-SSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQY  101 (145)
T ss_pred             HCCCHHHHHHHHHHHHHHCC-CChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCH
Confidence            48899999999999987532 13   334455778889999999999999999976522322  3455688999999999


Q ss_pred             HHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHH
Q 004244          706 EELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEM  750 (766)
Q Consensus       706 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  750 (766)
                      ++|...++.....  +.....+..++++|.+.|++++|...|++.
T Consensus       102 d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  102 DEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            9999999774332  345667888999999999999999999864

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=98.04  E-value=0.0001  Score=72.63  Aligned_cols=127  Identities=13%  Similarity=0.073  Sum_probs=94.9

Q ss_pred             hhhhhcCCHHHHHHHHHHHH----hCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHH----HcCCC-CCHHHHHHHH
Q 004244          627 KGFCMKGLMNEADRVFELML----QRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMV----RSGFV-PHTVTIIVLV  696 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~----~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~----~~~~~-p~~~~~~~l~  696 (766)
                      ..|.-.|+++.|+..-+.=+    +.|-.. ....+..+..++.-.|+++.|.+.|+...    +.|-+ ....++..|.
T Consensus       203 NTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLg  282 (639)
T KOG1130|consen  203 NTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLG  282 (639)
T ss_pred             ceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhh
Confidence            67778899999988765322    444322 34567889999999999999999998854    22311 2235566788


Q ss_pred             HHHHhcCChHHHHHHHHHHHHc-----CCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHC
Q 004244          697 KALHTAGMNEELSQVIENILRS-----CRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKD  753 (766)
Q Consensus       697 ~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  753 (766)
                      .+|.-..++++|+.++.+-+..     +.......++.|+.++-..|..++|+.+.+.-+..
T Consensus       283 Ntytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~  344 (639)
T KOG1130|consen  283 NTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRS  344 (639)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            9999999999999999986644     33446778889999999999999999887665443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.98  E-value=0.00042  Score=68.68  Aligned_cols=280  Identities=12%  Similarity=0.000  Sum_probs=151.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 004244          437 KGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRIT  516 (766)
Q Consensus       437 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  516 (766)
                      ..+.+..++..|+..+...++..+. ++.-|..-...+...+++++|.--.+.-.+.... ........-+++...++..
T Consensus        57 n~~yk~k~Y~nal~~yt~Ai~~~pd-~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~-~~k~~~r~~~c~~a~~~~i  134 (486)
T KOG0550|consen   57 NAFYKQKTYGNALKNYTFAIDMCPD-NASYYSNRAATLMMLGRFEEALGDARQSVRLKDG-FSKGQLREGQCHLALSDLI  134 (486)
T ss_pred             chHHHHhhHHHHHHHHHHHHHhCcc-chhhhchhHHHHHHHHhHhhcccchhhheecCCC-ccccccchhhhhhhhHHHH
Confidence            4555666666666666666665443 3455555555566666666665554443332111 1122333333444444444


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCCHHHHHHH-HHHHHhcCCHHHHHHHHHH
Q 004244          517 EACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGF-LPDVVTYSVL-INGLNKQARTMEAKKLLLK  594 (766)
Q Consensus       517 ~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~-~p~~~~~~~l-i~~~~~~g~~~~A~~l~~~  594 (766)
                      +|.+.++.-         ..+           ....|+..++....... +|.-.+|..+ ..++...|++++|...-..
T Consensus       135 ~A~~~~~~~---------~~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~  194 (486)
T KOG0550|consen  135 EAEEKLKSK---------QAY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAID  194 (486)
T ss_pred             HHHHHhhhh---------hhh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHH
Confidence            444444411         000           11112222222222111 2434444433 3445667777777777666


Q ss_pred             HHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHH-------------HHHHH
Q 004244          595 LFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAV-------------YDIII  661 (766)
Q Consensus       595 ~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~-------------~~~l~  661 (766)
                      .++.  .+...- ...+.+             .++.-.++.+.|...|++.+..+  |+...             +..=+
T Consensus       195 ilkl--d~~n~~-al~vrg-------------~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~g  256 (486)
T KOG0550|consen  195 ILKL--DATNAE-ALYVRG-------------LCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERG  256 (486)
T ss_pred             HHhc--ccchhH-HHHhcc-------------cccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhh
Confidence            6552  222211 111110             33445677778888887777643  43221             11122


Q ss_pred             HHHhccCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhc
Q 004244          662 HGHSKVGNVQKAYDLYKKMVRSGFVPHT-----VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHK  736 (766)
Q Consensus       662 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  736 (766)
                      .-..+.|++.+|.+.|.+.+  ++.|+.     ..|.....+..+.|+.++|+.--+++++.+ +.-...+..-+.++..
T Consensus       257 N~~fk~G~y~~A~E~Yteal--~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD-~syikall~ra~c~l~  333 (486)
T KOG0550|consen  257 NDAFKNGNYRKAYECYTEAL--NIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID-SSYIKALLRRANCHLA  333 (486)
T ss_pred             hhHhhccchhHHHHHHHHhh--cCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC-HHHHHHHHHHHHHHHH
Confidence            33557788888888888887  444443     445555566667788888888888888776 4445666667777778


Q ss_pred             CCChhHHHHHHHHHHHCCCCCCC
Q 004244          737 EGNMDAVLNVLTEMAKDGLLPNS  759 (766)
Q Consensus       737 ~g~~~~A~~~~~~m~~~~~~~~~  759 (766)
                      .++|++|++.++...+....+..
T Consensus       334 le~~e~AV~d~~~a~q~~~s~e~  356 (486)
T KOG0550|consen  334 LEKWEEAVEDYEKAMQLEKDCEI  356 (486)
T ss_pred             HHHHHHHHHHHHHHHhhccccch
Confidence            88888888888877666554443

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.97  E-value=0.00032  Score=62.47  Aligned_cols=119  Identities=15%  Similarity=0.101  Sum_probs=71.5

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCcH-HhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCC--HHHH
Q 004244          581 KQARTMEAKKLLLKLFYDESVPSD-VIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPN--EAVY  657 (766)
Q Consensus       581 ~~g~~~~A~~l~~~~~~~~~~p~~-~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~  657 (766)
                      ..++...+...++.+....  |+. ......+            .+...+...|++++|...|+.+.+....|+  ....
T Consensus        23 ~~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l------------~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~   88 (145)
T PF09976_consen   23 QAGDPAKAEAAAEQLAKDY--PSSPYAALAAL------------QLAKAAYEQGDYDEAKAALEKALANAPDPELKPLAR   88 (145)
T ss_pred             HCCCHHHHHHHHHHHHHHC--CCChHHHHHHH------------HHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHH
Confidence            4666677777677776642  222 2111111            122566777777777777777776542222  2234


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 004244          658 DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENI  715 (766)
Q Consensus       658 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  715 (766)
                      ..+...+...|++++|+..++.....  ......+...+..+...|+.++|+..|+++
T Consensus        89 l~LA~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   89 LRLARILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            45667777788888888877664322  223345556777777888888888877765

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.95  E-value=2.2e-05  Score=62.27  Aligned_cols=81  Identities=20%  Similarity=0.325  Sum_probs=47.1

Q ss_pred             cCChHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHH
Q 004244          667 VGNVQKAYDLYKKMVRSGF-VPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLN  745 (766)
Q Consensus       667 ~g~~~~A~~~~~~m~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  745 (766)
                      .|++++|+.+++++.+... .++...+..++.++.+.|++++|+.++++ .+.+ +.+......++.++.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            4666777777777664421 12334455566777777777777777766 4333 2334444455677777777777777


Q ss_pred             HHHH
Q 004244          746 VLTE  749 (766)
Q Consensus       746 ~~~~  749 (766)
                      .+++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6654

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.93  E-value=1.2e-05  Score=51.42  Aligned_cols=30  Identities=57%  Similarity=1.084  Sum_probs=11.1

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhCCCC
Q 004244          257 YNTLIDGYCKLGRIDDAFKLLRDMGLKGIE  286 (766)
Q Consensus       257 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~  286 (766)
                      ||++|.+|++.|++++|.++|++|...|+.
T Consensus         3 ~n~li~~~~~~~~~~~a~~~~~~M~~~g~~   32 (35)
T TIGR00756         3 YNTLIDGLCKAGRVEEALELFKEMLERGIE   32 (35)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCC
Confidence            333333333333333333333333333333

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.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.92  E-value=0.00019  Score=68.52  Aligned_cols=103  Identities=17%  Similarity=0.089  Sum_probs=85.5

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCC
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGM  704 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~  704 (766)
                      .-..+.+++++|+..|.++++  +.| |++.|..=..+|++.|.++.|++-.+..+.  +.|.. .+|..|..++...|+
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~~~~gk  164 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGK  164 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCc
Confidence            456688999999999999999  456 777788888999999999999999999883  45654 789999999999999


Q ss_pred             hHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Q 004244          705 NEELSQVIENILRSCRLSDAELAKVLVEIN  734 (766)
Q Consensus       705 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  734 (766)
                      +++|+..|+++++.+ |.+......|-.+-
T Consensus       165 ~~~A~~aykKaLeld-P~Ne~~K~nL~~Ae  193 (304)
T KOG0553|consen  165 YEEAIEAYKKALELD-PDNESYKSNLKIAE  193 (304)
T ss_pred             HHHHHHHHHhhhccC-CCcHHHHHHHHHHH
Confidence            999999999999998 45455555544433

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.91  E-value=1.3e-05  Score=51.11  Aligned_cols=34  Identities=41%  Similarity=0.722  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCH
Q 004244          221 TYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANV  254 (766)
Q Consensus       221 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~  254 (766)
                      +||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            6888888888888888888888888888888873

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.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.90  E-value=0.00024  Score=61.87  Aligned_cols=89  Identities=9%  Similarity=-0.046  Sum_probs=43.6

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCC
Q 004244          660 IIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEG  738 (766)
Q Consensus       660 l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  738 (766)
                      +...+...|++++|..+|+-+...  .|.. ..|..|+.++...|++++|+..|.++...+ ++++..+.+++.++...|
T Consensus        41 ~A~~ly~~G~l~~A~~~f~~L~~~--Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG  117 (157)
T PRK15363         41 YAMQLMEVKEFAGAARLFQLLTIY--DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACD  117 (157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcC
Confidence            344444555555555555554422  2222 334445555555555555555555555554 344455555555555555


Q ss_pred             ChhHHHHHHHHHH
Q 004244          739 NMDAVLNVLTEMA  751 (766)
Q Consensus       739 ~~~~A~~~~~~m~  751 (766)
                      +.+.|.+.|+...
T Consensus       118 ~~~~A~~aF~~Ai  130 (157)
T PRK15363        118 NVCYAIKALKAVV  130 (157)
T ss_pred             CHHHHHHHHHHHH
Confidence            5555555555443

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.90  E-value=0.00055  Score=60.22  Aligned_cols=93  Identities=13%  Similarity=0.092  Sum_probs=42.7

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004244          468 STIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTE  547 (766)
Q Consensus       468 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  547 (766)
                      ..+...+...|++++|...++.+...+. .+...+..+...+...|++++|...++...+.+ +.+...+..+...+...
T Consensus        21 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~   98 (135)
T TIGR02552        21 YALAYNLYQQGRYDEALKLFQLLAAYDP-YNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLAL   98 (135)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHc
Confidence            3334444444555555555544444321 134444444444444455555555555444432 33334444444444455


Q ss_pred             CChHHHHHHHHHHHH
Q 004244          548 GDIPQALRLHDEMIQ  562 (766)
Q Consensus       548 g~~~~A~~~~~~~~~  562 (766)
                      |++++|...++...+
T Consensus        99 g~~~~A~~~~~~al~  113 (135)
T TIGR02552        99 GEPESALKALDLAIE  113 (135)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555544444

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>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=97.82  E-value=0.00023  Score=57.81  Aligned_cols=95  Identities=18%  Similarity=0.080  Sum_probs=59.2

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhc
Q 004244          657 YDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHK  736 (766)
Q Consensus       657 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  736 (766)
                      +..++..+...|++++|+..++++.+.. +.+...+..++..+...|++++|...++++++.. +.+...+..++..+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            3445556666677777777777666432 2223555566666666677777777777776665 3344556666677777


Q ss_pred             CCChhHHHHHHHHHHHC
Q 004244          737 EGNMDAVLNVLTEMAKD  753 (766)
Q Consensus       737 ~g~~~~A~~~~~~m~~~  753 (766)
                      .|++++|.+.+.+..+.
T Consensus        81 ~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          81 LGKYEEALEAYEKALEL   97 (100)
T ss_pred             HHhHHHHHHHHHHHHcc
Confidence            77777777777666543

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.80  E-value=3.1e-05  Score=48.98  Aligned_cols=28  Identities=36%  Similarity=0.718  Sum_probs=10.4

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhCC
Q 004244          222 YNVLIRGFCGVGDLEMGLRFFSEMEKNN  249 (766)
Q Consensus       222 ~~~li~~~~~~g~~~~A~~~~~~m~~~g  249 (766)
                      |++++.+|++.|+++.|.++|++|.+.|
T Consensus         4 y~~ll~a~~~~g~~~~a~~~~~~M~~~g   31 (34)
T PF13812_consen    4 YNALLRACAKAGDPDAALQLFDEMKEQG   31 (34)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            3333333333333333333333333333

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.79  E-value=3.5e-05  Score=48.78  Aligned_cols=33  Identities=36%  Similarity=0.652  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCC
Q 004244          255 VTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEP  287 (766)
Q Consensus       255 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p  287 (766)
                      .+|+.+|.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            578888888888888888888888888888776

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.75  E-value=0.00042  Score=59.32  Aligned_cols=94  Identities=13%  Similarity=0.141  Sum_probs=47.4

Q ss_pred             HHHhhhhhcCCHHHHHHHHHHHHhCCCC-C-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC----HHHHHHHHH
Q 004244          624 ALLKGFCMKGLMNEADRVFELMLQRNHM-P-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH----TVTIIVLVK  697 (766)
Q Consensus       624 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~-p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~----~~~~~~l~~  697 (766)
                      .+...+...|++++|.+.|+.+.+.... | ....+..++.++.+.|++++|...++++....  |+    ..++..++.
T Consensus         7 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         7 DAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKY--PKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHC--CCCCcccHHHHHHHH
Confidence            3344455556666666666555543211 0 12334445555555566666666655555321  22    234445555


Q ss_pred             HHHhcCChHHHHHHHHHHHHcC
Q 004244          698 ALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       698 ~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      ++.+.|+.++|...++++++..
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHHC
Confidence            5555555555555555555554

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.

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.74  E-value=0.0011  Score=68.38  Aligned_cols=123  Identities=16%  Similarity=0.112  Sum_probs=81.1

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004244          468 STIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTE  547 (766)
Q Consensus       468 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  547 (766)
                      ..|+..+...++++.|+.+++++.+..  |+  ....++..+...++-.+|++++.+.++.. +.+...+..-...+.+.
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            344455555667777777777777653  33  33346666666677777777777777553 44555555556667777


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004244          548 GDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLF  596 (766)
Q Consensus       548 g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~  596 (766)
                      ++++.|+++.+++.+. .+-+..+|..|..+|.+.|++++|+..++.+.
T Consensus       248 ~~~~lAL~iAk~av~l-sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVEL-SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHHh-CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            7778888877777765 23344577777888888888888877777664

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.70  E-value=0.00041  Score=55.83  Aligned_cols=79  Identities=20%  Similarity=0.313  Sum_probs=62.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCC-CCCHhhHHHHHHHHHHcCCCC-----cHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 004244          153 VKSYSHLNMIDKAVNIVNLAKVHGF-MPGVLSYNAILDSVIRSGRNN-----WVKFAEEVYNEMGKSRVSPNVYTYNVLI  226 (766)
Q Consensus       153 ~~~~~~~g~~~~A~~~~~~~~~~g~-~~~~~~~~~ll~~~~~~~~~~-----~~~~a~~~~~~m~~~g~~~~~~~~~~li  226 (766)
                      |..+...+++..-..+|+.+++.|+ .|++.+||.+|.+.++..-..     -+-..+.+|..|...+++|+..||+.++
T Consensus        32 I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl  111 (120)
T PF08579_consen   32 INSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVL  111 (120)
T ss_pred             HHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHH
Confidence            4555566999999999999999999 999999999999998865210     1245777888888888888888888888


Q ss_pred             HHHHh
Q 004244          227 RGFCG  231 (766)
Q Consensus       227 ~~~~~  231 (766)
                      ..+.+
T Consensus       112 ~~Llk  116 (120)
T PF08579_consen  112 GSLLK  116 (120)
T ss_pred             HHHHH
Confidence            77654

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 [, , ].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.69  E-value=0.07  Score=53.08  Aligned_cols=248  Identities=17%  Similarity=0.197  Sum_probs=153.1

Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHH----HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChH
Q 004244          476 RSQELDKAFDTKREMVEKGVLPDTITY----SSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIP  551 (766)
Q Consensus       476 ~~g~~~~A~~~~~~m~~~~~~p~~~~~----~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  551 (766)
                      -.|+++.|.+-|+.|..     |+.+-    ..|.-.-.+.|..+.|.++-++....- +.-.-.+...+...|..|+|+
T Consensus       132 ~eG~~~~Ar~kfeAMl~-----dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd  205 (531)
T COG3898         132 LEGDYEDARKKFEAMLD-----DPETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWD  205 (531)
T ss_pred             hcCchHHHHHHHHHHhc-----ChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChH
Confidence            45677777777777765     23332    222222345677777777777766542 223445667777888888888


Q ss_pred             HHHHHHHHHHHC-CCCCCHHH--HHHHHHHHH---hcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHH
Q 004244          552 QALRLHDEMIQK-GFLPDVVT--YSVLINGLN---KQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAAL  625 (766)
Q Consensus       552 ~A~~~~~~~~~~-g~~p~~~~--~~~li~~~~---~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l  625 (766)
                      .|+++.+.-... -+.++..-  -..|+.+-.   -..+...|...-.+..+  ..||.+--..+-.             
T Consensus       206 ~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AA-------------  270 (531)
T COG3898         206 GALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAA-------------  270 (531)
T ss_pred             HHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHH-------------
Confidence            888888766543 23344322  122222211   12345555555555544  4555443322222             


Q ss_pred             HhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHH-cCCCCCH-HHHHHHHHHHHhcC
Q 004244          626 LKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVR-SGFVPHT-VTIIVLVKALHTAG  703 (766)
Q Consensus       626 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-~~~~p~~-~~~~~l~~~~~~~g  703 (766)
                       ..+.+.|+..++-.+++.+.+..  |.+.++.  +..+.+.|+.  ++.-++++.+ ..++||. ++...+..+....|
T Consensus       271 -ralf~d~~~rKg~~ilE~aWK~e--PHP~ia~--lY~~ar~gdt--a~dRlkRa~~L~slk~nnaes~~~va~aAlda~  343 (531)
T COG3898         271 -RALFRDGNLRKGSKILETAWKAE--PHPDIAL--LYVRARSGDT--ALDRLKRAKKLESLKPNNAESSLAVAEAALDAG  343 (531)
T ss_pred             -HHHHhccchhhhhhHHHHHHhcC--CChHHHH--HHHHhcCCCc--HHHHHHHHHHHHhcCccchHHHHHHHHHHHhcc
Confidence             67889999999999999999854  5555443  3334566654  3333333221 1345665 77778888889999


Q ss_pred             ChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcC-CChhHHHHHHHHHHHC
Q 004244          704 MNEELSQVIENILRSCRLSDAELAKVLVEINHKE-GNMDAVLNVLTEMAKD  753 (766)
Q Consensus       704 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~m~~~  753 (766)
                      ++..|..-.+.+....  +....|..+.++-... |+-.++..++-+.++.
T Consensus       344 e~~~ARa~Aeaa~r~~--pres~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         344 EFSAARAKAEAAAREA--PRESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             chHHHHHHHHHHhhhC--chhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            9999998888887764  5567777788776654 9988888888776654

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.67  E-value=0.12  Score=55.25  Aligned_cols=207  Identities=14%  Similarity=0.086  Sum_probs=115.9

Q ss_pred             CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC-CCCCCHHHHHHH-------HHHHHhcCChHHHHHHHHHHHHCCCCC
Q 004244          286 EPNLISYNVIINGLCKEGRLKETKGILNEISRK-GLVPDEVTYNTL-------LNGYCKEGNLHQALVLHAEMVRNGLSP  357 (766)
Q Consensus       286 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~l-------i~~~~~~g~~~~A~~~~~~~~~~g~~~  357 (766)
                      .|....|..+.......-.++.|...|-+.... |++.-.. ...+       ...-.--|++++|+++|-++-++.   
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkr-l~~i~s~~~q~aei~~~~g~feeaek~yld~drrD---  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKR-LRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRRD---  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHH-hhhhhhHHHHhHhHhhhhcchhHhhhhhhccchhh---
Confidence            366777777776666666666666666554331 2211000 0000       011122477888888887766542   


Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004244          358 NVVTYTSLINSMCKSGNLNRAMEFFDQMHVR-ELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALI  436 (766)
Q Consensus       358 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll  436 (766)
                            .-|..+.+.|++-...++++.--.. .-..-..+|+.+...+.....+++|.+.|..-...         ...+
T Consensus       765 ------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~---------e~~~  829 (1189)
T KOG2041|consen  765 ------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT---------ENQI  829 (1189)
T ss_pred             ------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch---------HhHH
Confidence                  2355666777776666655431111 00112456777777777777788887777653221         2235


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 004244          437 KGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRIT  516 (766)
Q Consensus       437 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  516 (766)
                      .++.+..++++-+.+-..+.     .+....-.+.+++.+.|.-++|.+.+-+-..    |     ...+..|...+++.
T Consensus       830 ecly~le~f~~LE~la~~Lp-----e~s~llp~~a~mf~svGMC~qAV~a~Lr~s~----p-----kaAv~tCv~LnQW~  895 (1189)
T KOG2041|consen  830 ECLYRLELFGELEVLARTLP-----EDSELLPVMADMFTSVGMCDQAVEAYLRRSL----P-----KAAVHTCVELNQWG  895 (1189)
T ss_pred             HHHHHHHhhhhHHHHHHhcC-----cccchHHHHHHHHHhhchHHHHHHHHHhccC----c-----HHHHHHHHHHHHHH
Confidence            55555555555554444333     3455566677788888888887776543221    1     12355677777777


Q ss_pred             HHHHHHHHH
Q 004244          517 EACELFQEM  525 (766)
Q Consensus       517 ~A~~~~~~m  525 (766)
                      +|.++-+..
T Consensus       896 ~avelaq~~  904 (1189)
T KOG2041|consen  896 EAVELAQRF  904 (1189)
T ss_pred             HHHHHHHhc
Confidence            777776654

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.66  E-value=8e-05  Score=59.06  Aligned_cols=81  Identities=22%  Similarity=0.304  Sum_probs=62.4

Q ss_pred             cCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHH
Q 004244          632 KGLMNEADRVFELMLQRNHM-PNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELS  709 (766)
Q Consensus       632 ~g~~~~A~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~  709 (766)
                      .|+++.|+.+++++.+.... |+...+..++.+|.+.|++++|++++++ .  ...|.. .....++.++.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~--~~~~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-L--KLDPSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-H--THHHCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-h--CCCCCCHHHHHHHHHHHHHhCCHHHHH
Confidence            58999999999999975431 2455666689999999999999999998 3  223333 44456689999999999999


Q ss_pred             HHHHHH
Q 004244          710 QVIENI  715 (766)
Q Consensus       710 ~~~~~~  715 (766)
                      +.++++
T Consensus        79 ~~l~~~   84 (84)
T PF12895_consen   79 KALEKA   84 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHhcC
Confidence            999874

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.66  E-value=0.0011  Score=61.03  Aligned_cols=101  Identities=13%  Similarity=0.126  Sum_probs=74.9

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH--TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVL  730 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  730 (766)
                      ....+..++..+...|++++|+..++++++....+.  ...+..++..+...|++++|...++++++.. +.+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            455677788888888999999999998885432222  3567788888889999999999999998876 4556777777


Q ss_pred             HHHHhcCCC--------------hhHHHHHHHHHHHCC
Q 004244          731 VEINHKEGN--------------MDAVLNVLTEMAKDG  754 (766)
Q Consensus       731 ~~~~~~~g~--------------~~~A~~~~~~m~~~~  754 (766)
                      +.++...|+              +++|.+.+++....+
T Consensus       113 g~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~  150 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLA  150 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhC
Confidence            888877776              456666666655543

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.65  E-value=0.031  Score=56.01  Aligned_cols=110  Identities=15%  Similarity=-0.041  Sum_probs=70.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCC-HHH
Q 004244          578 GLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPN-EAV  656 (766)
Q Consensus       578 ~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~  656 (766)
                      -..+.|++.+|.+.+.+.+.  +.|+..--++.+-.          -......+.|+..+|+.-.+...+  ++|. ...
T Consensus       258 ~~fk~G~y~~A~E~Yteal~--idP~n~~~naklY~----------nra~v~~rLgrl~eaisdc~~Al~--iD~syika  323 (486)
T KOG0550|consen  258 DAFKNGNYRKAYECYTEALN--IDPSNKKTNAKLYG----------NRALVNIRLGRLREAISDCNEALK--IDSSYIKA  323 (486)
T ss_pred             hHhhccchhHHHHHHHHhhc--CCccccchhHHHHH----------HhHhhhcccCCchhhhhhhhhhhh--cCHHHHHH
Confidence            34688999999999999987  45554443333310          001456788999999999988887  3331 233


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHh
Q 004244          657 YDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIVLVKALHT  701 (766)
Q Consensus       657 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~  701 (766)
                      |..-..++...++|++|.+-+++..+....+. ..++.....++-+
T Consensus       324 ll~ra~c~l~le~~e~AV~d~~~a~q~~~s~e~r~~l~~A~~aLkk  369 (486)
T KOG0550|consen  324 LLRRANCHLALEKWEEAVEDYEKAMQLEKDCEIRRTLREAQLALKK  369 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHH
Confidence            44445566678999999999999875433322 2444444444443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.63  E-value=0.0012  Score=57.70  Aligned_cols=90  Identities=9%  Similarity=0.020  Sum_probs=78.4

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  705 (766)
                      ..+...|++++|.++|+.+..  +.| +..-|..|+-++-..|++++|++.|.++.... +-|+..+-.++.++...|+.
T Consensus        43 ~~ly~~G~l~~A~~~f~~L~~--~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG~~  119 (157)
T PRK15363         43 MQLMEVKEFAGAARLFQLLTI--YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACDNV  119 (157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCCH
Confidence            567789999999999999998  446 67788899999999999999999999998654 34457788899999999999


Q ss_pred             HHHHHHHHHHHHcC
Q 004244          706 EELSQVIENILRSC  719 (766)
Q Consensus       706 ~~A~~~~~~~~~~~  719 (766)
                      +.|.+.|+.++...
T Consensus       120 ~~A~~aF~~Ai~~~  133 (157)
T PRK15363        120 CYAIKALKAVVRIC  133 (157)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999999874

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.62  E-value=0.0012  Score=68.34  Aligned_cols=102  Identities=16%  Similarity=0.137  Sum_probs=85.3

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCC
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVP-HTVTIIVLVKALHTAGM  704 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~g~  704 (766)
                      ..+...|++++|+..|+++++..  | +...|..+..+|.+.|++++|+..++++++.  .| +...|..++.++...|+
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~--P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLD--PNNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCC
Confidence            56678899999999999999853  4 7888999999999999999999999999964  45 45788889999999999


Q ss_pred             hHHHHHHHHHHHHcCCCChHHHHHHHHHH
Q 004244          705 NEELSQVIENILRSCRLSDAELAKVLVEI  733 (766)
Q Consensus       705 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  733 (766)
                      +++|+..++++++.+ +.+......+..+
T Consensus        86 ~~eA~~~~~~al~l~-P~~~~~~~~l~~~  113 (356)
T PLN03088         86 YQTAKAALEKGASLA-PGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            999999999999998 4555554444433

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.61  E-value=0.056  Score=57.58  Aligned_cols=202  Identities=11%  Similarity=0.093  Sum_probs=121.6

Q ss_pred             CcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhC-CCCC--------CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCC
Q 004244          251 LANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLK-GIEP--------NLISYNVIINGLCKEGRLKETKGILNEISRKGLV  321 (766)
Q Consensus       251 ~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-g~~p--------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  321 (766)
                      .|....|..+.......-.++.|+..|-+...- |++.        +...-.+-|.+|  -|++++|.+++-+|-+..  
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drrD--  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRRD--  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchhh--
Confidence            477788888887777777777777777655331 2210        111112223333  488999999988876643  


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC----hHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHH
Q 004244          322 PDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPN----VVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTY  397 (766)
Q Consensus       322 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  397 (766)
                             ..|..+.+.|++-...++++.   .|-..|    ...|+.+...+.....+++|.+.|..-...         
T Consensus       765 -------LAielr~klgDwfrV~qL~r~---g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~---------  825 (1189)
T KOG2041|consen  765 -------LAIELRKKLGDWFRVYQLIRN---GGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT---------  825 (1189)
T ss_pred             -------hhHHHHHhhhhHHHHHHHHHc---cCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch---------
Confidence                   235666777887777666543   111111    346788888888888888888888764321         


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 004244          398 TTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRS  477 (766)
Q Consensus       398 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  477 (766)
                      ...+.++.+..++++-+.+-+.+     +.+....-.+..++...|.-++|.+.+-+-   +.+      .+-+..+...
T Consensus       826 e~~~ecly~le~f~~LE~la~~L-----pe~s~llp~~a~mf~svGMC~qAV~a~Lr~---s~p------kaAv~tCv~L  891 (1189)
T KOG2041|consen  826 ENQIECLYRLELFGELEVLARTL-----PEDSELLPVMADMFTSVGMCDQAVEAYLRR---SLP------KAAVHTCVEL  891 (1189)
T ss_pred             HhHHHHHHHHHhhhhHHHHHHhc-----CcccchHHHHHHHHHhhchHHHHHHHHHhc---cCc------HHHHHHHHHH
Confidence            23456666666666555554443     335555666777788888877777665322   111      1234555666


Q ss_pred             CCHHHHHHHHHH
Q 004244          478 QELDKAFDTKRE  489 (766)
Q Consensus       478 g~~~~A~~~~~~  489 (766)
                      +++.+|.++-+.
T Consensus       892 nQW~~avelaq~  903 (1189)
T KOG2041|consen  892 NQWGEAVELAQR  903 (1189)
T ss_pred             HHHHHHHHHHHh
Confidence            677777666544

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.60  E-value=0.0021  Score=62.00  Aligned_cols=122  Identities=15%  Similarity=0.145  Sum_probs=96.7

Q ss_pred             HHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc---CChHHHHHHH
Q 004244          637 EADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTA---GMNEELSQVI  712 (766)
Q Consensus       637 ~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~---g~~~~A~~~~  712 (766)
                      ....-++.-+..  .| |...|..|+..|...|+.+.|...|.++.+.. .+++..+..+..++..+   .+..++...+
T Consensus       140 ~l~a~Le~~L~~--nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll  216 (287)
T COG4235         140 ALIARLETHLQQ--NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALL  216 (287)
T ss_pred             HHHHHHHHHHHh--CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHH
Confidence            333334444443  25 88999999999999999999999999998542 34457777788777644   2457899999


Q ss_pred             HHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCCCCC
Q 004244          713 ENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLPNSGRS  762 (766)
Q Consensus       713 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  762 (766)
                      +++++.+ +.+......|+-.+..+|++.+|...|+.|.+....-+++.+
T Consensus       217 ~~al~~D-~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~  265 (287)
T COG4235         217 RQALALD-PANIRALSLLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRS  265 (287)
T ss_pred             HHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCCCCCchHH
Confidence            9999998 677888888999999999999999999999999887777654

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.59  E-value=6.4e-05  Score=46.33  Aligned_cols=25  Identities=44%  Similarity=1.107  Sum_probs=9.4

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHh
Q 004244          257 YNTLIDGYCKLGRIDDAFKLLRDMG  281 (766)
Q Consensus       257 ~~~li~~~~~~g~~~~A~~l~~~m~  281 (766)
                      |+++|++|++.|++++|.++|++|.
T Consensus         3 y~~li~~~~~~~~~~~a~~~~~~M~   27 (31)
T PF01535_consen    3 YNSLISGYCKMGQFEEALEVFDEMR   27 (31)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHh
Confidence            3333333333333333333333333

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.59  E-value=0.0017  Score=54.69  Aligned_cols=89  Identities=16%  Similarity=0.125  Sum_probs=48.4

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC---H-HHHHHHHHHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPN--EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH---T-VTIIVLVKALH  700 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~---~-~~~~~l~~~~~  700 (766)
                      .++-..|+.++|+.+|++....|....  ...+..+.+.+...|++++|+.++++....  .|+   . .....+.-++.
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~--~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE--FPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCccccHHHHHHHHHHHH
Confidence            445556666666666666666554432  334555566666666666666666665532  132   1 12222334555


Q ss_pred             hcCChHHHHHHHHHHHH
Q 004244          701 TAGMNEELSQVIENILR  717 (766)
Q Consensus       701 ~~g~~~~A~~~~~~~~~  717 (766)
                      ..|+.++|+..+-..+.
T Consensus        87 ~~gr~~eAl~~~l~~la  103 (120)
T PF12688_consen   87 NLGRPKEALEWLLEALA  103 (120)
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            66666666666655554

>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=97.58  E-value=0.00034  Score=53.00  Aligned_cols=63  Identities=17%  Similarity=0.085  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCC-ChhHHHHHHHHHHH
Q 004244          689 TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEG-NMDAVLNVLTEMAK  752 (766)
Q Consensus       689 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~m~~  752 (766)
                      ..+|..++..+...|++++|+..|+++++.+ |.+..++..++.++.+.| ++++|++.+++..+
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            3455555666666666666666666666665 445556666666666666 46666666665544

...

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.58  E-value=0.014  Score=51.58  Aligned_cols=134  Identities=14%  Similarity=0.096  Sum_probs=83.0

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHH
Q 004244          566 LPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELM  645 (766)
Q Consensus       566 ~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  645 (766)
                      .|++..-..|..++...|++.||...|++...--..-|......+-               ++....+++.+|...++.+
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA---------------~Aqfa~~~~A~a~~tLe~l  150 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLA---------------QAQFAIQEFAAAQQTLEDL  150 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHH---------------HHHHhhccHHHHHHHHHHH
Confidence            4666666667777777777777777777776544444554444444               6666677777777777777


Q ss_pred             HhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 004244          646 LQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENIL  716 (766)
Q Consensus       646 ~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  716 (766)
                      -+....- ++.+...+.+.|...|++.+|...|+.+++  .-|+...-......+.++|+.++|..-+..+.
T Consensus       151 ~e~~pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~--~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v~  220 (251)
T COG4700         151 MEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAIS--YYPGPQARIYYAEMLAKQGRLREANAQYVAVV  220 (251)
T ss_pred             hhcCCccCCCCchHHHHHHHHhcCCchhHHHHHHHHHH--hCCCHHHHHHHHHHHHHhcchhHHHHHHHHHH
Confidence            6643110 233344566777777777777777777774  34665555555666667776666655544443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.58  E-value=0.0058  Score=61.36  Aligned_cols=196  Identities=12%  Similarity=0.123  Sum_probs=101.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCC---CCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004244          508 GLCEQRRITEACELFQEMLSRGM---SPD--EFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQ  582 (766)
Q Consensus       508 ~~~~~g~~~~A~~~~~~m~~~~~---~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~  582 (766)
                      .|...|++++|.+.|.+..+...   .+.  ...|......|.+ +++++|.+.+++.               +..|...
T Consensus        44 ~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~-~~~~~Ai~~~~~A---------------~~~y~~~  107 (282)
T PF14938_consen   44 CFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKK-GDPDEAIECYEKA---------------IEIYREA  107 (282)
T ss_dssp             HHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH-TTHHHHHHHHHHH---------------HHHHHHC
T ss_pred             HHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh-hCHHHHHHHHHHH---------------HHHHHhc
Confidence            35555666666666655533100   000  1122233333322 2555555555544               3445666


Q ss_pred             CCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhc-CCHHHHHHHHHHHHh----CCCCC--CHH
Q 004244          583 ARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMK-GLMNEADRVFELMLQ----RNHMP--NEA  655 (766)
Q Consensus       583 g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~----~~~~p--~~~  655 (766)
                      |++..|-+.+.++-                              ..|... |++++|++.|++..+    .+ .+  -..
T Consensus       108 G~~~~aA~~~~~lA------------------------------~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~  156 (282)
T PF14938_consen  108 GRFSQAAKCLKELA------------------------------EIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAE  156 (282)
T ss_dssp             T-HHHHHHHHHHHH------------------------------HHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHH
T ss_pred             CcHHHHHHHHHHHH------------------------------HHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHH
Confidence            66666666655542                              445555 677777777777653    12 11  133


Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCCCC-----CH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCC----CChHH
Q 004244          656 VYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVP-----HT-VTIIVLVKALHTAGMNEELSQVIENILRSCR----LSDAE  725 (766)
Q Consensus       656 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p-----~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~  725 (766)
                      ++..++..+.+.|++++|+++|++........     +. ..+...+-++...|+...|...+++....++    ..+..
T Consensus       157 ~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~  236 (282)
T PF14938_consen  157 CLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYK  236 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHH
Confidence            45667777888888888888888876543221     11 1223334455567888888888888776643    12344


Q ss_pred             HHHHHHHHHhc--CCChhHHHHHHHHH
Q 004244          726 LAKVLVEINHK--EGNMDAVLNVLTEM  750 (766)
Q Consensus       726 ~~~~l~~~~~~--~g~~~~A~~~~~~m  750 (766)
                      ....|++++-.  ...+++|+.-|+.+
T Consensus       237 ~~~~l~~A~~~~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  237 FLEDLLEAYEEGDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             HHHHHHHHHHTT-CCCHHHHCHHHTTS
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHccc
Confidence            45556666543  33445555444443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.57  E-value=0.0017  Score=55.42  Aligned_cols=100  Identities=13%  Similarity=0.077  Sum_probs=83.8

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC--hHHHHH
Q 004244          655 AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH----TVTIIVLVKALHTAGMNEELSQVIENILRSCRLS--DAELAK  728 (766)
Q Consensus       655 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~  728 (766)
                      .++..++..+.+.|++++|.+.+++++...  |+    ...+..++.++.+.|++++|...+++++...+..  ....+.
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~   80 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKY--PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALL   80 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHH
Confidence            356677888999999999999999998542  33    3567778999999999999999999999876432  356788


Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHHCCCC
Q 004244          729 VLVEINHKEGNMDAVLNVLTEMAKDGLL  756 (766)
Q Consensus       729 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~  756 (766)
                      .++.++.+.|++++|.+.++++.+....
T Consensus        81 ~~~~~~~~~~~~~~A~~~~~~~~~~~p~  108 (119)
T TIGR02795        81 KLGMSLQELGDKEKAKATLQQVIKRYPG  108 (119)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHHHCcC
Confidence            8999999999999999999999988643

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.

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.56  E-value=0.0011  Score=68.55  Aligned_cols=124  Identities=15%  Similarity=0.176  Sum_probs=88.4

Q ss_pred             CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 004244          389 ELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKN--GFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVS  466 (766)
Q Consensus       389 ~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~--g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  466 (766)
                      +.+.+......+++.+....+.+++..++-+....  ....-..|..++++.|.+.|..+++..++..=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            33456666777777777777777777777777664  2222234456778888888888888888887777788888888


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004244          467 YSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQ  512 (766)
Q Consensus       467 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  512 (766)
                      +|.|++.+.+.|++..|.++..+|..++...+..|+..-+.+|.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888888888888887777776666666666656555544

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=97.56  E-value=7.9e-05  Score=45.90  Aligned_cols=31  Identities=42%  Similarity=0.819  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHhCCC
Q 004244          220 YTYNVLIRGFCGVGDLEMGLRFFSEMEKNNC  250 (766)
Q Consensus       220 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  250 (766)
                      ++||+++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3788899999999999999999999888764

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.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.54  E-value=0.0011  Score=68.82  Aligned_cols=94  Identities=13%  Similarity=-0.092  Sum_probs=81.5

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCC
Q 004244          660 IIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGN  739 (766)
Q Consensus       660 l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  739 (766)
                      -+..+...|++++|++.|+++++.. +-+...|..++.++...|++++|+..++++++.+ +.+...|..++.+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            3556778999999999999999653 3345778888999999999999999999999998 6678889999999999999


Q ss_pred             hhHHHHHHHHHHHCCC
Q 004244          740 MDAVLNVLTEMAKDGL  755 (766)
Q Consensus       740 ~~~A~~~~~~m~~~~~  755 (766)
                      +++|...+++..+.+.
T Consensus        86 ~~eA~~~~~~al~l~P  101 (356)
T PLN03088         86 YQTAKAALEKGASLAP  101 (356)
T ss_pred             HHHHHHHHHHHHHhCC
Confidence            9999999999887654

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.52  E-value=0.14  Score=52.17  Aligned_cols=446  Identities=12%  Similarity=0.145  Sum_probs=212.2

Q ss_pred             HhcCChhhHHHHHHHHHhCCCC-c----CHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHH--HHc
Q 004244          230 CGVGDLEMGLRFFSEMEKNNCL-A----NVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGL--CKE  302 (766)
Q Consensus       230 ~~~g~~~~A~~~~~~m~~~g~~-~----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~--~~~  302 (766)
                      -++++..+|.++|.++.+.--. |    ..+.-+.++++|.. ++.+.....+.+....  .| ...|-.+..++  .+.
T Consensus        17 qkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y~~   92 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAYKQ   92 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHHHh
Confidence            3556666666666666543110 0    12233455555543 3444444444444332  12 22344443332  256


Q ss_pred             CChhHHHHHHHHHHHC--CCCC------------CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCChHHHHH
Q 004244          303 GRLKETKGILNEISRK--GLVP------------DEVTYNTLLNGYCKEGNLHQALVLHAEMVRN----GLSPNVVTYTS  364 (766)
Q Consensus       303 g~~~~a~~~~~~m~~~--g~~p------------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----g~~~~~~~~~~  364 (766)
                      +.+.+|.+.+......  +..|            |-..-+..++.+...|++.+++.+++++...    ....++.+|+.
T Consensus        93 k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~  172 (549)
T PF07079_consen   93 KEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDR  172 (549)
T ss_pred             hhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHH
Confidence            6777777766655543  2221            1222244566677888888888877777653    33367777777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC---CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004244          365 LINSMCKSGNLNRAMEFFDQMHVR---ELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCT  441 (766)
Q Consensus       365 li~~~~~~g~~~~A~~~~~~m~~~---~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~  441 (766)
                      ++-++.+.        .|-++.+.   .+-|+   |--++-.|.+.=+.      ++.-.-..+.|.......++....-
T Consensus       173 ~vlmlsrS--------YfLEl~e~~s~dl~pd---yYemilfY~kki~~------~d~~~Y~k~~peeeL~s~imqhlfi  235 (549)
T PF07079_consen  173 AVLMLSRS--------YFLELKESMSSDLYPD---YYEMILFYLKKIHA------FDQRPYEKFIPEEELFSTIMQHLFI  235 (549)
T ss_pred             HHHHHhHH--------HHHHHHHhcccccChH---HHHHHHHHHHHHHH------HhhchHHhhCcHHHHHHHHHHHHHh
Confidence            66555432        22222221   11111   22223233221100      0000000112222222222222111


Q ss_pred             --cCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHHCCCC----CCHHHHHHHHHHHHhcCC
Q 004244          442 --GGRVEDAVGVLHGMARKGLAPDVV-SYSTIISGFSRSQELDKAFDTKREMVEKGVL----PDTITYSSLIHGLCEQRR  514 (766)
Q Consensus       442 --~g~~~~A~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~----p~~~~~~~li~~~~~~g~  514 (766)
                        ..+..--.+++......-+.|+.. ....++..+.+  +.+++..+.+.+....+.    -=..++..++....+.++
T Consensus       236 ~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~  313 (549)
T PF07079_consen  236 VPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQ  313 (549)
T ss_pred             CCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence              111122222233223333333322 22333333333  344444444333322110    023457777777788888


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHH-------HHHHHHHHh----cCChHHHHHHHHHHHHCCCCC-CHHHHH-HHHHHHHh
Q 004244          515 ITEACELFQEMLSRGMSPDEFTY-------TTLINAYCT----EGDIPQALRLHDEMIQKGFLP-DVVTYS-VLINGLNK  581 (766)
Q Consensus       515 ~~~A~~~~~~m~~~~~~p~~~~~-------~~l~~~~~~----~g~~~~A~~~~~~~~~~g~~p-~~~~~~-~li~~~~~  581 (766)
                      ...|.+.+..+...  .|+...-       ..+.+..|.    .-+..+-+.++++....++.- ..+.|- .-+.-+.+
T Consensus       314 T~~a~q~l~lL~~l--dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrqQLvh~L~~~Ak~lW~  391 (549)
T PF07079_consen  314 TEEAKQYLALLKIL--DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQQLVHYLVFGAKHLWE  391 (549)
T ss_pred             HHHHHHHHHHHHhc--CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHh
Confidence            88888877776654  3332211       122233331    122333445555555442211 011221 12233455


Q ss_pred             cCC-HHHHHHHHHHHHhCCCCCcHHhH-HHHhhhhchhhhhhHHHHHhhhhh---cCCHHHHHHHHHHHHhCCCCC----
Q 004244          582 QAR-TMEAKKLLLKLFYDESVPSDVIY-NTLIENCTNIEFQNVAALLKGFCM---KGLMNEADRVFELMLQRNHMP----  652 (766)
Q Consensus       582 ~g~-~~~A~~l~~~~~~~~~~p~~~~~-~~ll~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~p----  652 (766)
                      .|. -++|+++++..++  +.+..... |.+.        ..+-   ..|..   ...+.+-..+-+-+.+.|+.|    
T Consensus       392 ~g~~dekalnLLk~il~--ft~yD~ec~n~v~--------~fvK---q~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~  458 (549)
T PF07079_consen  392 IGQCDEKALNLLKLILQ--FTNYDIECENIVF--------LFVK---QAYKQALSMHAIPRLLKLEDFITEVGLTPITIS  458 (549)
T ss_pred             cCCccHHHHHHHHHHHH--hccccHHHHHHHH--------HHHH---HHHHHHHhhhhHHHHHHHHHHHHhcCCCccccc
Confidence            565 7889999988876  33332222 2221        0000   12221   223344444444555777776    


Q ss_pred             CHHHHHHHHHH--HhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 004244          653 NEAVYDIIIHG--HSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENI  715 (766)
Q Consensus       653 ~~~~~~~l~~~--~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  715 (766)
                      +...-|.|.++  +..+|++.++.-.-.-+.  .+.|++.+|+.++-++....++++|..++..+
T Consensus       459 e~eian~LaDAEyLysqgey~kc~~ys~WL~--~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  459 EEEIANFLADAEYLYSQGEYHKCYLYSSWLT--KIAPSPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHHHHHHHHHHHHHhcccHHHHHHHHHHHH--HhCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            34556666665  457899998876655554  36788899999988888999999999988765

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.50  E-value=0.019  Score=50.79  Aligned_cols=119  Identities=12%  Similarity=0.129  Sum_probs=97.0

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcC---CCCCHHHHHHHHHHHHhcC
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSG---FVPHTVTIIVLVKALHTAG  703 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~---~~p~~~~~~~l~~~~~~~g  703 (766)
                      .+....|+..+|...|++...--...|......+..+....++.-+|...++++.+..   -.|  .+...+...+...|
T Consensus        97 ~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~p--d~~Ll~aR~laa~g  174 (251)
T COG4700          97 NALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSP--DGHLLFARTLAAQG  174 (251)
T ss_pred             HHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCC--CchHHHHHHHHhcC
Confidence            7888999999999999998864444588899999999999999999999999987543   223  44566889999999


Q ss_pred             ChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHH
Q 004244          704 MNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTE  749 (766)
Q Consensus       704 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  749 (766)
                      +.++|...|+.++...+.+...++  ....+.++|+.++|..-+..
T Consensus       175 ~~a~Aesafe~a~~~ypg~~ar~~--Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         175 KYADAESAFEVAISYYPGPQARIY--YAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             CchhHHHHHHHHHHhCCCHHHHHH--HHHHHHHhcchhHHHHHHHH
Confidence            999999999999998755555554  57888999988887654433

>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=97.49  E-value=0.0014  Score=52.92  Aligned_cols=91  Identities=21%  Similarity=0.171  Sum_probs=76.4

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNE  706 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  706 (766)
                      ..+...|++++|...++++.+.. +.+...+..++..+...|++++|.+.+++..+.. +.+..++..++..+...|+.+
T Consensus         8 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~   85 (100)
T cd00189           8 NLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGKYE   85 (100)
T ss_pred             HHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHhHH
Confidence            67788999999999999998753 2255778888999999999999999999988653 334467888899999999999


Q ss_pred             HHHHHHHHHHHcC
Q 004244          707 ELSQVIENILRSC  719 (766)
Q Consensus       707 ~A~~~~~~~~~~~  719 (766)
                      +|...++++.+..
T Consensus        86 ~a~~~~~~~~~~~   98 (100)
T cd00189          86 EALEAYEKALELD   98 (100)
T ss_pred             HHHHHHHHHHccC
Confidence            9999999988765

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.47  E-value=0.0092  Score=59.92  Aligned_cols=112  Identities=18%  Similarity=0.269  Sum_probs=76.1

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc-CChHHHHHHHHHHHH----cCCCCC--HHHHHHHHHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKV-GNVQKAYDLYKKMVR----SGFVPH--TVTIIVLVKAL  699 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~A~~~~~~m~~----~~~~p~--~~~~~~l~~~~  699 (766)
                      ..|...|++..|-+.+.               .++..|... |++++|++.|+++.+    .+ .+.  ..++..++..+
T Consensus       102 ~~y~~~G~~~~aA~~~~---------------~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~  165 (282)
T PF14938_consen  102 EIYREAGRFSQAAKCLK---------------ELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLY  165 (282)
T ss_dssp             HHHHHCT-HHHHHHHHH---------------HHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHH
T ss_pred             HHHHhcCcHHHHHHHHH---------------HHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHH
Confidence            45566666666655544               455567777 899999999999863    23 222  25666788899


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCC-----hH-HHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          700 HTAGMNEELSQVIENILRSCRLS-----DA-ELAKVLVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       700 ~~~g~~~~A~~~~~~~~~~~~~~-----~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      .+.|++++|+..|+++.......     .. ..+...+-++...|+...|.+.+++.....
T Consensus       166 ~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~  226 (282)
T PF14938_consen  166 ARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQD  226 (282)
T ss_dssp             HHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTS
T ss_pred             HHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            99999999999999998763211     22 334556667788999999999999987664

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.47  E-value=0.00048  Score=51.36  Aligned_cols=56  Identities=21%  Similarity=0.218  Sum_probs=27.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          696 VKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       696 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      +..+...|++++|+..++++++.. |.+...+..++.++...|++++|...++++.+
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            334445555555555555555544 34445555555555555555555555555443

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.47  E-value=0.002  Score=66.75  Aligned_cols=124  Identities=10%  Similarity=0.110  Sum_probs=102.1

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHH
Q 004244          424 GFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARK--GLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTIT  501 (766)
Q Consensus       424 g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  501 (766)
                      +.+.+......+++.+....+++++..++......  ....-..+..+++..|...|..++++.+++.=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            44567777888888888888899999999888775  2222344556999999999999999999999889999999999


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004244          502 YSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTE  547 (766)
Q Consensus       502 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  547 (766)
                      ++.|++.+.+.|++..|.++...|...+...+..|+..-+.+|.+-
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999999999999998887677777776666666554

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 [].

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.44  E-value=0.0011  Score=63.34  Aligned_cols=90  Identities=16%  Similarity=0.074  Sum_probs=78.7

Q ss_pred             HHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCCh
Q 004244          662 HGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNM  740 (766)
Q Consensus       662 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  740 (766)
                      .-+.+.+++++|+..|.++++  +.|.. +.|..=+.+|.+.|+++.|++-.+.++..+ |.....|.+|+.+|...|++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcH
Confidence            346689999999999999995  45655 556677899999999999999999999998 77899999999999999999


Q ss_pred             hHHHHHHHHHHHCC
Q 004244          741 DAVLNVLTEMAKDG  754 (766)
Q Consensus       741 ~~A~~~~~~m~~~~  754 (766)
                      ++|++.|++.++..
T Consensus       166 ~~A~~aykKaLeld  179 (304)
T KOG0553|consen  166 EEAIEAYKKALELD  179 (304)
T ss_pred             HHHHHHHHhhhccC
Confidence            99999998776654

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.38  E-value=0.004  Score=61.79  Aligned_cols=133  Identities=15%  Similarity=0.021  Sum_probs=81.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHH
Q 004244          571 TYSVLINGLNKQARTMEAKKLLLKLFY----DESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELM  645 (766)
Q Consensus       571 ~~~~li~~~~~~g~~~~A~~l~~~~~~----~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  645 (766)
                      .|..|.+.|.-.|+++.|+..-+.-+.    -|-... ...+..+.               .++.-.|+++.|.+.|+..
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlg---------------N~hiflg~fe~A~ehYK~t  261 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLG---------------NCHIFLGNFELAIEHYKLT  261 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccc---------------hhhhhhcccHhHHHHHHHH
Confidence            445555555666788888766544322    111111 11222222               6777788888888888765


Q ss_pred             H----hCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHH----HcC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 004244          646 L----QRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMV----RSG-FVPHTVTIIVLVKALHTAGMNEELSQVIENI  715 (766)
Q Consensus       646 ~----~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~----~~~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  715 (766)
                      .    +.|-.. ......+|...|.-...+++|++++.+=+    +.+ ..-....+..|..++...|..++|..+.++.
T Consensus       262 l~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~h  341 (639)
T KOG1130|consen  262 LNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELH  341 (639)
T ss_pred             HHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            4    222221 34455677888888888888988877633    111 1122356667888888889999999888887


Q ss_pred             HHc
Q 004244          716 LRS  718 (766)
Q Consensus       716 ~~~  718 (766)
                      ++.
T Consensus       342 l~~  344 (639)
T KOG1130|consen  342 LRS  344 (639)
T ss_pred             HHH
Confidence            654

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.36  E-value=0.22  Score=50.76  Aligned_cols=435  Identities=13%  Similarity=0.123  Sum_probs=244.1

Q ss_pred             HHhcCCHHHHHHHHHHHHHCC-CCCC----HhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHH--
Q 004244          156 YSHLNMIDKAVNIVNLAKVHG-FMPG----VLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRG--  228 (766)
Q Consensus       156 ~~~~g~~~~A~~~~~~~~~~g-~~~~----~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~--  228 (766)
                      +-+.+++.+|.++|.++-+.- -.|.    ....+.+|+++...+    ++.-.....+..+.  .| ...|-.+..+  
T Consensus        16 Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~n----ld~Me~~l~~l~~~--~~-~s~~l~LF~~L~   88 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLNN----LDLMEKQLMELRQQ--FG-KSAYLPLFKALV   88 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHhh----HHHHHHHHHHHHHh--cC-CchHHHHHHHHH
Confidence            356788999999998775431 1121    334577888888766    35566666665543  23 2334444444  


Q ss_pred             HHhcCChhhHHHHHHHHHhC--CCCc------------CHHHHHHHHHHHHHcCChhHHHHHHHHHhhC----CCCCCHH
Q 004244          229 FCGVGDLEMGLRFFSEMEKN--NCLA------------NVVTYNTLIDGYCKLGRIDDAFKLLRDMGLK----GIEPNLI  290 (766)
Q Consensus       229 ~~~~g~~~~A~~~~~~m~~~--g~~~------------~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p~~~  290 (766)
                      +.+.+.+.+|.+.+..-.+.  +..|            |-..-+..++++...|++.+++.++++|..+    .+.-+..
T Consensus        89 ~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d  168 (549)
T PF07079_consen   89 AYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSD  168 (549)
T ss_pred             HHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHH
Confidence            35789999999888776544  2222            2233367778888999999999999888654    3346788


Q ss_pred             HHHHHHHHHHHc-------C-C-------hhHHHHHHHHHHHC------CCCCCHHHHHHHHHHHHhc--CChHHHHHHH
Q 004244          291 SYNVIINGLCKE-------G-R-------LKETKGILNEISRK------GLVPDEVTYNTLLNGYCKE--GNLHQALVLH  347 (766)
Q Consensus       291 ~~~~li~~~~~~-------g-~-------~~~a~~~~~~m~~~------g~~p~~~~~~~li~~~~~~--g~~~~A~~~~  347 (766)
                      +|+.++-.+.+.       + .       ++.+.-...+|...      .+.|.......++....-.  .+..--.+++
T Consensus       169 ~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l  248 (549)
T PF07079_consen  169 MYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQIL  248 (549)
T ss_pred             HHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHH
Confidence            888755444332       1 1       22333333333321      1233333333333332211  1222223333


Q ss_pred             HHHHHCCCCCChH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC----CCHhHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004244          348 AEMVRNGLSPNVV-TYTSLINSMCKSGNLNRAMEFFDQMHVRELR----PNEKTYTTLINGFSQHGFLDEAYRLLNEMTK  422 (766)
Q Consensus       348 ~~~~~~g~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  422 (766)
                      +.....-+.|+-. +...|...+..  +.+++..+-+.+....+.    .=..++..++....+.++..+|.+.+.-+..
T Consensus       249 ~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~  326 (549)
T PF07079_consen  249 ENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKI  326 (549)
T ss_pred             HHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHh
Confidence            3333444455433 23344444444  555555555544433211    1356788888888999999999888877765


Q ss_pred             CCCCCCHHHH-------HHHHHHHHhc----CCHHHHHHHHHHHHHCCCCCCHHHHHHHH---HHHHccCC-HHHHHHHH
Q 004244          423 NGFMPSIVTY-------NALIKGHCTG----GRVEDAVGVLHGMARKGLAPDVVSYSTII---SGFSRSQE-LDKAFDTK  487 (766)
Q Consensus       423 ~g~~~~~~~~-------~~ll~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~~~~~li---~~~~~~g~-~~~A~~~~  487 (766)
                      -  .|+...-       ..+-+..|..    -+..+-+.+++.....++.. ...-.-|+   .-+-+.|. -++|++++
T Consensus       327 l--dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDr-qQLvh~L~~~Ak~lW~~g~~dekalnLL  403 (549)
T PF07079_consen  327 L--DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDR-QQLVHYLVFGAKHLWEIGQCDEKALNLL  403 (549)
T ss_pred             c--CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccH-HHHHHHHHHHHHHHHhcCCccHHHHHHH
Confidence            4  2333211       1222333311    12333444555554443321 11111222   22444555 78899999


Q ss_pred             HHHHHCCCCCCHHHHHHHH----HHHHh---cCCHHHHHHHHHHHHHCCCCCCHH----HHHHHHHH--HHhcCChHHHH
Q 004244          488 REMVEKGVLPDTITYSSLI----HGLCE---QRRITEACELFQEMLSRGMSPDEF----TYTTLINA--YCTEGDIPQAL  554 (766)
Q Consensus       488 ~~m~~~~~~p~~~~~~~li----~~~~~---~g~~~~A~~~~~~m~~~~~~p~~~----~~~~l~~~--~~~~g~~~~A~  554 (766)
                      +.+..-. .-|...-+.+.    ..|.+   ...+.+-..+-+-+.+.|++|-.+    .-|.|.++  +...|++.++.
T Consensus       404 k~il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~  482 (549)
T PF07079_consen  404 KLILQFT-NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCY  482 (549)
T ss_pred             HHHHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHH
Confidence            9887642 11333332221    22322   234445555555556678776543    33444443  34679999887


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHH
Q 004244          555 RLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTL  610 (766)
Q Consensus       555 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~l  610 (766)
                      -.-.-+.+  +.|++.+|.-+.-++....++++|.+.+.++     +|+..++++-
T Consensus       483 ~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L-----P~n~~~~dsk  531 (549)
T PF07079_consen  483 LYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKL-----PPNERMRDSK  531 (549)
T ss_pred             HHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC-----CCchhhHHHH
Confidence            66555554  6899999999999999999999999999876     5666666553

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.36  E-value=0.014  Score=63.31  Aligned_cols=86  Identities=12%  Similarity=0.098  Sum_probs=67.2

Q ss_pred             HHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 004244          635 MNEADRVFELMLQRN-HMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIE  713 (766)
Q Consensus       635 ~~~A~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  713 (766)
                      +..+.+..++..... ...++..|..+.-.+...|++++|...++++++.  .|+...|..++..+...|+.++|...++
T Consensus       400 l~~a~~~~~~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~  477 (517)
T PRK10153        400 LAALSTELDNIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYS  477 (517)
T ss_pred             HHHHHHHHHHhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            344555555544422 2236677888877777889999999999999965  5788899999999999999999999999


Q ss_pred             HHHHcCCCC
Q 004244          714 NILRSCRLS  722 (766)
Q Consensus       714 ~~~~~~~~~  722 (766)
                      +++..+|..
T Consensus       478 ~A~~L~P~~  486 (517)
T PRK10153        478 TAFNLRPGE  486 (517)
T ss_pred             HHHhcCCCC
Confidence            999998443

>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=97.35  E-value=0.00088  Score=50.68  Aligned_cols=66  Identities=17%  Similarity=0.112  Sum_probs=55.8

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHcC
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAG-MNEELSQVIENILRSC  719 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~  719 (766)
                      ++.+|..++..+...|++++|+..|++.++.. +-+...|..++.++...| ++++|+..++++++.+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~   68 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLD   68 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Confidence            56788889999999999999999999998653 234478888899999999 7999999999998876

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.35  E-value=0.094  Score=51.00  Aligned_cols=59  Identities=10%  Similarity=0.073  Sum_probs=46.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCC--CChHHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          694 VLVKALHTAGMNEELSQVIENILRSCR--LSDAELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       694 ~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      .++.-|.+.|.+..|+.-++.+++.-+  +........++++|.+.|..++|.++...+..
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~~  240 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIAA  240 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHhc
Confidence            456778888999999999999998742  33456677888999999999999888776654

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.35  E-value=0.0029  Score=51.12  Aligned_cols=72  Identities=21%  Similarity=0.354  Sum_probs=31.9

Q ss_pred             HHHHcCChhHHHHHHHHHhhCCC-CCCHHHHHHHHHHHHHcC--------ChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004244          263 GYCKLGRIDDAFKLLRDMGLKGI-EPNLISYNVIINGLCKEG--------RLKETKGILNEISRKGLVPDEVTYNTLLNG  333 (766)
Q Consensus       263 ~~~~~g~~~~A~~l~~~m~~~g~-~p~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  333 (766)
                      .+...+++.....+|+.++..|+ -|++.+|+.++.+.++..        ++-+.+.+++.|...+++|+..+|+.++..
T Consensus        34 ~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~  113 (120)
T PF08579_consen   34 SCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGS  113 (120)
T ss_pred             HHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHH
Confidence            33333444444444444444444 444444444444443321        122334444444444455555555544444


Q ss_pred             H
Q 004244          334 Y  334 (766)
Q Consensus       334 ~  334 (766)
                      +
T Consensus       114 L  114 (120)
T PF08579_consen  114 L  114 (120)
T ss_pred             H
Confidence            3

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.35  E-value=0.055  Score=52.61  Aligned_cols=176  Identities=14%  Similarity=0.090  Sum_probs=83.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhH---HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004244          365 LINSMCKSGNLNRAMEFFDQMHVRELRPNEKT---YTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCT  441 (766)
Q Consensus       365 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~---~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~  441 (766)
                      ....+...|++++|.+.|+++......+ ...   .-.++.++.+.+++++|...+++..+........-+...+.+.+.
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~  116 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTN  116 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhh
Confidence            3444455666666666666666653221 111   123445566666677777777666664322222223333333221


Q ss_pred             --c---------------CC---HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHH
Q 004244          442 --G---------------GR---VEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTIT  501 (766)
Q Consensus       442 --~---------------g~---~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  501 (766)
                        .               .+   ..+|...|+.+++               -|-...-..+|...+..+.+.    =...
T Consensus       117 ~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~---------------~yP~S~ya~~A~~rl~~l~~~----la~~  177 (243)
T PRK10866        117 MALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVR---------------GYPNSQYTTDATKRLVFLKDR----LAKY  177 (243)
T ss_pred             hhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHH---------------HCcCChhHHHHHHHHHHHHHH----HHHH
Confidence              0               01   1223333333333               233333334444433333221    0001


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 004244          502 YSSLIHGLCEQRRITEACELFQEMLSR--GMSPDEFTYTTLINAYCTEGDIPQALRLHDEM  560 (766)
Q Consensus       502 ~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  560 (766)
                      --.+..-|.+.|.+..|..-++.+++.  +.+........++.+|...|..++|.+....+
T Consensus       178 e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        178 ELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             HHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            113344566667777777777766654  22233445556666666667666666655444

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.33  E-value=0.0029  Score=57.89  Aligned_cols=86  Identities=17%  Similarity=0.268  Sum_probs=43.8

Q ss_pred             CCHhhHHHHHHHHHHc--CCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhc----------------CChhhHHH
Q 004244          179 PGVLSYNAILDSVIRS--GRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGV----------------GDLEMGLR  240 (766)
Q Consensus       179 ~~~~~~~~ll~~~~~~--~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~----------------g~~~~A~~  240 (766)
                      .+..+|..+++.+.+.  .+.+.++-....+..|.+.|+.-|..+|+.|++.+=+.                .+-+-|++
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            4555555555555543  12233455555566666666666666666666655442                12233444


Q ss_pred             HHHHHHhCCCCcCHHHHHHHHHHH
Q 004244          241 FFSEMEKNNCLANVVTYNTLIDGY  264 (766)
Q Consensus       241 ~~~~m~~~g~~~~~~~~~~li~~~  264 (766)
                      ++++|...|+-||..++..+++.+
T Consensus       125 lL~qME~~gV~Pd~Et~~~ll~iF  148 (228)
T PF06239_consen  125 LLEQMENNGVMPDKETEQMLLNIF  148 (228)
T ss_pred             HHHHHHHcCCCCcHHHHHHHHHHh
Confidence            444444444444444444444444

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.32  E-value=0.0035  Score=57.49  Aligned_cols=114  Identities=11%  Similarity=0.056  Sum_probs=80.5

Q ss_pred             HHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCChHHHHHH
Q 004244          635 MNEADRVFELMLQ-RNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH--TVTIIVLVKALHTAGMNEELSQV  711 (766)
Q Consensus       635 ~~~A~~~~~~~~~-~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~  711 (766)
                      +..+...+..+.+ .+..-....|..++..+...|++++|+..+++++.....|.  ..++..++..+...|+.++|+..
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            4445555555542 21111355677888888899999999999999985432221  25788889999999999999999


Q ss_pred             HHHHHHcCCCChHHHHHHHHHHHh-------cCCChhHHHHHHHH
Q 004244          712 IENILRSCRLSDAELAKVLVEINH-------KEGNMDAVLNVLTE  749 (766)
Q Consensus       712 ~~~~~~~~~~~~~~~~~~l~~~~~-------~~g~~~~A~~~~~~  749 (766)
                      +++++... +.....+..++.++.       +.|++++|...+++
T Consensus        95 ~~~Al~~~-~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033         95 YFQALERN-PFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHHhC-cCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHH
Confidence            99999886 444555666666666       88888866666554

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.25  E-value=0.0057  Score=61.13  Aligned_cols=129  Identities=13%  Similarity=0.097  Sum_probs=58.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004244          501 TYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCT-EGDIPQALRLHDEMIQKGFLPDVVTYSVLINGL  579 (766)
Q Consensus       501 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~  579 (766)
                      +|..++....+.+..+.|..+|.+..+.+ ..+...|......-.+ .++.+.|.++|+..++. ++.+...|...++.+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            34444555555555555555555555332 2222333333333222 34444455555555544 444555555555555


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCcH---HhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHh
Q 004244          580 NKQARTMEAKKLLLKLFYDESVPSD---VIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQ  647 (766)
Q Consensus       580 ~~~g~~~~A~~l~~~~~~~~~~p~~---~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (766)
                      .+.|+.+.|..+|++.+.. +.++.   ..|...+               +.-.+.|+++.+.++.+++.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i---------------~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFI---------------EFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHH---------------HHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHH
Confidence            5555555555555555543 11111   2444444               444455555555555555554

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.

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.22  E-value=0.0022  Score=47.79  Aligned_cols=58  Identities=16%  Similarity=0.204  Sum_probs=37.6

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          660 IIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       660 l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      ++..+.+.|++++|++.|+++++.  .|+ ...+..++.++...|++++|..+++++++..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQ--DPDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCC--STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            345566677777777777777643  243 3566667777777777777777777777665

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.21  E-value=0.006  Score=55.88  Aligned_cols=105  Identities=17%  Similarity=0.282  Sum_probs=69.4

Q ss_pred             CCCHHHHHHHHHHHHh-----cCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHH
Q 004244          216 SPNVYTYNVLIRGFCG-----VGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLI  290 (766)
Q Consensus       216 ~~~~~~~~~li~~~~~-----~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~  290 (766)
                      ..|..+|..+++.|.+     .|.++-....+..|.+.|+..|..+|+.|++.+=+ |.+- -..+|+.+          
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~----------  111 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAE----------  111 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHH----------
Confidence            4678888888888875     47788888899999999999999999999988654 3221 11111111          


Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004244          291 SYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGN  339 (766)
Q Consensus       291 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  339 (766)
                           -.-|  -.+-+-|++++++|...|+-||..++..+++.+.+.+.
T Consensus       112 -----F~hy--p~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  112 -----FMHY--PRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             -----hccC--cHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                 1111  12335566777777777777777777777776655543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.20  E-value=0.005  Score=60.30  Aligned_cols=97  Identities=12%  Similarity=0.131  Sum_probs=55.7

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--ChHHHHHHH
Q 004244          657 YDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT----VTIIVLVKALHTAGMNEELSQVIENILRSCRL--SDAELAKVL  730 (766)
Q Consensus       657 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~l  730 (766)
                      |........+.|++++|+..|+.+++.  .|+.    ..+..++..+...|++++|...|+++++..+.  .....+..+
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            444443334556666666666666643  2332    34555666666666666666666666665322  134455556


Q ss_pred             HHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          731 VEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       731 ~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      +.++...|++++|.++++++.+...
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~yP  248 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKKYP  248 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            6666666666666666666655543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.16  E-value=0.021  Score=52.48  Aligned_cols=82  Identities=12%  Similarity=0.122  Sum_probs=38.2

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004244          467 YSTIISGFSRSQELDKAFDTKREMVEKGVLPD--TITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAY  544 (766)
Q Consensus       467 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~  544 (766)
                      +..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+++..+.. +.+...+..+...+
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~  116 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAVIY  116 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            44444444555555555555555443322111  2344445555555555555555555555432 22333444444444


Q ss_pred             HhcCC
Q 004244          545 CTEGD  549 (766)
Q Consensus       545 ~~~g~  549 (766)
                      ...|+
T Consensus       117 ~~~g~  121 (172)
T PRK02603        117 HKRGE  121 (172)
T ss_pred             HHcCC
Confidence            44444

>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=97.14  E-value=0.0017  Score=48.84  Aligned_cols=53  Identities=19%  Similarity=0.360  Sum_probs=25.8

Q ss_pred             ccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          666 KVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       666 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      +.|++++|+++|+++.+.. +-+...+..++.++.+.|++++|..+++++....
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~   55 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQD   55 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            3455555555555555331 1233444455555555555555555555555554

...

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.13  E-value=0.038  Score=58.25  Aligned_cols=56  Identities=14%  Similarity=0.058  Sum_probs=34.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 004244          498 DTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQ  562 (766)
Q Consensus       498 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  562 (766)
                      +..+...+..-+.+...+.-|-++|..|-+.         ..++......++|++|..+-+...+
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe  801 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPE  801 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCcc
Confidence            3344444444455556667777777776432         2456666777888888777766654

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.10  E-value=0.017  Score=48.64  Aligned_cols=95  Identities=21%  Similarity=0.266  Sum_probs=77.3

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC--hHHHHHHHHHH
Q 004244          658 DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT--VTIIVLVKALHTAGMNEELSQVIENILRSCRLS--DAELAKVLVEI  733 (766)
Q Consensus       658 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~  733 (766)
                      ..+..++-..|+.++|+.+|++.+..|.....  ..+..+...+...|+.++|..++++.+...+.+  +......++.+
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            34567788999999999999999998866543  567789999999999999999999999875331  34444557789


Q ss_pred             HhcCCChhHHHHHHHHHHH
Q 004244          734 NHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       734 ~~~~g~~~~A~~~~~~m~~  752 (766)
                      +...|+.++|++.+-....
T Consensus        85 L~~~gr~~eAl~~~l~~la  103 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEALA  103 (120)
T ss_pred             HHHCCCHHHHHHHHHHHHH
Confidence            9999999999998876544

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.10  E-value=0.022  Score=52.22  Aligned_cols=86  Identities=16%  Similarity=0.123  Sum_probs=64.9

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHH---
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP--NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIVLVKALH---  700 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~---  700 (766)
                      ..+...|++++|+..|++.......|  ...+|..+...+...|++++|++.+++++..  .|+ ..++..++..+.   
T Consensus        43 ~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~--~~~~~~~~~~la~i~~~~~  120 (168)
T CHL00033         43 MSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER--NPFLPQALNNMAVICHYRG  120 (168)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCcHHHHHHHHHHHHHhh
Confidence            66778899999999999998653333  2457889999999999999999999999854  343 355666666666   


Q ss_pred             ----hcCChHHHHHHHHH
Q 004244          701 ----TAGMNEELSQVIEN  714 (766)
Q Consensus       701 ----~~g~~~~A~~~~~~  714 (766)
                          ..|++++|...+++
T Consensus       121 ~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        121 EQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHcccHHHHHHHHHH
Confidence                77887755444443

>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=97.09  E-value=0.00088  Score=50.50  Aligned_cols=56  Identities=21%  Similarity=0.293  Sum_probs=48.8

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          699 LHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       699 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      +.+.|++++|+..++++++.. |.+..++..++.+|.+.|++++|.++++++.....
T Consensus         1 ll~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~   56 (68)
T PF14559_consen    1 LLKQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDP   56 (68)
T ss_dssp             HHHTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGT
T ss_pred             ChhccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            357899999999999999998 66788888999999999999999999998877654

...

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.03  E-value=0.016  Score=57.97  Aligned_cols=84  Identities=13%  Similarity=0.123  Sum_probs=36.5

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHhcCChHHHH
Q 004244          633 GLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT---VTIIVLVKALHTAGMNEELS  709 (766)
Q Consensus       633 g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~---~~~~~l~~~~~~~g~~~~A~  709 (766)
                      ++.+.|.++|+...+. +..+...|...++.+.+.|+.+.|..+|++.+.. +.++.   ..|...+.--.+.|+.+...
T Consensus        50 ~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~  127 (280)
T PF05843_consen   50 KDPKRARKIFERGLKK-FPSDPDFWLEYLDFLIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVR  127 (280)
T ss_dssp             S-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHH
T ss_pred             CCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHH
Confidence            3344455555554432 2224444444455555555555555555554422 11111   24444455445555555555


Q ss_pred             HHHHHHHHc
Q 004244          710 QVIENILRS  718 (766)
Q Consensus       710 ~~~~~~~~~  718 (766)
                      ++.+++.+.
T Consensus       128 ~v~~R~~~~  136 (280)
T PF05843_consen  128 KVEKRAEEL  136 (280)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555554444

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.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.02  E-value=0.04  Score=59.88  Aligned_cols=48  Identities=19%  Similarity=0.128  Sum_probs=25.2

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHH
Q 004244          632 KGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMV  681 (766)
Q Consensus       632 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  681 (766)
                      .|++++|...++++.+.  .|+...|..++..+...|+.++|.+.++++.
T Consensus       433 ~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~  480 (517)
T PRK10153        433 KGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAF  480 (517)
T ss_pred             cCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45555555555555542  2444555555555555555555555555554

>PRK15331 chaperone protein SicA; Provisional

Probab=96.98  E-value=0.0066  Score=53.34  Aligned_cols=92  Identities=16%  Similarity=0.066  Sum_probs=64.9

Q ss_pred             HHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 004244          624 ALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTA  702 (766)
Q Consensus       624 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  702 (766)
                      +....+...|++++|..+|+-+.-.+  | +..-|..|+.++-..+++++|+..|..+...+ .-|+......+.++...
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--FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLM  118 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHh
Confidence            44455567888888888888777633  3 66667777777778888888888887765433 22333344567778888


Q ss_pred             CChHHHHHHHHHHHHc
Q 004244          703 GMNEELSQVIENILRS  718 (766)
Q Consensus       703 g~~~~A~~~~~~~~~~  718 (766)
                      |+.+.|+..|+.++..
T Consensus       119 ~~~~~A~~~f~~a~~~  134 (165)
T PRK15331        119 RKAAKARQCFELVNER  134 (165)
T ss_pred             CCHHHHHHHHHHHHhC
Confidence            8888888888888774

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.91  E-value=0.13  Score=48.70  Aligned_cols=58  Identities=16%  Similarity=0.212  Sum_probs=27.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCC--CCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004244          366 INSMCKSGNLNRAMEFFDQMHVRELR--PNEKTYTTLINGFSQHGFLDEAYRLLNEMTKN  423 (766)
Q Consensus       366 i~~~~~~g~~~~A~~~~~~m~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  423 (766)
                      ...+...|++++|.+.|+++...-..  --....-.++.++.+.|++++|...+++..+.
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            33444556666666666665554211  11233344455555666666666666665543

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.85  E-value=0.62  Score=46.70  Aligned_cols=282  Identities=13%  Similarity=0.088  Sum_probs=139.1

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHH--HhcCCHHHHHHHHHHHHHCCCCCCHHHHH----HHHHHHHhcCCH
Q 004244          372 SGNLNRAMEFFDQMHVRELRPNEKTYTTLINGF--SQHGFLDEAYRLLNEMTKNGFMPSIVTYN----ALIKGHCTGGRV  445 (766)
Q Consensus       372 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~--~~~g~~~~A~~l~~~m~~~g~~~~~~~~~----~ll~~~~~~g~~  445 (766)
                      .|+-..|.+.-.+-.+. +..|....-.++.+-  .-.|+++.|.+-|+.|...     +.+-.    .|.-.--+.|+.
T Consensus        97 AGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d-----PEtRllGLRgLyleAqr~Gar  170 (531)
T COG3898          97 AGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD-----PETRLLGLRGLYLEAQRLGAR  170 (531)
T ss_pred             cCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC-----hHHHHHhHHHHHHHHHhcccH
Confidence            34555555554443321 222333333333332  2356667777777666652     22221    111122345666


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC-CCCCHHH--HHHHHHHHH---hcCCHHHHH
Q 004244          446 EDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKG-VLPDTIT--YSSLIHGLC---EQRRITEAC  519 (766)
Q Consensus       446 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~~--~~~li~~~~---~~g~~~~A~  519 (766)
                      +.|..+-+...+.-.. -...+...+...|..|+++.|+++++.-.... +.++..-  -..|+.+-.   -.-+...|.
T Consensus       171 eaAr~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar  249 (531)
T COG3898         171 EAARHYAERAAEKAPQ-LPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASAR  249 (531)
T ss_pred             HHHHHHHHHHHhhccC-CchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHH
Confidence            6666666665554222 34556666677777777777777776544332 2222211  112222111   112344454


Q ss_pred             HHHHHHHHCCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 004244          520 ELFQEMLSRGMSPDEF-TYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYD  598 (766)
Q Consensus       520 ~~~~~m~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~  598 (766)
                      ..-.+..+.  .||.. .-..-..++.+.|+..++-.+++.+-+.  .|.+..+..++.  .+.|+..  +.-+++..+.
T Consensus       250 ~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~--ePHP~ia~lY~~--ar~gdta--~dRlkRa~~L  321 (531)
T COG3898         250 DDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKA--EPHPDIALLYVR--ARSGDTA--LDRLKRAKKL  321 (531)
T ss_pred             HHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhc--CCChHHHHHHHH--hcCCCcH--HHHHHHHHHH
Confidence            444444433  44432 2223445667777777777777777765  444444433332  3444332  2222222110


Q ss_pred             -CCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc-cCChHHHHHH
Q 004244          599 -ESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSK-VGNVQKAYDL  676 (766)
Q Consensus       599 -~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~g~~~~A~~~  676 (766)
                       .++|+...-.....              .+-...|++..|..--+....  ..|....|..|.+.-.. .|+-.++...
T Consensus       322 ~slk~nnaes~~~va--------------~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~w  385 (531)
T COG3898         322 ESLKPNNAESSLAVA--------------EAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQW  385 (531)
T ss_pred             HhcCccchHHHHHHH--------------HHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHH
Confidence             13444333222221              455566777777666666655  34666667666666544 3777777777


Q ss_pred             HHHHHHcC
Q 004244          677 YKKMVRSG  684 (766)
Q Consensus       677 ~~~m~~~~  684 (766)
                      +.+.++..
T Consensus       386 lAqav~AP  393 (531)
T COG3898         386 LAQAVKAP  393 (531)
T ss_pred             HHHHhcCC
Confidence            77776543

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.80  E-value=0.12  Score=48.95  Aligned_cols=51  Identities=14%  Similarity=0.042  Sum_probs=34.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCC--hHHHHHHHHHHHhcCCChhHHH
Q 004244          694 VLVKALHTAGMNEELSQVIENILRSCRLS--DAELAKVLVEINHKEGNMDAVL  744 (766)
Q Consensus       694 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~  744 (766)
                      .++.-+.+.|.+..|+..++.+++.-+..  .......++.+|.+.|..+.|.
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            35677788888888888888888875322  2445667788888888877443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.76  E-value=0.029  Score=55.02  Aligned_cols=94  Identities=10%  Similarity=0.094  Sum_probs=74.7

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP--NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH----TVTIIVLVKALH  700 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~----~~~~~~l~~~~~  700 (766)
                      ....+.|++++|+..|+.+++.....  ....+..++.+|...|++++|+..|+++++.  .|+    ...+..++..+.
T Consensus       151 ~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~--yP~s~~~~dAl~klg~~~~  228 (263)
T PRK10803        151 ALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKN--YPKSPKAADAMFKVGVIMQ  228 (263)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhHHHHHHHHHHH
Confidence            34456799999999999999753221  1356778999999999999999999999854  233    356666788888


Q ss_pred             hcCChHHHHHHHHHHHHcCCCC
Q 004244          701 TAGMNEELSQVIENILRSCRLS  722 (766)
Q Consensus       701 ~~g~~~~A~~~~~~~~~~~~~~  722 (766)
                      ..|+.++|..+++++++..|..
T Consensus       229 ~~g~~~~A~~~~~~vi~~yP~s  250 (263)
T PRK10803        229 DKGDTAKAKAVYQQVIKKYPGT  250 (263)
T ss_pred             HcCCHHHHHHHHHHHHHHCcCC
Confidence            9999999999999999987433

>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=96.75  E-value=0.057  Score=48.03  Aligned_cols=69  Identities=22%  Similarity=0.347  Sum_probs=46.3

Q ss_pred             HHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHH-----HcCCCCCHHHH
Q 004244          622 VAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMV-----RSGFVPHTVTI  692 (766)
Q Consensus       622 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~-----~~~~~p~~~~~  692 (766)
                      +..++..+...|++++|....+.+...  .| +...|..++.+|...|+..+|++.|+++.     +.|+.|+..+-
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~--dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALAL--DPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHH--STT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            344557777888888888888888874  35 77788888888888888888888888764     34777776543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.74  E-value=0.0051  Score=47.06  Aligned_cols=58  Identities=12%  Similarity=0.103  Sum_probs=42.0

Q ss_pred             HHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 004244          662 HGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCR  720 (766)
Q Consensus       662 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  720 (766)
                      ..|.+.+++++|++.+++++... +.+...+...+..+...|++++|...++++++.++
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            45677888888888888887542 22345666677778888888888888888887763

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.68  E-value=0.92  Score=46.38  Aligned_cols=127  Identities=17%  Similarity=0.254  Sum_probs=69.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhH-HHHhhh
Q 004244          536 TYTTLINAYCTEGDIPQALRLHDEMIQKG-FLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIY-NTLIEN  613 (766)
Q Consensus       536 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~-~~ll~~  613 (766)
                      +|...++.-.+..-++.|..+|-+..+.| +.+++..+++++.-+ ..|+..-|..+|+--+..  -||...| ...+  
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~-~~~d~~ta~~ifelGl~~--f~d~~~y~~kyl--  473 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYY-ATGDRATAYNIFELGLLK--FPDSTLYKEKYL--  473 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHH-hcCCcchHHHHHHHHHHh--CCCchHHHHHHH--
Confidence            44555555555556666666666666665 455666666666554 345555666666554432  2333222 2222  


Q ss_pred             hchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHH
Q 004244          614 CTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPN--EAVYDIIIHGHSKVGNVQKAYDLYKKMV  681 (766)
Q Consensus       614 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~  681 (766)
                                   .-+..-++-+.|..+|+..+++ +..+  ..+|..+++--..-|+...+..+=++|.
T Consensus       474 -------------~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~  529 (660)
T COG5107         474 -------------LFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFR  529 (660)
T ss_pred             -------------HHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHH
Confidence                         3444556666666666654432 1112  4456666666666666666666656555

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.68  E-value=0.6  Score=46.27  Aligned_cols=236  Identities=12%  Similarity=0.049  Sum_probs=133.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-----CCCHHH
Q 004244          501 TYSSLIHGLCEQRRITEACELFQEMLSR-GMSP---DEFTYTTLINAYCTEGDIPQALRLHDEMIQKGF-----LPDVVT  571 (766)
Q Consensus       501 ~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~-----~p~~~~  571 (766)
                      .|..+..++.+..++.+++.+-+.-... |..|   .-....++.+++...+.++++++.|+...+...     ......
T Consensus        85 a~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqv  164 (518)
T KOG1941|consen   85 AYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQV  164 (518)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeeh
Confidence            4445555555555555555554443332 2222   112334566777778889999999888775311     123457


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHh
Q 004244          572 YSVLINGLNKQARTMEAKKLLLKLFYD----ESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQ  647 (766)
Q Consensus       572 ~~~li~~~~~~g~~~~A~~l~~~~~~~----~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (766)
                      +..+...|.+..++++|.-+..+..+-    ++..-..-|..+.          +-.+.-++...|++.+|.+..++..+
T Consensus       165 cv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~----------lyhmaValR~~G~LgdA~e~C~Ea~k  234 (518)
T KOG1941|consen  165 CVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMS----------LYHMAVALRLLGRLGDAMECCEEAMK  234 (518)
T ss_pred             hhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHH----------HHHHHHHHHHhcccccHHHHHHHHHH
Confidence            788888889999999988777665432    2222222233222          11223567788888888888877653


Q ss_pred             ----CCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHH----cCCCC-CHHHHHHHHHHHHhc-----CChHHHHHHH
Q 004244          648 ----RNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVR----SGFVP-HTVTIIVLVKALHTA-----GMNEELSQVI  712 (766)
Q Consensus       648 ----~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~----~~~~p-~~~~~~~l~~~~~~~-----g~~~~A~~~~  712 (766)
                          .|-.+ .......+.+.|-..|+.|.|..-|+.+..    .|-+- ........++.+...     +.--+|+++-
T Consensus       235 lal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am~~m~~~gdrmgqv~al~g~Akc~~~~r~~~k~~~Crale~n  314 (518)
T KOG1941|consen  235 LALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAMGTMASLGDRMGQVEALDGAAKCLETLRLQNKICNCRALEFN  314 (518)
T ss_pred             HHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHhhcccccchhHHH
Confidence                44333 233446778889999999999998887641    12111 112333333333222     2223466666


Q ss_pred             HHHHHcCCCC-----hHHHHHHHHHHHhcCCChhHHHHH
Q 004244          713 ENILRSCRLS-----DAELAKVLVEINHKEGNMDAVLNV  746 (766)
Q Consensus       713 ~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~  746 (766)
                      ++.++.....     --...-.++..|...|.-++-..-
T Consensus       315 ~r~levA~~IG~K~~vlK~hcrla~iYrs~gl~d~~~~h  353 (518)
T KOG1941|consen  315 TRLLEVASSIGAKLSVLKLHCRLASIYRSKGLQDELRAH  353 (518)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHhccchhHHHHH
Confidence            6666542111     123445677788777766554433

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.62  E-value=1.5  Score=48.65  Aligned_cols=146  Identities=18%  Similarity=0.183  Sum_probs=63.2

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHH----HHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004244          258 NTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVII----NGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNG  333 (766)
Q Consensus       258 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li----~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  333 (766)
                      ..-++.+++...++-|..+.+.-.     .|..+...+.    +-+.+.|++++|...|-+-... ++|.     .+|.-
T Consensus       338 e~kL~iL~kK~ly~~Ai~LAk~~~-----~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~k  406 (933)
T KOG2114|consen  338 ETKLDILFKKNLYKVAINLAKSQH-----LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKK  406 (933)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHhcC-----CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHH
Confidence            344455555555555555544322     1222222222    2233455666655555444332 1221     12333


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHH
Q 004244          334 YCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEA  413 (766)
Q Consensus       334 ~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A  413 (766)
                      |....++.+-...++.+.+.|+. +...-+.|+.+|.+.++.++-.++.+... .|..  ..-....+..+.+.+-.++|
T Consensus       407 fLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a  482 (933)
T KOG2114|consen  407 FLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEA  482 (933)
T ss_pred             hcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHH
Confidence            34444444444555555555543 33444555666666666555554444332 1111  11123344444444555555


Q ss_pred             HHHHH
Q 004244          414 YRLLN  418 (766)
Q Consensus       414 ~~l~~  418 (766)
                      ..+-.
T Consensus       483 ~~LA~  487 (933)
T KOG2114|consen  483 ELLAT  487 (933)
T ss_pred             HHHHH
Confidence            44433

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.62  E-value=0.082  Score=51.31  Aligned_cols=46  Identities=13%  Similarity=0.206  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHH
Q 004244          635 MNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVR  682 (766)
Q Consensus       635 ~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  682 (766)
                      ..++..+|++++..  +| |..+...|...+.+.|++.+|...|+.|++
T Consensus       209 ta~a~~ll~~al~~--D~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~  255 (287)
T COG4235         209 TAKARALLRQALAL--DPANIRALSLLAFAAFEQGDYAEAAAAWQMLLD  255 (287)
T ss_pred             cHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            34555555555553  23 444445555555555666666666655554

>PRK11906 transcriptional regulator; Provisional

Probab=96.58  E-value=0.11  Score=53.83  Aligned_cols=156  Identities=11%  Similarity=0.047  Sum_probs=108.1

Q ss_pred             HHHHHHHHHHHHhC-CCCCcHHhHHHHhhhhchhhhhhHHHHHhhhh-hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004244          585 TMEAKKLLLKLFYD-ESVPSDVIYNTLIENCTNIEFQNVAALLKGFC-MKGLMNEADRVFELMLQRNHMPNEAVYDIIIH  662 (766)
Q Consensus       585 ~~~A~~l~~~~~~~-~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  662 (766)
                      .+.|..+|.+.+.. ...|+...-...++.|....      ...+.. ......+|.++.++..+.+. -|+.+...++.
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~------~~~g~~~~~~~~~~a~~~A~rAveld~-~Da~a~~~~g~  346 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSL------ALHGKSELELAAQKALELLDYVSDITT-VDGKILAIMGL  346 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHH------HHhcCCCchHHHHHHHHHHHHHHhcCC-CCHHHHHHHHH
Confidence            45667777777621 25566554444444333110      001111 35567788888888888542 28888888888


Q ss_pred             HHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCh-HHHHHHHHHHHhcCCCh
Q 004244          663 GHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRSCRLSD-AELAKVLVEINHKEGNM  740 (766)
Q Consensus       663 ~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~  740 (766)
                      ++.-.|+.+.|...|+++..  +.||. .+|...+..+.-.|+.++|.+.++++++.+|..- +.+....++.|+..+ .
T Consensus       347 ~~~~~~~~~~a~~~f~rA~~--L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~~-~  423 (458)
T PRK11906        347 ITGLSGQAKVSHILFEQAKI--HSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPNP-L  423 (458)
T ss_pred             HHHhhcchhhHHHHHHHHhh--cCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCCc-h
Confidence            88889999999999999984  56776 6677777888899999999999999999985443 344455566888654 5


Q ss_pred             hHHHHHHHHH
Q 004244          741 DAVLNVLTEM  750 (766)
Q Consensus       741 ~~A~~~~~~m  750 (766)
                      ++|++++.+-
T Consensus       424 ~~~~~~~~~~  433 (458)
T PRK11906        424 KNNIKLYYKE  433 (458)
T ss_pred             hhhHHHHhhc
Confidence            7788777543

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.57  E-value=0.082  Score=53.31  Aligned_cols=99  Identities=12%  Similarity=0.049  Sum_probs=67.9

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Q 004244          655 AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEIN  734 (766)
Q Consensus       655 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  734 (766)
                      .+++.+.-+|.+.+++.+|++..++.+..+ ++|......=+.++...|+++.|+..|+++++.. |.+..+-..|+.+-
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~-P~Nka~~~el~~l~  335 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKLE-PSNKAARAELIKLK  335 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            345667777888888888888888887553 4555666667778888888888888888888887 44455555666555


Q ss_pred             hcCCChhHH-HHHHHHHHHCCC
Q 004244          735 HKEGNMDAV-LNVLTEMAKDGL  755 (766)
Q Consensus       735 ~~~g~~~~A-~~~~~~m~~~~~  755 (766)
                      -+.....+. .++|..|.++-.
T Consensus       336 ~k~~~~~~kekk~y~~mF~k~~  357 (397)
T KOG0543|consen  336 QKIREYEEKEKKMYANMFAKLA  357 (397)
T ss_pred             HHHHHHHHHHHHHHHHHhhccc
Confidence            544444333 667777765543

>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=96.55  E-value=0.006  Score=47.40  Aligned_cols=61  Identities=21%  Similarity=0.266  Sum_probs=26.8

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHc--CCC---CC-HHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 004244          656 VYDIIIHGHSKVGNVQKAYDLYKKMVRS--GFV---PH-TVTIIVLVKALHTAGMNEELSQVIENIL  716 (766)
Q Consensus       656 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~--~~~---p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  716 (766)
                      +|+.++..|...|++++|++.+++.++.  ...   |+ ..++..++..+...|++++|.+++++++
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            4455555555555555555555554421  011   11 1333344444444444444444444444

...

>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=96.51  E-value=0.011  Score=45.80  Aligned_cols=63  Identities=16%  Similarity=0.097  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCC-C-hHHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          690 VTIIVLVKALHTAGMNEELSQVIENILRS----CRL-S-DAELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       690 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~-~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      .++..++..+...|++++|+.+++++++.    +.. + .+.++..++.++...|++++|++++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            56788889999999999999999998865    211 1 256788899999999999999999887654

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.45  E-value=0.019  Score=43.77  Aligned_cols=55  Identities=15%  Similarity=0.169  Sum_probs=38.4

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHc
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRS  683 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  683 (766)
                      ..|...+++++|.+.++.++..+  | +...|...+.++.+.|++++|.+.+++.++.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD--PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC--cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            45667777777777777777642  3 5666666777777777777777777777744

>PRK15331 chaperone protein SicA; Provisional

Probab=96.42  E-value=0.12  Score=45.68  Aligned_cols=93  Identities=4%  Similarity=-0.072  Sum_probs=78.0

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCC
Q 004244          659 IIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEG  738 (766)
Q Consensus       659 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  738 (766)
                      ....-+...|++++|..+|.-+.-.+ .-+...|..|+.++-..+++++|+..|..+...+ ..++......+.+|...|
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~  119 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMR  119 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhC
Confidence            44556679999999999999987543 2345567788888899999999999999999887 567777888999999999


Q ss_pred             ChhHHHHHHHHHHHC
Q 004244          739 NMDAVLNVLTEMAKD  753 (766)
Q Consensus       739 ~~~~A~~~~~~m~~~  753 (766)
                      +.++|.+.|+...++
T Consensus       120 ~~~~A~~~f~~a~~~  134 (165)
T PRK15331        120 KAAKARQCFELVNER  134 (165)
T ss_pred             CHHHHHHHHHHHHhC
Confidence            999999999887763

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.38  E-value=0.93  Score=42.94  Aligned_cols=132  Identities=12%  Similarity=0.038  Sum_probs=79.0

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHH-----HH
Q 004244          291 SYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYT-----SL  365 (766)
Q Consensus       291 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~-----~l  365 (766)
                      .-+++++.+.-.|.+.-...++.+.++...+.++.....|...-.+.|+.+.|...|++..+..-..|..+.+     ..
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            3455666666667777777777777776655666677777777777777777777777665532222322222     22


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004244          366 INSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKN  423 (766)
Q Consensus       366 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  423 (766)
                      ...|.-.+++.+|...|.++...+.. |....|.-.-+..-.|+..+|.+.++.|...
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            33344456666666667666665322 4444454444444556666666666666664

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.38  E-value=1.4  Score=44.78  Aligned_cols=106  Identities=20%  Similarity=0.214  Sum_probs=66.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCC
Q 004244          572 YSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHM  651 (766)
Q Consensus       572 ~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  651 (766)
                      .+.-+.-+...|+...|.++-.+.    -.||...|...+               .+++..++|++-.++...  +    
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~F----kv~dkrfw~lki---------------~aLa~~~~w~eL~~fa~s--k----  234 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEF----KVPDKRFWWLKI---------------KALAENKDWDELEKFAKS--K----  234 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHc----CCcHHHHHHHHH---------------HHHHhcCCHHHHHHHHhC--C----
Confidence            333445555677777777766555    346777777767               777777777766654332  1    


Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 004244          652 PNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVI  712 (766)
Q Consensus       652 p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  712 (766)
                      -++.-|...+.+|.+.|+.++|..++.++      ++    ..-+..|.+.|++.+|.+..
T Consensus       235 KsPIGyepFv~~~~~~~~~~eA~~yI~k~------~~----~~rv~~y~~~~~~~~A~~~A  285 (319)
T PF04840_consen  235 KSPIGYEPFVEACLKYGNKKEASKYIPKI------PD----EERVEMYLKCGDYKEAAQEA  285 (319)
T ss_pred             CCCCChHHHHHHHHHCCCHHHHHHHHHhC------Ch----HHHHHHHHHCCCHHHHHHHH
Confidence            13355666777777777777777777662      11    22345567777777776543

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

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.32  E-value=1.1  Score=43.08  Aligned_cols=222  Identities=21%  Similarity=0.100  Sum_probs=125.5

Q ss_pred             cCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCChHHHH
Q 004244          477 SQELDKAFDTKREMVEKGVLP-DTITYSSLIHGLCEQRRITEACELFQEMLSR-GMSPDEFTYTTLINAYCTEGDIPQAL  554 (766)
Q Consensus       477 ~g~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~l~~~~~~~g~~~~A~  554 (766)
                      .+....+...+.......... ....+......+...++...+...+...... ........+......+...+++..+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            355555555555555443221 2455566666677777777777777766642 22344455556666666667777777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHH-HHHhcCCHHHHHHHHHHHHhCCCCC----cHHhHHHHhhhhchhhhhhHHHHHhhh
Q 004244          555 RLHDEMIQKGFLPDVVTYSVLIN-GLNKQARTMEAKKLLLKLFYDESVP----SDVIYNTLIENCTNIEFQNVAALLKGF  629 (766)
Q Consensus       555 ~~~~~~~~~g~~p~~~~~~~li~-~~~~~g~~~~A~~l~~~~~~~~~~p----~~~~~~~ll~~~~~~~~~~~~~l~~~~  629 (766)
                      +.+.........+ ......... .+...|++++|...+.+...  ..|    ....+....               ..+
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~---------------~~~  177 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALE--LDPELNELAEALLALG---------------ALL  177 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCccchHHHHHHhh---------------hHH
Confidence            7777776542222 122222222 56677777777777777644  222    111122211               335


Q ss_pred             hhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChHH
Q 004244          630 CMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIVLVKALHTAGMNEE  707 (766)
Q Consensus       630 ~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~  707 (766)
                      ...++.++|...+....... .. ....+..+...+...+++++|...+......  .|+ ...+..+...+...|..++
T Consensus       178 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~  254 (291)
T COG0457         178 EALGRYEEALELLEKALKLN-PDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEE  254 (291)
T ss_pred             HHhcCHHHHHHHHHHHHhhC-cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHH
Confidence            56667777777777776532 12 2455666666677777777777777776633  333 3334444444445566777


Q ss_pred             HHHHHHHHHHcC
Q 004244          708 LSQVIENILRSC  719 (766)
Q Consensus       708 A~~~~~~~~~~~  719 (766)
                      +...+++.....
T Consensus       255 ~~~~~~~~~~~~  266 (291)
T COG0457         255 ALEALEKALELD  266 (291)
T ss_pred             HHHHHHHHHHhC
Confidence            777777777665

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.30  E-value=0.5  Score=48.31  Aligned_cols=174  Identities=14%  Similarity=0.074  Sum_probs=86.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhh
Q 004244          540 LINAYCTEGDIPQALRLHDEMIQKG---FLPDVVTYSVLINGLNK---QARTMEAKKLLLKLFYDESVPSDVIYNTLIEN  613 (766)
Q Consensus       540 l~~~~~~~g~~~~A~~~~~~~~~~g---~~p~~~~~~~li~~~~~---~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~  613 (766)
                      ++-+|....+++.-+++.+.+...-   +......-..++-++.+   .|+.++|++++..++.....++..++..+...
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            3334555556666666665555430   11111111223334444   56666666666664444344444444443321


Q ss_pred             hchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCCh----HHHHHHH---HH-HHHcCC
Q 004244          614 CTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNV----QKAYDLY---KK-MVRSGF  685 (766)
Q Consensus       614 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~----~~A~~~~---~~-m~~~~~  685 (766)
                      +-..-      +-..+......++|+..|.+.-+.  .||..+--.++..+...|.-    .+..++-   .. +.++|.
T Consensus       227 yKD~~------~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~  298 (374)
T PF13281_consen  227 YKDLF------LESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGS  298 (374)
T ss_pred             HHHHH------HHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcc
Confidence            11000      001111233478888888888763  35443322233333334432    2223322   12 223343


Q ss_pred             C-C--CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 004244          686 V-P--HTVTIIVLVKALHTAGMNEELSQVIENILRSCRL  721 (766)
Q Consensus       686 ~-p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  721 (766)
                      . +  |--.+..++.+..-.|+.++|.+.++++.+..++
T Consensus       299 ~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~  337 (374)
T PF13281_consen  299 LEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPP  337 (374)
T ss_pred             ccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCc
Confidence            2 2  2344457888999999999999999999988633

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.28  E-value=1.5  Score=44.38  Aligned_cols=80  Identities=23%  Similarity=0.231  Sum_probs=49.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004244          505 LIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQAR  584 (766)
Q Consensus       505 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~  584 (766)
                      -+.-+...|+...|.++-.+..    .|+..-|...+.+++..++|++-.++...   +   -++.-|-.++..+.+.|+
T Consensus       183 Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s---k---KsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  183 TIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS---K---KSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             HHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C---CCCCChHHHHHHHHHCCC
Confidence            3444555666666666655542    45666677777777777777665554322   1   133666667777777777


Q ss_pred             HHHHHHHHHH
Q 004244          585 TMEAKKLLLK  594 (766)
Q Consensus       585 ~~~A~~l~~~  594 (766)
                      ..+|..++.+
T Consensus       253 ~~eA~~yI~k  262 (319)
T PF04840_consen  253 KKEASKYIPK  262 (319)
T ss_pred             HHHHHHHHHh
Confidence            7777766655

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

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.18  E-value=0.098  Score=50.95  Aligned_cols=163  Identities=11%  Similarity=0.036  Sum_probs=114.0

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHH--
Q 004244          580 NKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVY--  657 (766)
Q Consensus       580 ~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~--  657 (766)
                      ...|+..+|...++++++. .+.|...+.-.-               ++|.-.|+.+.-...++++... ..||...|  
T Consensus       114 ~~~g~~h~a~~~wdklL~d-~PtDlla~kfsh---------------~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sY  176 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSH---------------DAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSY  176 (491)
T ss_pred             hccccccHHHHHHHHHHHh-Cchhhhhhhhhh---------------hHHHhccchhhhhhHHHHhccc-cCCCCcHHHH
Confidence            4578888888888888875 444555544444               7888899999888888888754 22333222  


Q ss_pred             --HHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC---hHHHHHHHHH
Q 004244          658 --DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLS---DAELAKVLVE  732 (766)
Q Consensus       658 --~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~~l~~  732 (766)
                        ..+.-++...|-+++|.+.-++..+-+ +-|.-...++...+-..|+..++.++.++--..=-..   -...|.+.+-
T Consensus       177 v~GmyaFgL~E~g~y~dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al  255 (491)
T KOG2610|consen  177 VHGMYAFGLEECGIYDDAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTAL  255 (491)
T ss_pred             HHHHHHhhHHHhccchhHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHH
Confidence              344556678999999999988877432 2344555577788888899999999888754331011   1334667777


Q ss_pred             HHhcCCChhHHHHHHHHHHHCCCCCCCC
Q 004244          733 INHKEGNMDAVLNVLTEMAKDGLLPNSG  760 (766)
Q Consensus       733 ~~~~~g~~~~A~~~~~~m~~~~~~~~~~  760 (766)
                      .+.+.+.++.|+++|++=.-+...++.+
T Consensus       256 ~~iE~aeye~aleIyD~ei~k~l~k~Da  283 (491)
T KOG2610|consen  256 FHIEGAEYEKALEIYDREIWKRLEKDDA  283 (491)
T ss_pred             hhhcccchhHHHHHHHHHHHHHhhccch
Confidence            8888899999999998876666666655

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.08  E-value=0.028  Score=57.93  Aligned_cols=99  Identities=9%  Similarity=-0.029  Sum_probs=74.9

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT----VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAK  728 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  728 (766)
                      +...|+.++.+|.+.|++++|+..|++.++  +.|+.    .+|..++.+|...|+.++|+..++++++.+ ++   .|.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALe--L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels-n~---~f~  147 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALE--LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY-NL---KFS  147 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-ch---hHH
Confidence            688899999999999999999999999985  46775    358899999999999999999999999974 12   121


Q ss_pred             HHH--HHHhcCCChhHHHHHHHHHHHCCCCC
Q 004244          729 VLV--EINHKEGNMDAVLNVLTEMAKDGLLP  757 (766)
Q Consensus       729 ~l~--~~~~~~g~~~~A~~~~~~m~~~~~~~  757 (766)
                      .+.  ..+..-.+.++..++++.+.+-|...
T Consensus       148 ~i~~DpdL~plR~~pef~eLlee~rk~G~~~  178 (453)
T PLN03098        148 TILNDPDLAPFRASPEFKELQEEARKGGEDI  178 (453)
T ss_pred             HHHhCcchhhhcccHHHHHHHHHHHHhCCcc
Confidence            111  11122334467778888888877643

>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=96.04  E-value=0.3  Score=42.99  Aligned_cols=116  Identities=15%  Similarity=0.080  Sum_probs=79.0

Q ss_pred             HHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004244          623 AALLKGFCMKGLMNEADRVFELMLQRNHMPNE-AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHT  701 (766)
Q Consensus       623 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~  701 (766)
                      ..++..-.+.++.+++..++..+.-  +.|.. ..-..-+..+...|+|.+|+.+++++.+.  .|.......|+..|..
T Consensus        14 ie~~~~al~~~~~~D~e~lL~ALrv--LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~--~~~~p~~kALlA~CL~   89 (160)
T PF09613_consen   14 IEVLSVALRLGDPDDAEALLDALRV--LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEER--APGFPYAKALLALCLY   89 (160)
T ss_pred             HHHHHHHHccCChHHHHHHHHHHHH--hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHH
Confidence            3444566678899999999999987  45632 22233455678999999999999998754  4666666667766666


Q ss_pred             cCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHH
Q 004244          702 AGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLN  745 (766)
Q Consensus       702 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  745 (766)
                      ...-..-..+.+++++.+..++..   .|+..+........|..
T Consensus        90 ~~~D~~Wr~~A~evle~~~d~~a~---~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   90 ALGDPSWRRYADEVLESGADPDAR---ALVRALLARADLEPAHE  130 (160)
T ss_pred             HcCChHHHHHHHHHHhcCCChHHH---HHHHHHHHhccccchhh
Confidence            666677777888888887444433   35555555555444443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.02  E-value=0.11  Score=49.80  Aligned_cols=99  Identities=14%  Similarity=0.145  Sum_probs=72.6

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CChHHHHHHH
Q 004244          656 VYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH---TVTIIVLVKALHTAGMNEELSQVIENILRSCR--LSDAELAKVL  730 (766)
Q Consensus       656 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~l  730 (766)
                      .|+.-+. +.+.|++.+|...|...++.. +-+   ...+..|+.+++..|++++|..+|..+.+..+  +.-++.+..|
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~Y-P~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKl  221 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKY-PNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKL  221 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcC-CCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHH
Confidence            4665554 457788889988888888642 211   13455688888899999999998888888742  2235777888


Q ss_pred             HHHHhcCCChhHHHHHHHHHHHCCCC
Q 004244          731 VEINHKEGNMDAVLNVLTEMAKDGLL  756 (766)
Q Consensus       731 ~~~~~~~g~~~~A~~~~~~m~~~~~~  756 (766)
                      +.+..+.|+.++|..+|+++.+.-..
T Consensus       222 g~~~~~l~~~d~A~atl~qv~k~YP~  247 (262)
T COG1729         222 GVSLGRLGNTDEACATLQQVIKRYPG  247 (262)
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHCCC
Confidence            88888999999999888888776543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.00  E-value=0.47  Score=51.23  Aligned_cols=184  Identities=16%  Similarity=0.132  Sum_probs=115.7

Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhh-hh---
Q 004244          555 RLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKG-FC---  630 (766)
Q Consensus       555 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~-~~---  630 (766)
                      -+|+-++.. +||.   ...++....-.|+-+.+++++.+..+.+..-.+..-..++..         ...+.. +.   
T Consensus       178 G~f~L~lSl-LPp~---~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y---------~~~~~~~~~~~~  244 (468)
T PF10300_consen  178 GLFNLVLSL-LPPK---VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWY---------HLVVPSFLGIDG  244 (468)
T ss_pred             HHHHHHHHh-CCHH---HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHH---------HHHHHHHcCCcc
Confidence            345555543 3333   233455555667777777777776553222222221122110         000011 11   


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHhccCChHHHHHHHHHHHHc--CC-CCCHHHHHHHHHHHHhcCChH
Q 004244          631 MKGLMNEADRVFELMLQRNHMPNEAVY-DIIIHGHSKVGNVQKAYDLYKKMVRS--GF-VPHTVTIIVLVKALHTAGMNE  706 (766)
Q Consensus       631 ~~g~~~~A~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~m~~~--~~-~p~~~~~~~l~~~~~~~g~~~  706 (766)
                      ...+.+.|.++++.+.+.  -|+...| ..-++.+...|+.++|++.++++...  .. +.....+.-++..+.-.++++
T Consensus       245 ~~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~  322 (468)
T PF10300_consen  245 EDVPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWE  322 (468)
T ss_pred             cCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHH
Confidence            366889999999999985  3665555 34456677899999999999987631  11 122355567788889999999


Q ss_pred             HHHHHHHHHHHcCCCChH-HHHHHHHHHHhcCCCh-------hHHHHHHHHHHHCC
Q 004244          707 ELSQVIENILRSCRLSDA-ELAKVLVEINHKEGNM-------DAVLNVLTEMAKDG  754 (766)
Q Consensus       707 ~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~-------~~A~~~~~~m~~~~  754 (766)
                      +|...+.++.+.+ .... ..+...+-++...|+.       ++|.+++.+.....
T Consensus       323 ~A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~l~  377 (468)
T PF10300_consen  323 EAAEYFLRLLKES-KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPKLK  377 (468)
T ss_pred             HHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHHHH
Confidence            9999999999875 3333 3344556778888988       89999888765543

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.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.97  E-value=0.11  Score=53.88  Aligned_cols=68  Identities=10%  Similarity=0.139  Sum_probs=49.1

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCC-CH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHH
Q 004244          658 DIIIHGHSKVGNVQKAYDLYKKMVRSGFVP-HT-VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAEL  726 (766)
Q Consensus       658 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p-~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  726 (766)
                      ..+..++.+.|+.+||++.+++|.+.. ++ |. .....|+.++...+.+.++..++.+--+...|..+..
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~-p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti  332 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEF-PNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATI  332 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhC-CccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHH
Confidence            457777778899999999999987542 22 22 4556788899999999999988888654444454444

The molecular function of this protein is uncertain.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.87  E-value=0.076  Score=54.86  Aligned_cols=61  Identities=26%  Similarity=0.248  Sum_probs=52.1

Q ss_pred             hHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHhccCChHHHHHHHHHHHHc
Q 004244          621 NVAALLKGFCMKGLMNEADRVFELMLQRNHMPNE----AVYDIIIHGHSKVGNVQKAYDLYKKMVRS  683 (766)
Q Consensus       621 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  683 (766)
                      ....+-.+|.+.|++++|+..|++.++.  .|+.    .+|..+..+|.+.|+.++|++.++++++.
T Consensus        77 a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         77 DAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4566778899999999999999999984  4643    35889999999999999999999999864

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.86  E-value=0.38  Score=47.59  Aligned_cols=47  Identities=19%  Similarity=0.227  Sum_probs=23.0

Q ss_pred             HHccCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004244          474 FSRSQELDKAFDTKREMVEKG--VLPDTITYSSLIHGLCEQRRITEACE  520 (766)
Q Consensus       474 ~~~~g~~~~A~~~~~~m~~~~--~~p~~~~~~~li~~~~~~g~~~~A~~  520 (766)
                      +....+.++|+..|.+-..+-  ...-..++..+..+.+..|.+++++.
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            344556666666666554430  01112344555555555555555443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.83  E-value=1.5  Score=44.89  Aligned_cols=94  Identities=13%  Similarity=0.111  Sum_probs=47.8

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004244          470 IISGFSRSQELDKAFDTKREMVEKG---VLPDTITYSSLIHGLCE---QRRITEACELFQEMLSRGMSPDEFTYTTLINA  543 (766)
Q Consensus       470 li~~~~~~g~~~~A~~~~~~m~~~~---~~p~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~  543 (766)
                      ++-.|....+++..+++.+.+....   +.-....-....-++.+   .|+.++|.+++..+....-.+++.+|..+...
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            3344666666666666666665431   11111112223334444   56667777766664444445666666655555


Q ss_pred             HHh---------cCChHHHHHHHHHHHHC
Q 004244          544 YCT---------EGDIPQALRLHDEMIQK  563 (766)
Q Consensus       544 ~~~---------~g~~~~A~~~~~~~~~~  563 (766)
                      |..         ....++|+..+.+.-+.
T Consensus       227 yKD~~~~s~~~d~~~ldkAi~~Y~kgFe~  255 (374)
T PF13281_consen  227 YKDLFLESNFTDRESLDKAIEWYRKGFEI  255 (374)
T ss_pred             HHHHHHHcCccchHHHHHHHHHHHHHHcC
Confidence            421         11255666666655543

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.82  E-value=0.46  Score=39.67  Aligned_cols=92  Identities=13%  Similarity=0.074  Sum_probs=72.5

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHhc
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT---VTIIVLVKALHTA  702 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~---~~~~~l~~~~~~~  702 (766)
                      -+....|+++.|++.|.+.+..  .| .+..||.-..++.-+|+.++|++-++++++..-....   ..|..-...|...
T Consensus        51 valaE~g~Ld~AlE~F~qal~l--~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCL--APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHh--cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            3567889999999999999884  34 7889999999999999999999999998864322222   2233334557788


Q ss_pred             CChHHHHHHHHHHHHcCC
Q 004244          703 GMNEELSQVIENILRSCR  720 (766)
Q Consensus       703 g~~~~A~~~~~~~~~~~~  720 (766)
                      |+.+.|..-|+.+.+.|.
T Consensus       129 g~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLGS  146 (175)
T ss_pred             CchHHHHHhHHHHHHhCC
Confidence            999999999999988873

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.71  E-value=4.2  Score=44.68  Aligned_cols=100  Identities=12%  Similarity=0.114  Sum_probs=58.7

Q ss_pred             HCCCCCCHHHHH-----HHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCH---HHHHHHHHHHHHC
Q 004244          317 RKGLVPDEVTYN-----TLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNL---NRAMEFFDQMHVR  388 (766)
Q Consensus       317 ~~g~~p~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~  388 (766)
                      ..|++.+..-|.     .+|+-+...+.+..|+++-..+...-.. +..+|.....-+.+..+.   +-+..+=+++...
T Consensus       425 ~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~-~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~  503 (829)
T KOG2280|consen  425 RIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQ-GDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK  503 (829)
T ss_pred             ccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCcccc-ccHHHHHHHHHHHhccCccchHHHHHHHHHhccc
Confidence            346665555443     3466677778888888877665432111 256666677666665322   2222222222221


Q ss_pred             CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHH
Q 004244          389 ELRPNEKTYTTLINGFSQHGFLDEAYRLLNE  419 (766)
Q Consensus       389 ~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~  419 (766)
                       . ....+|..+.......|+.+-|..+++.
T Consensus       504 -~-~~~iSy~~iA~~Ay~~GR~~LA~kLle~  532 (829)
T KOG2280|consen  504 -L-TPGISYAAIARRAYQEGRFELARKLLEL  532 (829)
T ss_pred             -C-CCceeHHHHHHHHHhcCcHHHHHHHHhc
Confidence             2 3556777777777888888888887764

>PRK11906 transcriptional regulator; Provisional

Probab=95.71  E-value=0.3  Score=50.67  Aligned_cols=120  Identities=10%  Similarity=0.062  Sum_probs=92.4

Q ss_pred             CHHHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHhcc---------CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 004244          634 LMNEADRVFELML-QRNHMP-NEAVYDIIIHGHSKV---------GNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTA  702 (766)
Q Consensus       634 ~~~~A~~~~~~~~-~~~~~p-~~~~~~~l~~~~~~~---------g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  702 (766)
                      ..+.|..+|.+.. ...++| ....|..+..++...         ....+|.++.+++++.+ +-|......++.++...
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            4567888999988 223556 366666666665422         33457788888888654 45667777788888888


Q ss_pred             CChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          703 GMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       703 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      |+.+.|...|+++...+ |+.+..|...+....-.|+.++|.+.+++..+..+
T Consensus       352 ~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP  403 (458)
T PRK11906        352 GQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKSLQLEP  403 (458)
T ss_pred             cchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCc
Confidence            89999999999999998 77788888899999999999999999998665543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.70  E-value=2  Score=40.99  Aligned_cols=72  Identities=18%  Similarity=0.280  Sum_probs=43.3

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCC--CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004244          369 MCKSGNLNRAMEFFDQMHVREL--RPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHC  440 (766)
Q Consensus       369 ~~~~g~~~~A~~~~~~m~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~  440 (766)
                      -.+.|++++|.+.|+.+..+.+  +-...+.-.++-++.+.+++++|....++..+.-......-|...|.+++
T Consensus        44 ~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs  117 (254)
T COG4105          44 ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLS  117 (254)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHH
Confidence            4466777777777777776522  11244455566667777777777777777766533333334444455544

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.63  E-value=5.3  Score=46.37  Aligned_cols=79  Identities=16%  Similarity=0.083  Sum_probs=46.4

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEA--VYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGM  704 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~--~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~  704 (766)
                      .+|..+|+|.+|+.+..++...   -+..  +-..|+.-+..+++.-+|-++..+...   .|.     ..+..+++...
T Consensus       973 ~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~s---d~~-----~av~ll~ka~~ 1041 (1265)
T KOG1920|consen  973 KAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEAAKILLEYLS---DPE-----EAVALLCKAKE 1041 (1265)
T ss_pred             HHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhHHHHHHHHhc---CHH-----HHHHHHhhHhH
Confidence            5666667777776666655431   1211  224566667777777777777776542   222     23445667777


Q ss_pred             hHHHHHHHHHHH
Q 004244          705 NEELSQVIENIL  716 (766)
Q Consensus       705 ~~~A~~~~~~~~  716 (766)
                      +++|.......-
T Consensus      1042 ~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1042 WEEALRVASKAK 1053 (1265)
T ss_pred             HHHHHHHHHhcc
Confidence            777777665554

>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=0.46  Score=51.30  Aligned_cols=162  Identities=16%  Similarity=0.204  Sum_probs=100.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCC-CCCC-----HHHHHHHHHHHH----hcCCHHHHHHHHHHHHhCCCCCcHHhHH
Q 004244          539 TLINAYCTEGDIPQALRLHDEMIQKG-FLPD-----VVTYSVLINGLN----KQARTMEAKKLLLKLFYDESVPSDVIYN  608 (766)
Q Consensus       539 ~l~~~~~~~g~~~~A~~~~~~~~~~g-~~p~-----~~~~~~li~~~~----~~g~~~~A~~l~~~~~~~~~~p~~~~~~  608 (766)
                      .+++...-.|+-+.+++.+.+..+.+ +.-.     ...|...+..++    .....+.|.++++.+..  .-|+...|.
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~--~yP~s~lfl  270 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLK--RYPNSALFL  270 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHH--hCCCcHHHH
Confidence            34444444556666666555544321 1110     112333333222    35677888999998887  467877776


Q ss_pred             HHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhC--CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCC
Q 004244          609 TLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQR--NHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGF  685 (766)
Q Consensus       609 ~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  685 (766)
                      ..-+              ..+...|++++|++.|++....  ..+. ....+--++.++.-.++|++|.+.|.++.+.. 
T Consensus       271 ~~~g--------------R~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-  335 (468)
T PF10300_consen  271 FFEG--------------RLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-  335 (468)
T ss_pred             HHHH--------------HHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-
Confidence            6654              6778899999999999976631  1111 34455667888889999999999999998643 


Q ss_pred             CCCHHHHHHH-HHHHHhcCCh-------HHHHHHHHHHHH
Q 004244          686 VPHTVTIIVL-VKALHTAGMN-------EELSQVIENILR  717 (766)
Q Consensus       686 ~p~~~~~~~l-~~~~~~~g~~-------~~A~~~~~~~~~  717 (766)
                      .-....|.-+ +.++...|+.       ++|..++.++-.
T Consensus       336 ~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  336 KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            2233444433 3334466777       888888887543

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.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.57  E-value=0.24  Score=41.32  Aligned_cols=94  Identities=16%  Similarity=0.086  Sum_probs=76.6

Q ss_pred             HHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCh---HHHHHHHHHHHhcC
Q 004244          661 IHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSD---AELAKVLVEINHKE  737 (766)
Q Consensus       661 ~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~  737 (766)
                      .-++...|+.+.|++.|.+.+.. .+.....|+.-..++.-+|+.++|..-++++++..-+..   -..|..-+..|...
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            34577899999999999999854 234568899999999999999999999999999842333   23466677888899


Q ss_pred             CChhHHHHHHHHHHHCCC
Q 004244          738 GNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       738 g~~~~A~~~~~~m~~~~~  755 (766)
                      |+.+.|..-|+...+.|-
T Consensus       129 g~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLGS  146 (175)
T ss_pred             CchHHHHHhHHHHHHhCC
Confidence            999999999988877764

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.54  E-value=0.84  Score=48.69  Aligned_cols=84  Identities=19%  Similarity=0.228  Sum_probs=38.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCC-----------CCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHH
Q 004244          153 VKSYSHLNMIDKAVNIVNLAKVHGFM-----------PGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYT  221 (766)
Q Consensus       153 ~~~~~~~g~~~~A~~~~~~~~~~g~~-----------~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~  221 (766)
                      +..|..+|.+++|.++--.    |+.           .+.-.++..=.+|.+..+..| -+-..-+++|.+.|-.|+...
T Consensus       563 m~q~Ieag~f~ea~~iacl----gVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl~~-L~li~EL~~~k~rge~P~~iL  637 (1081)
T KOG1538|consen  563 MYQYIERGLFKEAYQIACL----GVTDTDWRELAMEALEALDFETARKAYIRVRDLRY-LELISELEERKKRGETPNDLL  637 (1081)
T ss_pred             chhhhhccchhhhhccccc----ceecchHHHHHHHHHhhhhhHHHHHHHHHHhccHH-HHHHHHHHHHHhcCCCchHHH
Confidence            4566777777777654321    111           122223333344444443333 222333445555555455432


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHH
Q 004244          222 YNVLIRGFCGVGDLEMGLRFFSE  244 (766)
Q Consensus       222 ~~~li~~~~~~g~~~~A~~~~~~  244 (766)
                         +...+.-.|++.+|-++|.+
T Consensus       638 ---lA~~~Ay~gKF~EAAklFk~  657 (1081)
T KOG1538|consen  638 ---LADVFAYQGKFHEAAKLFKR  657 (1081)
T ss_pred             ---HHHHHHhhhhHHHHHHHHHH
Confidence               23334445555555555543

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=95.51  E-value=0.079  Score=47.10  Aligned_cols=69  Identities=29%  Similarity=0.354  Sum_probs=37.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-----CCCCCCHHH
Q 004244          502 YSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQ-----KGFLPDVVT  571 (766)
Q Consensus       502 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~g~~p~~~~  571 (766)
                      ...++..+...|++++|..+.+.+.... +.+...|..+|.+|...|+..+|.+.|+.+.+     .|+.|+..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            3445555666666666666666666654 55566666666666666666666666665542     255555544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.49  E-value=0.038  Score=37.07  Aligned_cols=40  Identities=20%  Similarity=0.277  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHH
Q 004244          691 TIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLV  731 (766)
Q Consensus       691 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  731 (766)
                      ++..++..+...|+.++|++.++++++.. |.+...+..++
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~-P~~~~a~~~La   42 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALD-PDDPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCCHHHHHHhh
Confidence            45667777777777777777777777776 55566665554

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.40  E-value=2.4  Score=39.92  Aligned_cols=24  Identities=17%  Similarity=0.169  Sum_probs=11.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHH
Q 004244          536 TYTTLINAYCTEGDIPQALRLHDE  559 (766)
Q Consensus       536 ~~~~l~~~~~~~g~~~~A~~~~~~  559 (766)
                      .|+.....|...|..+.|-..+++
T Consensus        93 l~eKAs~lY~E~GspdtAAmaleK  116 (308)
T KOG1585|consen   93 LYEKASELYVECGSPDTAAMALEK  116 (308)
T ss_pred             HHHHHHHHHHHhCCcchHHHHHHH
Confidence            344444445555554444444433

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.39  E-value=0.44  Score=45.81  Aligned_cols=96  Identities=15%  Similarity=0.265  Sum_probs=76.4

Q ss_pred             hhhhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHhccCChHHHHHHHHHHHHc-CCCCC-HHHHHHHHHHHHhcC
Q 004244          628 GFCMKGLMNEADRVFELMLQRNHMP--NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRS-GFVPH-TVTIIVLVKALHTAG  703 (766)
Q Consensus       628 ~~~~~g~~~~A~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~-~~~p~-~~~~~~l~~~~~~~g  703 (766)
                      .+.+.|++.+|...|...++....-  ....+..|+.++...|++++|...|..+.+. +-.|- +..+..|+......|
T Consensus       150 ~~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~  229 (262)
T COG1729         150 DLYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLG  229 (262)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhc
Confidence            4567899999999999999764221  2445566999999999999999999999853 22222 377888999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCh
Q 004244          704 MNEELSQVIENILRSCRLSD  723 (766)
Q Consensus       704 ~~~~A~~~~~~~~~~~~~~~  723 (766)
                      +.++|...++++.+..|..+
T Consensus       230 ~~d~A~atl~qv~k~YP~t~  249 (262)
T COG1729         230 NTDEACATLQQVIKRYPGTD  249 (262)
T ss_pred             CHHHHHHHHHHHHHHCCCCH
Confidence            99999999999999974333

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.36  E-value=0.48  Score=46.39  Aligned_cols=153  Identities=14%  Similarity=0.072  Sum_probs=90.9

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCH
Q 004244          510 CEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDV----VTYSVLINGLNKQART  585 (766)
Q Consensus       510 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~----~~~~~li~~~~~~g~~  585 (766)
                      ...|+..+|...++++++. .|.|...++-.=.+|...|+.+.-...+++.... ..+|.    ..-..+.-++...|-+
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-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccc
Confidence            4467777777777777765 3666777777777777788877777777777654 23333    2333444555677888


Q ss_pred             HHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC----CHHHHHHHH
Q 004244          586 MEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP----NEAVYDIII  661 (766)
Q Consensus       586 ~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p----~~~~~~~l~  661 (766)
                      ++|.+.-++..+- .+-|.-.-.+..               +.+...|+..++.++..+-... .+.    -...|--..
T Consensus       192 ~dAEk~A~ralqi-N~~D~Wa~Ha~a---------------HVlem~~r~Keg~eFM~~ted~-Wr~s~mlasHNyWH~A  254 (491)
T KOG2610|consen  192 DDAEKQADRALQI-NRFDCWASHAKA---------------HVLEMNGRHKEGKEFMYKTEDD-WRQSWMLASHNYWHTA  254 (491)
T ss_pred             hhHHHHHHhhccC-CCcchHHHHHHH---------------HHHHhcchhhhHHHHHHhcccc-hhhhhHHHhhhhHHHH
Confidence            8888887777663 122332333333               5666777888777765544321 110    011222233


Q ss_pred             HHHhccCChHHHHHHHHHHH
Q 004244          662 HGHSKVGNVQKAYDLYKKMV  681 (766)
Q Consensus       662 ~~~~~~g~~~~A~~~~~~m~  681 (766)
                      -.+...+.++.|+++|++=+
T Consensus       255 l~~iE~aeye~aleIyD~ei  274 (491)
T KOG2610|consen  255 LFHIEGAEYEKALEIYDREI  274 (491)
T ss_pred             HhhhcccchhHHHHHHHHHH
Confidence            34556677888888877644

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.33  E-value=5.7  Score=43.71  Aligned_cols=344  Identities=12%  Similarity=0.108  Sum_probs=173.4

Q ss_pred             hhCCCCCCHHHHHH-----HHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCh--hHHHH-HHHHHhh
Q 004244          211 GKSRVSPNVYTYNV-----LIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRI--DDAFK-LLRDMGL  282 (766)
Q Consensus       211 ~~~g~~~~~~~~~~-----li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~--~~A~~-l~~~m~~  282 (766)
                      ..-|++.+..-|..     +|+-+...+.+..|.++-..+...-.. +...|.....-+.+..+.  +++.+ +-+++..
T Consensus       424 ~~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~-~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~  502 (829)
T KOG2280|consen  424 VRIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQ-GDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSA  502 (829)
T ss_pred             cccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCcccc-ccHHHHHHHHHHHhccCccchHHHHHHHHHhcc
Confidence            34577777766655     455666778888888887777543211 145566666666665322  22333 3333332


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCC----CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC
Q 004244          283 KGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLV----PDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPN  358 (766)
Q Consensus       283 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~----p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~  358 (766)
                      . . -+.++|..+..-....|+.+-|..+++.=...+..    .+..-+...+.-+.+.|+.+-...++-++...   .+
T Consensus       503 ~-~-~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~---~~  577 (829)
T KOG2280|consen  503 K-L-TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNK---LN  577 (829)
T ss_pred             c-C-CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHH---HH
Confidence            2 2 24456777777666888888888877643322211    01111223333444455555555554444432   01


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHH-----HHCCCCCCHHHHH
Q 004244          359 VVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEM-----TKNGFMPSIVTYN  433 (766)
Q Consensus       359 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m-----~~~g~~~~~~~~~  433 (766)
                      ...+..      ...+.-.|..+|.+..++.   |.   ..+-+.|-...+...+-.+.-+-     ...|..|+.   .
T Consensus       578 ~s~l~~------~l~~~p~a~~lY~~~~r~~---~~---~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~l---k  642 (829)
T KOG2280|consen  578 RSSLFM------TLRNQPLALSLYRQFMRHQ---DR---ATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPAL---K  642 (829)
T ss_pred             HHHHHH------HHHhchhhhHHHHHHHHhh---ch---hhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhH---H
Confidence            111111      1123344555555554431   11   11122222222222221111111     012222332   2


Q ss_pred             HHHHHHHhcCCHHHH----------HHHHHHHHH-CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHH
Q 004244          434 ALIKGHCTGGRVEDA----------VGVLHGMAR-KGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITY  502 (766)
Q Consensus       434 ~ll~~~~~~g~~~~A----------~~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  502 (766)
                      ...+.+.+.....-.          ..+.+.+.. .|..-...+.+--+.-+..-|+..+|.++-.+..    .||...|
T Consensus       643 ~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~  718 (829)
T KOG2280|consen  643 TAANAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLW  718 (829)
T ss_pred             HHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhH
Confidence            223334433331111          111122211 1222222334444555666777777777665543    3677777


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004244          503 SSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQ  582 (766)
Q Consensus       503 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~  582 (766)
                      -.-+.++...+++++-+++-+.+.      .+.-|.-...+|.+.|+.++|.+++.+....     .    -.+.+|.+.
T Consensus       719 wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA~KYiprv~~l-----~----ekv~ay~~~  783 (829)
T KOG2280|consen  719 WLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEAKKYIPRVGGL-----Q----EKVKAYLRV  783 (829)
T ss_pred             HHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHHhhhhhccCCh-----H----HHHHHHHHh
Confidence            777888888888887766655442      2445667778888888888888887654321     1    456677788


Q ss_pred             CCHHHHHHHHHH
Q 004244          583 ARTMEAKKLLLK  594 (766)
Q Consensus       583 g~~~~A~~l~~~  594 (766)
                      |++.+|.++--+
T Consensus       784 ~~~~eAad~A~~  795 (829)
T KOG2280|consen  784 GDVKEAADLAAE  795 (829)
T ss_pred             ccHHHHHHHHHH
Confidence            888887766443

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.29  E-value=6.3  Score=43.99  Aligned_cols=179  Identities=15%  Similarity=0.145  Sum_probs=113.5

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCH--HHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 004244          221 TYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANV--VTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIING  298 (766)
Q Consensus       221 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~--~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~  298 (766)
                      +...-+..+++...++.|..+-+.-   +..++.  .......+.+.+.|++++|...+-+-... ++|.     -+|.-
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~---~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~k  406 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQ---HLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKK  406 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhc---CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHH
Confidence            3445677777777777777665443   222221  22333445566789999998887665432 2332     34666


Q ss_pred             HHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHH
Q 004244          299 LCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRA  378 (766)
Q Consensus       299 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  378 (766)
                      |....+..+-..+++.+.+.|+. +...-..|+.+|.+.++.+.-.+..+... .|.-  ..-....+..+.+.+-.++|
T Consensus       407 fLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a  482 (933)
T KOG2114|consen  407 FLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEA  482 (933)
T ss_pred             hcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHH
Confidence            77777888888889999998875 55566778999999999988777666544 2211  11234456666677777777


Q ss_pred             HHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004244          379 MEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEM  420 (766)
Q Consensus       379 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m  420 (766)
                      .-+-.+...     +......   .+-..+++++|++++..+
T Consensus       483 ~~LA~k~~~-----he~vl~i---lle~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  483 ELLATKFKK-----HEWVLDI---LLEDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHHhcc-----CHHHHHH---HHHHhcCHHHHHHHHhcC
Confidence            766555432     2222233   344567888998888765

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.28  E-value=2.9  Score=40.02  Aligned_cols=200  Identities=18%  Similarity=0.084  Sum_probs=88.9

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          464 VVSYSTIISGFSRSQELDKAFDTKREMVEK-GVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLIN  542 (766)
Q Consensus       464 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~  542 (766)
                      ...+......+...+++..+...+...... ........+......+...+++..+...+.........+ .........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHH
Confidence            344444555555555555555555554431 112233444444445555555555555555555432222 111111222


Q ss_pred             -HHHhcCChHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhh
Q 004244          543 -AYCTEGDIPQALRLHDEMIQKGF--LPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEF  619 (766)
Q Consensus       543 -~~~~~g~~~~A~~~~~~~~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~  619 (766)
                       .+...|+++.|...+.+......  ......+......+...++.++|...+.+............+..+.        
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~--------  209 (291)
T COG0457         138 GALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLG--------  209 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhh--------
Confidence             45555566666665555543210  0122223333333444555555555555555431110122222222        


Q ss_pred             hhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHH
Q 004244          620 QNVAALLKGFCMKGLMNEADRVFELMLQRNHMPN-EAVYDIIIHGHSKVGNVQKAYDLYKKMV  681 (766)
Q Consensus       620 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~  681 (766)
                             ..+...++.+.|...+......  .|+ ...+..+...+...+..+++...+.+..
T Consensus       210 -------~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  263 (291)
T COG0457         210 -------LLYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKAL  263 (291)
T ss_pred             -------HHHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHH
Confidence                   4455555555555555555542  122 2233333333334444555555555554

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.23  E-value=2.6  Score=39.62  Aligned_cols=56  Identities=18%  Similarity=0.132  Sum_probs=29.4

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHcCC---CCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 004244          657 YDIIIHGHSKVGNVQKAYDLYKKMVRSGF---VPHTVTIIVLVKALHTAGMNEELSQVIE  713 (766)
Q Consensus       657 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~  713 (766)
                      |.+.+-.|....++..|...++.--+-+-   .-+..+...|+.+ +..|+.+++.+++.
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~a-yd~gD~E~~~kvl~  251 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTA-YDEGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHH-hccCCHHHHHHHHc
Confidence            44444555566677777777766332111   1122444555554 35577776665544

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.21  E-value=5.5  Score=42.82  Aligned_cols=191  Identities=8%  Similarity=0.041  Sum_probs=117.2

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004244          462 PDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLI  541 (766)
Q Consensus       462 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~  541 (766)
                      ++..+|..-++...+.|+.+.+.-+|++..-- +..=...|--.+.-....|+.+-|..++....+--++..+. ...+-
T Consensus       295 aql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~-i~L~~  372 (577)
T KOG1258|consen  295 AQLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPI-IHLLE  372 (577)
T ss_pred             HHHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcH-HHHHH
Confidence            34567888888888999999999888877542 11122334444555555699988888888776654332222 22222


Q ss_pred             HHH-HhcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHH---HHHHHHHhCCCCCcHHhHHHHhhhhch
Q 004244          542 NAY-CTEGDIPQALRLHDEMIQKGFLPDVV-TYSVLINGLNKQARTMEAK---KLLLKLFYDESVPSDVIYNTLIENCTN  616 (766)
Q Consensus       542 ~~~-~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~li~~~~~~g~~~~A~---~l~~~~~~~~~~p~~~~~~~ll~~~~~  616 (766)
                      ..+ -..|+++.|..+++..... . |+.+ .-..-+....+.|+.+.+.   +++........  +......+.-... 
T Consensus       373 a~f~e~~~n~~~A~~~lq~i~~e-~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~--~~~i~~~l~~~~~-  447 (577)
T KOG1258|consen  373 ARFEESNGNFDDAKVILQRIESE-Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKE--NNGILEKLYVKFA-  447 (577)
T ss_pred             HHHHHhhccHHHHHHHHHHHHhh-C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccccc--CcchhHHHHHHHH-
Confidence            223 3568999999999999876 3 5443 3333455567788888887   44444433211  1111111110000 


Q ss_pred             hhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCC
Q 004244          617 IEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGN  669 (766)
Q Consensus       617 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  669 (766)
                             .  -.+.-.++.+.|..++.++.+. .+++...|..+++.....+.
T Consensus       448 -------r--~~~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~~  490 (577)
T KOG1258|consen  448 -------R--LRYKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQPS  490 (577)
T ss_pred             -------H--HHHHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCCc
Confidence                   0  2244568899999999999885 44577778888877766553

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.20  E-value=0.98  Score=39.68  Aligned_cols=125  Identities=10%  Similarity=0.112  Sum_probs=85.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 004244          150 DLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGF  229 (766)
Q Consensus       150 ~~l~~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  229 (766)
                      ..+|..+...+.+.....+++.+...|. .+....|.++..+++.++    ....+.++.      ..+.+....+++.|
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~----~~ll~~l~~------~~~~yd~~~~~~~c   79 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP----QKEIERLDN------KSNHYDIEKVGKLC   79 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH----HHHHHHHHh------ccccCCHHHHHHHH
Confidence            4567777778889999999998887763 677788899999988762    455555552      13445555677888


Q ss_pred             HhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHc-CChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q 004244          230 CGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKL-GRIDDAFKLLRDMGLKGIEPNLISYNVIINGLC  300 (766)
Q Consensus       230 ~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~-g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~  300 (766)
                      .+.+.++++.-++..+..         |...+..+... ++++.|.+.+.+-      .+...|..++..+.
T Consensus        80 ~~~~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l  136 (140)
T smart00299       80 EKAKLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALL  136 (140)
T ss_pred             HHcCcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHH
Confidence            888888888888877643         33333444444 7778887777652      25567777776654

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.14  E-value=3.2  Score=39.72  Aligned_cols=52  Identities=15%  Similarity=0.065  Sum_probs=23.6

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCh---HHHHHHHHHHHhcCCChhHHHHHHH
Q 004244          696 VKALHTAGMNEELSQVIENILRSCRLSD---AELAKVLVEINHKEGNMDAVLNVLT  748 (766)
Q Consensus       696 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~  748 (766)
                      ++-|.+.|.+..|+.-++.+++.- +..   ......+.++|.+.|-.++|.+.-+
T Consensus       174 aryY~kr~~~~AA~nR~~~v~e~y-~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~  228 (254)
T COG4105         174 ARYYLKRGAYVAAINRFEEVLENY-PDTSAVREALARLEEAYYALGLTDEAKKTAK  228 (254)
T ss_pred             HHHHHHhcChHHHHHHHHHHHhcc-ccccchHHHHHHHHHHHHHhCChHHHHHHHH
Confidence            344445555555555555555441 221   2233344455555555555544433

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.02  E-value=0.18  Score=50.95  Aligned_cols=94  Identities=13%  Similarity=0.006  Sum_probs=73.7

Q ss_pred             HHHHhccCChHHHHHHHHHHHH-----cCCCC---------CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHH
Q 004244          661 IHGHSKVGNVQKAYDLYKKMVR-----SGFVP---------HTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAEL  726 (766)
Q Consensus       661 ~~~~~~~g~~~~A~~~~~~m~~-----~~~~p---------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  726 (766)
                      +..|.+.|++..|...|++++.     .+..+         -..++..++.++.+.+++.+|+..-++++..+ +++...
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KA  293 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKA  293 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhH
Confidence            4456677777777777766542     11111         12456778889999999999999999999998 677888


Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          727 AKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       727 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      .++-+.++...|+++.|...|+++.+...
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k~~P  322 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALKLEP  322 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHhCC
Confidence            88899999999999999999999987643

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=95.00  E-value=0.029  Score=35.03  Aligned_cols=32  Identities=13%  Similarity=0.241  Sum_probs=26.8

Q ss_pred             HHHHHHcCCCChHHHHHHHHHHHhcCCChhHHH
Q 004244          712 IENILRSCRLSDAELAKVLVEINHKEGNMDAVL  744 (766)
Q Consensus       712 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  744 (766)
                      ++++++.+ |.+..+|..|+..|...|++++|.
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            56778877 778888889999999999998885

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.84  E-value=0.46  Score=41.01  Aligned_cols=92  Identities=10%  Similarity=0.028  Sum_probs=50.0

Q ss_pred             HHHHhccCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHH--HHHHh
Q 004244          661 IHGHSKVGNVQKAYDLYKKMVRSGFVPH---TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVL--VEINH  735 (766)
Q Consensus       661 ~~~~~~~g~~~~A~~~~~~m~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l--~~~~~  735 (766)
                      +....+.|++++|++.|+.+... ++-.   ...-..++.++.+.|++++|+..+++.++..|......|...  +-++.
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~r-yP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~   95 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTR-YPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYY   95 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHH
Confidence            34445667777777777766643 1111   134445666777777777777777777776544332222222  22222


Q ss_pred             cCCC---------------hhHHHHHHHHHHHC
Q 004244          736 KEGN---------------MDAVLNVLTEMAKD  753 (766)
Q Consensus       736 ~~g~---------------~~~A~~~~~~m~~~  753 (766)
                      ++..               ..+|..-|++++..
T Consensus        96 ~~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~  128 (142)
T PF13512_consen   96 EQDEGSLQSFFRSDRDPTPARQAFRDFEQLVRR  128 (142)
T ss_pred             HHhhhHHhhhcccccCcHHHHHHHHHHHHHHHH
Confidence            3322               56677777766654

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.78  E-value=3.1  Score=40.59  Aligned_cols=120  Identities=15%  Similarity=0.143  Sum_probs=51.5

Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHH
Q 004244          335 CKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAY  414 (766)
Q Consensus       335 ~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~  414 (766)
                      ...|++.+|..+|....... +-+...-..++.+|...|+.+.|..++..+....-.........-|..+.+.....+..
T Consensus       145 ~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~~  223 (304)
T COG3118         145 IEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEIQ  223 (304)
T ss_pred             hhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCHH
Confidence            34455555555555554432 11233444455555555555555555555543311111111112223333333333333


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004244          415 RLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMAR  457 (766)
Q Consensus       415 ~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  457 (766)
                      .+-.+....  +.|...-..+...+...|+.++|.+.+-.+.+
T Consensus       224 ~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~  264 (304)
T COG3118         224 DLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLR  264 (304)
T ss_pred             HHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            333333322  22444444455555555555555555444443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.64  E-value=4.8  Score=39.32  Aligned_cols=145  Identities=13%  Similarity=0.111  Sum_probs=89.6

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCC
Q 004244          225 LIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGR  304 (766)
Q Consensus       225 li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~  304 (766)
                      -.......|+..+|..+|+...... +-+...--.++.+|...|+.++|..++..++..--.........-|..+.+...
T Consensus       140 ~~~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~  218 (304)
T COG3118         140 EAKELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAA  218 (304)
T ss_pred             HhhhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhc
Confidence            3445678899999999999888764 234566677888888999999999999888654211112222223444555555


Q ss_pred             hhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-CChHHHHHHHHHHHhcC
Q 004244          305 LKETKGILNEISRKGLVP-DEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLS-PNVVTYTSLINSMCKSG  373 (766)
Q Consensus       305 ~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~-~~~~~~~~li~~~~~~g  373 (766)
                      ..+...+-.+.-..   | |...-..+...+...|+.++|.+.+-.+++.... -|...-..++..+.-.|
T Consensus       219 ~~~~~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g  286 (304)
T COG3118         219 TPEIQDLQRRLAAD---PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFG  286 (304)
T ss_pred             CCCHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcC
Confidence            55555555554442   4 5555556667777777777777766666553211 24445555555555555

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.63  E-value=2.4  Score=44.45  Aligned_cols=56  Identities=16%  Similarity=0.095  Sum_probs=45.6

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHhccCChHHHHHHHHHHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHM-PNEAVYDIIIHGHSKVGNVQKAYDLYKKMVR  682 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  682 (766)
                      .+..+.|+.++|++.+++|.+.... .+..+...|+.++...+.+.++..++.+--+
T Consensus       267 mCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  267 MCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            6778999999999999999864322 1344667899999999999999999998653

The molecular function of this protein is uncertain.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.58  E-value=12  Score=43.68  Aligned_cols=128  Identities=9%  Similarity=0.119  Sum_probs=58.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH-CCC--CCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHH--HHHH
Q 004244          151 LVVKSYSHLNMIDKAVNIVNLAKV-HGF--MPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYT--YNVL  225 (766)
Q Consensus       151 ~l~~~~~~~g~~~~A~~~~~~~~~-~g~--~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~--~~~l  225 (766)
                      .-++-+...+++.+|+.+.+.-+- .++  .-+...|-.-+.++.+.-.  .++-...++..+....+.-+.+.  +.+-
T Consensus       682 a~vr~~l~~~~y~~AF~~~RkhRidlnii~d~~~~~Fl~nv~afl~~in--~~~~l~lfl~~lk~eDvtk~~y~~~~~s~  759 (1265)
T KOG1920|consen  682 AKVRTLLDRLRYKEAFEVMRKHRIDLNIIFDYDPKRFLKNVPAFLKQIN--RVNHLELFLTELKEEDVTKTMYSSTSGSG  759 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCccchhhcCHHHHHhhHHHHhccCC--cHHHHHHHHhhcccchhhhhhcccccccc
Confidence            346777888889888777665431 121  1123333333445554431  12444444444443221111110  0000


Q ss_pred             HHHHHhc----CChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcC--ChhHHHHHHHHHhh
Q 004244          226 IRGFCGV----GDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLG--RIDDAFKLLRDMGL  282 (766)
Q Consensus       226 i~~~~~~----g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g--~~~~A~~l~~~m~~  282 (766)
                      ...|...    ..++...+.......+. .|+ .-...+|..|.+.+  .+++|++...+...
T Consensus       760 k~~~~~r~~~d~kv~~vc~~vr~~l~~~-~~~-~~~~~ilTs~vk~~~~~ie~aL~kI~~l~~  820 (1265)
T KOG1920|consen  760 KQVYMSRDPYDNKVNSVCDAVRNALERR-APD-KFNLFILTSYVKSNPPEIEEALQKIKELQL  820 (1265)
T ss_pred             ceeEEeccchhhHHHHHHHHHHHHHhhc-Ccc-hhhHHHHHHHHhcCcHHHHHHHHHHHHHHh
Confidence            0111111    12222333333333332 344 44556777787777  67777777766654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.52  E-value=4.5  Score=38.53  Aligned_cols=59  Identities=10%  Similarity=0.045  Sum_probs=29.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004244          363 TSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMT  421 (766)
Q Consensus       363 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~  421 (766)
                      +.++..+.-.|.+.-....+++.++...+.+......|.+.-.+.|+.+.|...|++..
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~ve  239 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVE  239 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            34444444444555555555555554444444445555555555555555555555444

>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=94.44  E-value=6  Score=39.55  Aligned_cols=101  Identities=11%  Similarity=0.009  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHHhcCCHH---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004244          500 ITYSSLIHGLCEQRRIT---EACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLI  576 (766)
Q Consensus       500 ~~~~~li~~~~~~g~~~---~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li  576 (766)
                      .+...++.+|...+..+   +|..+++.+.... +-.+.++..-+..+.+.++.+++.+.+.+|+.. +.-....+..++
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~-~~~~e~~~~~~l  162 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS-VDHSESNFDSIL  162 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh-cccccchHHHHH
Confidence            35667777777766644   4555666665442 222444545566666688888888999888875 221223333333


Q ss_pred             HHH---HhcCCHHHHHHHHHHHHhCCCCCc
Q 004244          577 NGL---NKQARTMEAKKLLLKLFYDESVPS  603 (766)
Q Consensus       577 ~~~---~~~g~~~~A~~l~~~~~~~~~~p~  603 (766)
                      ..+   .. .....|...+..++...+.|.
T Consensus       163 ~~i~~l~~-~~~~~a~~~ld~~l~~r~~~~  191 (278)
T PF08631_consen  163 HHIKQLAE-KSPELAAFCLDYLLLNRFKSS  191 (278)
T ss_pred             HHHHHHHh-hCcHHHHHHHHHHHHHHhCCC
Confidence            333   33 233456666666655434443

It is also involved in sporulation [].

>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=94.42  E-value=0.64  Score=39.70  Aligned_cols=51  Identities=20%  Similarity=0.220  Sum_probs=36.6

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHH
Q 004244          529 GMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQK-GFLPDVVTYSVLINGL  579 (766)
Q Consensus       529 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-g~~p~~~~~~~li~~~  579 (766)
                      ...|+..+..+++.+|+..|++..|.++.+...+. +++-+...|..|+.-.
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            45677777788888888888888888888777754 5666667777766543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>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=94.41  E-value=0.57  Score=39.97  Aligned_cols=48  Identities=15%  Similarity=0.147  Sum_probs=25.3

Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHH
Q 004244          460 LAPDVVSYSTIISGFSRSQELDKAFDTKREMVEK-GVLPDTITYSSLIH  507 (766)
Q Consensus       460 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~  507 (766)
                      ..|+..+..+++.+|+..|++..|+++.+...+. ++..+...|..|+.
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            3455555555555555555555555555554433 44444455555554

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=94.37  E-value=1.5  Score=37.96  Aligned_cols=96  Identities=15%  Similarity=0.012  Sum_probs=60.4

Q ss_pred             HhhhhhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 004244          626 LKGFCMKGLMNEADRVFELMLQRNHMPN-EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGM  704 (766)
Q Consensus       626 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~  704 (766)
                      +..-...++.+++..+++.|.-  +.|+ ...-..-+..+...|+|++|+.++++..+.+  +.......|...|...-.
T Consensus        17 ~~~aL~~~d~~D~e~lLdALrv--LrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~--~~~p~~kAL~A~CL~al~   92 (153)
T TIGR02561        17 LMYALRSADPYDAQAMLDALRV--LRPNLKELDMFDGWLLIARGNYDEAARILRELLSSA--GAPPYGKALLALCLNAKG   92 (153)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHH--hCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC--CCchHHHHHHHHHHHhcC
Confidence            3444458999999999999986  3453 2222233455789999999999999998543  333333344444444433


Q ss_pred             hHHHHHHHHHHHHcCCCChHH
Q 004244          705 NEELSQVIENILRSCRLSDAE  725 (766)
Q Consensus       705 ~~~A~~~~~~~~~~~~~~~~~  725 (766)
                      -..-..+.+.+++.+.+++..
T Consensus        93 Dp~Wr~~A~~~le~~~~~~a~  113 (153)
T TIGR02561        93 DAEWHVHADEVLARDADADAV  113 (153)
T ss_pred             ChHHHHHHHHHHHhCCCHhHH
Confidence            345556666666665444433

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.23  E-value=2.6  Score=37.42  Aligned_cols=129  Identities=12%  Similarity=0.095  Sum_probs=84.9

Q ss_pred             hhhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHH---HHHHHHHHHHhcCC
Q 004244          629 FCMKGLMNEADRVFELMLQRNHMPN-EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTV---TIIVLVKALHTAGM  704 (766)
Q Consensus       629 ~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~---~~~~l~~~~~~~g~  704 (766)
                      +...+..++|+.-|..+.+.|..-- ...-.-......+.|+...|+..|.++-...-.|...   .-..-...+...|.
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            4567888999999998887665431 2222334455678899999999999987443334321   11223445667888


Q ss_pred             hHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC
Q 004244          705 NEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLP  757 (766)
Q Consensus       705 ~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  757 (766)
                      +++...-.+-+...+.+--...-..|+-+-.+.|++.+|.++|..+..-.-.|
T Consensus       148 y~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         148 YDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            88887777766655433333344567777788999999999998877644433

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.19  E-value=2.2  Score=38.78  Aligned_cols=93  Identities=13%  Similarity=0.088  Sum_probs=65.0

Q ss_pred             HHhhhhhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 004244          625 LLKGFCMKGLMNEADRVFELMLQRNHMPN--EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTA  702 (766)
Q Consensus       625 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  702 (766)
                      +...+..+|++++|...++.......+.+  ..+-..|.+...+.|++|+|+..++.....++.+  .....-++.+...
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~~--~~~elrGDill~k  172 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWAA--IVAELRGDILLAK  172 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHHH--HHHHHhhhHHHHc
Confidence            33778889999999999988775311111  1222346677888999999999988766433222  2233446788889


Q ss_pred             CChHHHHHHHHHHHHcC
Q 004244          703 GMNEELSQVIENILRSC  719 (766)
Q Consensus       703 g~~~~A~~~~~~~~~~~  719 (766)
                      |+.++|+..|+++++.+
T Consensus       173 g~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         173 GDKQEARAAYEKALESD  189 (207)
T ss_pred             CchHHHHHHHHHHHHcc
Confidence            99999999999999886

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.17  E-value=0.39  Score=45.81  Aligned_cols=31  Identities=23%  Similarity=0.266  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q 004244          200 VKFAEEVYNEMGKSRVSPNVYTYNVLIRGFC  230 (766)
Q Consensus       200 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  230 (766)
                      ++..-..++.|.+.|+.-|..+|+.|++.+-
T Consensus        88 veFIy~ALk~m~eyGVerDl~vYk~LlnvfP  118 (406)
T KOG3941|consen   88 VEFIYTALKYMKEYGVERDLDVYKGLLNVFP  118 (406)
T ss_pred             HHHHHHHHHHHHHhcchhhHHHHHHHHHhCc
Confidence            3444444555555555556666655555443

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.10  E-value=4.8  Score=37.19  Aligned_cols=54  Identities=13%  Similarity=0.026  Sum_probs=26.2

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC
Q 004244          509 LCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQK  563 (766)
Q Consensus       509 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  563 (766)
                      |-..|-..-|.--|.+.+... +.-+..||-|.--+...|+++.|.+.|+...+.
T Consensus        75 YDSlGL~~LAR~DftQaLai~-P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~EL  128 (297)
T COG4785          75 YDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL  128 (297)
T ss_pred             hhhhhHHHHHhhhhhhhhhcC-CCcHHHHHHHHHHHHhcccchHHHHHhhhHhcc
Confidence            334444444544444444331 222344555555555555566665555555544

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.04  E-value=3.9  Score=35.84  Aligned_cols=43  Identities=23%  Similarity=0.179  Sum_probs=24.6

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHc
Q 004244          224 VLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKL  267 (766)
Q Consensus       224 ~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~  267 (766)
                      .++..+.+.+.......+++.+...+ ..+...++.++..|++.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~   54 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH
Confidence            34555555556666666666665554 24555666666666554

>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=94.03  E-value=7.3  Score=38.95  Aligned_cols=62  Identities=16%  Similarity=0.155  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHhcCChH---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 004244          536 TYTTLINAYCTEGDIP---QALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYD  598 (766)
Q Consensus       536 ~~~~l~~~~~~~g~~~---~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~  598 (766)
                      ++..++.+|...+..+   +|..+++.+... ++-.+..+..-++.+.+.++.+++.+.+.+|+..
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            4556666776666543   344455555433 2222334434455555577777777777777765

It is also involved in sporulation [].

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.88  E-value=13  Score=41.35  Aligned_cols=80  Identities=24%  Similarity=0.238  Sum_probs=42.4

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHH----HHH-HHhcCCHHHHHHHHHHHHH-------CCCCCCHHHHHHHHHHHHc
Q 004244          409 FLDEAYRLLNEMTKNGFMPSIVTYNAL----IKG-HCTGGRVEDAVGVLHGMAR-------KGLAPDVVSYSTIISGFSR  476 (766)
Q Consensus       409 ~~~~A~~l~~~m~~~g~~~~~~~~~~l----l~~-~~~~g~~~~A~~~~~~~~~-------~~~~~~~~~~~~li~~~~~  476 (766)
                      ...+|.++++...+.|.   ...-..+    ..+ +....+.+.|..+++.+.+       .+   +......+..+|.+
T Consensus       227 ~~~~a~~~~~~~a~~g~---~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~  300 (552)
T KOG1550|consen  227 ELSEAFKYYREAAKLGH---SEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQ  300 (552)
T ss_pred             hhhHHHHHHHHHHhhcc---hHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhc
Confidence            35677888887777762   2222222    222 4455677777777777766       33   22233444444444


Q ss_pred             c----C-CHHHHHHHHHHHHHCC
Q 004244          477 S----Q-ELDKAFDTKREMVEKG  494 (766)
Q Consensus       477 ~----g-~~~~A~~~~~~m~~~~  494 (766)
                      .    . +.+.|..++....+.|
T Consensus       301 g~~~~~~d~~~A~~~~~~aA~~g  323 (552)
T KOG1550|consen  301 GLGVEKIDYEKALKLYTKAAELG  323 (552)
T ss_pred             CCCCccccHHHHHHHHHHHHhcC
Confidence            2    1 4445555555555544

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=93.69  E-value=15  Score=41.56  Aligned_cols=89  Identities=19%  Similarity=0.165  Sum_probs=46.4

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHH-------HHHHHHHH-HHhcCChHHHHHHHHHHHHC----CCCCCHHHHHHHHH
Q 004244          510 CEQRRITEACELFQEMLSRGMSPDEF-------TYTTLINA-YCTEGDIPQALRLHDEMIQK----GFLPDVVTYSVLIN  577 (766)
Q Consensus       510 ~~~g~~~~A~~~~~~m~~~~~~p~~~-------~~~~l~~~-~~~~g~~~~A~~~~~~~~~~----g~~p~~~~~~~li~  577 (766)
                      ....++++|..+..++...-..|+..       .++.|-.. ....|+++.|.++.+.....    -..+....+..+..
T Consensus       426 ~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~  505 (894)
T COG2909         426 ASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGE  505 (894)
T ss_pred             HHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhH
Confidence            34566677766666665432122211       22222211 23456666666666665543    12234455555556


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC
Q 004244          578 GLNKQARTMEAKKLLLKLFYD  598 (766)
Q Consensus       578 ~~~~~g~~~~A~~l~~~~~~~  598 (766)
                      +..-.|++++|..+..+..+.
T Consensus       506 a~~~~G~~~~Al~~~~~a~~~  526 (894)
T COG2909         506 AAHIRGELTQALALMQQAEQM  526 (894)
T ss_pred             HHHHhchHHHHHHHHHHHHHH
Confidence            666667777777666666554

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.64  E-value=1.4  Score=46.83  Aligned_cols=27  Identities=19%  Similarity=0.349  Sum_probs=12.8

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004244          358 NVVTYTSLINSMCKSGNLNRAMEFFDQ  384 (766)
Q Consensus       358 ~~~~~~~li~~~~~~g~~~~A~~~~~~  384 (766)
                      +...|..|.+...+.|+++-|.+.|.+
T Consensus       346 ~~~~W~~Lg~~AL~~g~~~lAe~c~~k  372 (443)
T PF04053_consen  346 DPEKWKQLGDEALRQGNIELAEECYQK  372 (443)
T ss_dssp             THHHHHHHHHHHHHTTBHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence            344444444444444444444444444

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.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.46  E-value=1.9  Score=37.33  Aligned_cols=72  Identities=21%  Similarity=0.226  Sum_probs=52.9

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCC-C-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHM-P-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT--VTIIVLVKALH  700 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~-p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~~~~~l~~~~~  700 (766)
                      ....+.|++++|++.|+.+...-.- | ...+-..++.+|.+.|++++|+..+++.++.  .|+.  +-|.....++.
T Consensus        18 ~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirL--hP~hp~vdYa~Y~~gL~   93 (142)
T PF13512_consen   18 QEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRL--HPTHPNVDYAYYMRGLS   93 (142)
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCCCccHHHHHHHHH
Confidence            3456789999999999999975221 2 4556678999999999999999999999864  3332  34444444544

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.41  E-value=5.3  Score=40.07  Aligned_cols=151  Identities=13%  Similarity=0.190  Sum_probs=75.2

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh--c----CCHHHHHHHHHHHHhCC---CCCcHHhHHHHhhhhchhhhhh
Q 004244          551 PQALRLHDEMIQKGFLPDVVTYSVLINGLNK--Q----ARTMEAKKLLLKLFYDE---SVPSDVIYNTLIENCTNIEFQN  621 (766)
Q Consensus       551 ~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~--~----g~~~~A~~l~~~~~~~~---~~p~~~~~~~ll~~~~~~~~~~  621 (766)
                      ++...+++.|.+.|+.-+..+|-+.......  .    ....+|..+++.|.+..   ..++...+..+++.-.      
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~~~------  152 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAMTS------  152 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhccc------
Confidence            3445566666666666665555442222211  1    23445677777776652   1345555555552100      


Q ss_pred             HHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhc-cCC--hHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004244          622 VAALLKGFCMKGLMNEADRVFELMLQRNHMPN-EAVYDIIIHGHSK-VGN--VQKAYDLYKKMVRSGFVPHTVTIIVLVK  697 (766)
Q Consensus       622 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~-~g~--~~~A~~~~~~m~~~~~~p~~~~~~~l~~  697 (766)
                             --...-.+.+..+|+.+.+.|+..+ ..-+.+-+-++.. ...  ..++.++++.+.+.|+++....|..++-
T Consensus       153 -------~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  153 -------EDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             -------ccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHH
Confidence                   0001113556677777777677663 2222222222222 111  3467788888888888777766665543


Q ss_pred             HHHhcCChHHHHHHHHH
Q 004244          698 ALHTAGMNEELSQVIEN  714 (766)
Q Consensus       698 ~~~~~g~~~~A~~~~~~  714 (766)
                      .....+..++...-+.+
T Consensus       226 Lall~~~~~~~~~~i~e  242 (297)
T PF13170_consen  226 LALLEDPEEKIVEEIKE  242 (297)
T ss_pred             HHhcCCchHHHHHHHHH
Confidence            33333333244333333

>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=4.4  Score=34.21  Aligned_cols=61  Identities=20%  Similarity=0.236  Sum_probs=29.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC
Q 004244          503 SSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKG  564 (766)
Q Consensus       503 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g  564 (766)
                      ...++.+.+.|+-++-.+++.++.+.+ .+++.....+..+|.+.|+..++.+++.+..++|
T Consensus        90 D~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   90 DLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            334445555555555555555555432 4455555555555555555555555555555554

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.31  E-value=1.9  Score=46.02  Aligned_cols=128  Identities=13%  Similarity=0.144  Sum_probs=57.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 004244          397 YTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSR  476 (766)
Q Consensus       397 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  476 (766)
                      .+.++.-+.+.|..+.|+.+-.+-..            -.....+.|+++.|.++.++      ..+...|..|.+...+
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L~~A~~~a~~------~~~~~~W~~Lg~~AL~  359 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNLDIALEIAKE------LDDPEKWKQLGDEALR  359 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-HHHHHHHCCC------CSTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCHHHHHHHHHh------cCcHHHHHHHHHHHHH
Confidence            45555555555555555555432111            12223355555555554321      1244555556555556


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 004244          477 SQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRL  556 (766)
Q Consensus       477 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  556 (766)
                      +|+++-|.+.|.+..+         |..|+-.|...|+.+.-.++.+.....| .     ++....++.-.|+.++..++
T Consensus       360 ~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~-~-----~n~af~~~~~lgd~~~cv~l  424 (443)
T PF04053_consen  360 QGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG-D-----INIAFQAALLLGDVEECVDL  424 (443)
T ss_dssp             TTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHH
T ss_pred             cCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc-C-----HHHHHHHHHHcCCHHHHHHH
Confidence            6666555555554322         2333444555555555555555544443 1     23333333444555544444


Q ss_pred             H
Q 004244          557 H  557 (766)
Q Consensus       557 ~  557 (766)
                      +
T Consensus       425 L  425 (443)
T PF04053_consen  425 L  425 (443)
T ss_dssp             H
T ss_pred             H
Confidence            3

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.

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.04  E-value=7.9  Score=36.35  Aligned_cols=73  Identities=22%  Similarity=0.175  Sum_probs=35.2

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH----HCCCCCCH-HHHHHHHHHHHhcC
Q 004244          509 LCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMI----QKGFLPDV-VTYSVLINGLNKQA  583 (766)
Q Consensus       509 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~g~~p~~-~~~~~li~~~~~~g  583 (766)
                      +.-.+++++|.++|.+...               +|--..+|+.|-..|-+.-    +.|-+.|. .+|....++| +.+
T Consensus        24 fgg~~k~eeAadl~~~Aan---------------~yklaK~w~~AG~aflkaA~~h~k~~skhDaat~YveA~~cy-kk~   87 (288)
T KOG1586|consen   24 FGGSNKYEEAAELYERAAN---------------MYKLAKNWSAAGDAFLKAADLHLKAGSKHDAATTYVEAANCY-KKV   87 (288)
T ss_pred             cCCCcchHHHHHHHHHHHH---------------HHHHHHhHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHh-hcc
Confidence            3444577888877776532               1222223333333332221    22323333 2343333333 556


Q ss_pred             CHHHHHHHHHHHHh
Q 004244          584 RTMEAKKLLLKLFY  597 (766)
Q Consensus       584 ~~~~A~~l~~~~~~  597 (766)
                      +.++|...++..++
T Consensus        88 ~~~eAv~cL~~aie  101 (288)
T KOG1586|consen   88 DPEEAVNCLEKAIE  101 (288)
T ss_pred             ChHHHHHHHHHHHH
Confidence            77887777776653

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.02  E-value=5.9  Score=35.25  Aligned_cols=124  Identities=12%  Similarity=0.127  Sum_probs=61.9

Q ss_pred             HHhcCChhhHHHHHHHHHhCCCCcCHH-HHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHH-HHHHH--HHHHHHcCC
Q 004244          229 FCGVGDLEMGLRFFSEMEKNNCLANVV-TYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLI-SYNVI--INGLCKEGR  304 (766)
Q Consensus       229 ~~~~g~~~~A~~~~~~m~~~g~~~~~~-~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-~~~~l--i~~~~~~g~  304 (766)
                      +.+.+..++|+.-|.++.+.|...=.+ .--.........|+..+|...|++.......|-+. -.-.+  .-.+...|.
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            455666677777777776665432111 11122233445666777777777665543233222 00111  112334566


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 004244          305 LKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVR  352 (766)
Q Consensus       305 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  352 (766)
                      ++......+.+-..+-+.-...-..|.-+-.+.|++..|.+.|..+..
T Consensus       148 y~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         148 YDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            666555555554443333333444455555566666666666666554

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.90  E-value=18  Score=40.19  Aligned_cols=17  Identities=35%  Similarity=0.565  Sum_probs=9.7

Q ss_pred             CCHHHHHHHHHHHHHCC
Q 004244          478 QELDKAFDTKREMVEKG  494 (766)
Q Consensus       478 g~~~~A~~~~~~m~~~~  494 (766)
                      .+...|..++++..++|
T Consensus       378 r~~~~A~~~~k~aA~~g  394 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKG  394 (552)
T ss_pred             CCHHHHHHHHHHHHHcc
Confidence            34555666666655555

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=92.80  E-value=0.78  Score=43.86  Aligned_cols=114  Identities=12%  Similarity=0.172  Sum_probs=68.1

Q ss_pred             HHHHHHHhhCCCCCCHHHHHHHHHHHHh-----cCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHH
Q 004244          204 EEVYNEMGKSRVSPNVYTYNVLIRGFCG-----VGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLR  278 (766)
Q Consensus       204 ~~~~~~m~~~g~~~~~~~~~~li~~~~~-----~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~  278 (766)
                      .+.|....  +-.-|..+|-..+..+..     .+.++--...++.|.+.|+..|..+|+.|++.+=+-           
T Consensus        54 e~~F~aa~--~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKg-----------  120 (406)
T KOG3941|consen   54 EKQFEAAE--PEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKG-----------  120 (406)
T ss_pred             hhhhhccC--cccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCccc-----------
Confidence            34444443  224577777777766653     355666667777777777777777777777654321           


Q ss_pred             HHhhCCCCCCHHHHHHHHHHHHHc-CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004244          279 DMGLKGIEPNLISYNVIINGLCKE-GRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGN  339 (766)
Q Consensus       279 ~m~~~g~~p~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  339 (766)
                           ...|..+    .-..|..- .+-+-+++++++|...|+.||..+-..|++++.+.+-
T Consensus       121 -----kfiP~nv----fQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  121 -----KFIPQNV----FQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             -----ccccHHH----HHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                 1112211    11112221 2234467788888888888888888888887777664

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=92.54  E-value=1.5  Score=39.87  Aligned_cols=94  Identities=16%  Similarity=0.114  Sum_probs=69.0

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCC-----HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPN-----EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALH  700 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~  700 (766)
                      .-+.+.|++++|..-|..+++.. ++.     ...|..-..++.+.+.|+.|++-..+.++.+  |.. .....-+.+|-
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~--pty~kAl~RRAeaye  179 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN--PTYEKALERRAEAYE  179 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC--chhHHHHHHHHHHHH
Confidence            34778999999999999999852 222     2345555567789999999999998888543  432 33334466788


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCh
Q 004244          701 TAGMNEELSQVIENILRSCRLSD  723 (766)
Q Consensus       701 ~~g~~~~A~~~~~~~~~~~~~~~  723 (766)
                      +...+++|+.-|+++++.+|..+
T Consensus       180 k~ek~eealeDyKki~E~dPs~~  202 (271)
T KOG4234|consen  180 KMEKYEEALEDYKKILESDPSRR  202 (271)
T ss_pred             hhhhHHHHHHHHHHHHHhCcchH
Confidence            88999999999999999984443

>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=92.29  E-value=6.3  Score=33.35  Aligned_cols=83  Identities=10%  Similarity=0.138  Sum_probs=44.1

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 004244          631 MKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQ  710 (766)
Q Consensus       631 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  710 (766)
                      .+|++...+..+-.+-     .+....+..++.+.++|+-+.-.++++.+.+.+ .+++.....++.+|.+.|+..+|.+
T Consensus        68 ~C~NlKrVi~C~~~~n-----~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~e  141 (161)
T PF09205_consen   68 KCGNLKRVIECYAKRN-----KLSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANE  141 (161)
T ss_dssp             G-S-THHHHHHHHHTT--------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHH
T ss_pred             hhcchHHHHHHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHH
Confidence            3455555544443321     134444556666667777777667766665432 5666666667777777777777777


Q ss_pred             HHHHHHHcC
Q 004244          711 VIENILRSC  719 (766)
Q Consensus       711 ~~~~~~~~~  719 (766)
                      ++.++-+.|
T Consensus       142 ll~~ACekG  150 (161)
T PF09205_consen  142 LLKEACEKG  150 (161)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHhc
Confidence            777776666

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=92.11  E-value=20  Score=38.74  Aligned_cols=133  Identities=11%  Similarity=0.076  Sum_probs=69.5

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHH-HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004244          253 NVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLI-SYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLL  331 (766)
Q Consensus       253 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  331 (766)
                      +-..|+++|..--.....+.+...++.+..+  -|-.. -|.....-=.+.|..+.+.++|++-+. |++-....|...+
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~-aip~SvdlW~~Y~  120 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQ-AIPLSVDLWLSYL  120 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-hhhhHHHHHHHHH
Confidence            4445555555443444445555566665533  23332 233333333455666777777776665 3433444444444


Q ss_pred             HHHH-hcCChHHHHHHHHHHHHC-CCC-CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004244          332 NGYC-KEGNLHQALVLHAEMVRN-GLS-PNVVTYTSLINSMCKSGNLNRAMEFFDQMHVR  388 (766)
Q Consensus       332 ~~~~-~~g~~~~A~~~~~~~~~~-g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  388 (766)
                      ..++ ..|+.+.....|+..+.. |.. .....|...|..-..++++.....+++++++.
T Consensus       121 ~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei  180 (577)
T KOG1258|consen  121 AFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI  180 (577)
T ss_pred             HHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh
Confidence            3333 355666666666665542 221 13445566666666666666666666666653

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=91.91  E-value=6.4  Score=39.50  Aligned_cols=129  Identities=12%  Similarity=0.168  Sum_probs=58.6

Q ss_pred             HHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHh--c----CChhhHHHHHHHHHhCCC---CcCHHHHHHHHHHHHHcCC-
Q 004244          200 VKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCG--V----GDLEMGLRFFSEMEKNNC---LANVVTYNTLIDGYCKLGR-  269 (766)
Q Consensus       200 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~--~----g~~~~A~~~~~~m~~~g~---~~~~~~~~~li~~~~~~g~-  269 (766)
                      +++...+++.|.+.|+.-+.++|-+-.-....  .    ....+|.++|+.|.+...   .++-..+.+++..  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            34555566666666666555555442222211  1    123455666666665431   1233444444433  2222 


Q ss_pred             ---hhHHHHHHHHHhhCCCCCCHH-HHHHHHHHHHHcCC---hhHHHHHHHHHHHCCCCCCHHHHHHH
Q 004244          270 ---IDDAFKLLRDMGLKGIEPNLI-SYNVIINGLCKEGR---LKETKGILNEISRKGLVPDEVTYNTL  330 (766)
Q Consensus       270 ---~~~A~~l~~~m~~~g~~p~~~-~~~~li~~~~~~g~---~~~a~~~~~~m~~~g~~p~~~~~~~l  330 (766)
                         .++++..++.+...|...+.. -+.+-+-+++....   ...+.++++.+.+.|+++....|..+
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence               234455555555555443322 22222222222111   33455666666666666555555443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=91.88  E-value=0.48  Score=31.64  Aligned_cols=38  Identities=13%  Similarity=0.204  Sum_probs=25.3

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHH
Q 004244          656 VYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVL  695 (766)
Q Consensus       656 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l  695 (766)
                      +|..+...|.+.|++++|+++++++++.  .|+. ..|..+
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~--~P~~~~a~~~L   41 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL--DPDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCCHHHHHHh
Confidence            4666777788888888888888887754  3443 444433

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=91.81  E-value=26  Score=39.49  Aligned_cols=41  Identities=22%  Similarity=0.277  Sum_probs=19.2

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004244          295 IINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCK  336 (766)
Q Consensus       295 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  336 (766)
                      +|--+.+.|++++|.++..+.... .......+...+..|..
T Consensus       117 ~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~  157 (613)
T PF04097_consen  117 LIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYAS  157 (613)
T ss_dssp             HHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTT
T ss_pred             HHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHh
Confidence            344445666666666666443332 22333344445555544

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.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.78  E-value=11  Score=39.11  Aligned_cols=68  Identities=15%  Similarity=0.121  Sum_probs=48.7

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC---hHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          688 HTVTIIVLVKALHTAGMNEELSQVIENILRSCRLS---DAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       688 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      ...+|..++..+.+.|.++.|...+.++...+...   .+.+...-++.+...|+..+|+..+++..+...
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~  215 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRL  215 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHh
Confidence            34677788888888888888888888887754221   344455567777888888888888877777333

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=91.68  E-value=2  Score=39.39  Aligned_cols=96  Identities=11%  Similarity=0.085  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CChHHHHH---
Q 004244          655 AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT--VTIIVLVKALHTAGMNEELSQVIENILRSCR-LSDAELAK---  728 (766)
Q Consensus       655 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~---  728 (766)
                      ..+..++..|++.|+.++|++.|.++.+....+..  ..+..++....-.|++..+..+++++...-- ..+...-+   
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            45677888888999999999999988876545544  5566778888888898888888888765521 12222111   


Q ss_pred             -HHHHHHhcCCChhHHHHHHHHH
Q 004244          729 -VLVEINHKEGNMDAVLNVLTEM  750 (766)
Q Consensus       729 -~l~~~~~~~g~~~~A~~~~~~m  750 (766)
                       .-+-.+...|++.+|.+.|-..
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHcc
Confidence             1223345578888888877543

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.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.30  E-value=20  Score=37.17  Aligned_cols=64  Identities=19%  Similarity=0.122  Sum_probs=45.8

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-----CCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHH
Q 004244          567 PDVVTYSVLINGLNKQARTMEAKKLLLKLFYDES-----VPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRV  641 (766)
Q Consensus       567 p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~-----~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  641 (766)
                      ....+|..++..+.+.|+++.|...+.++...+.     .|....  .-.               ......|+..+|+..
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~--e~a---------------kllw~~g~~~~Ai~~  206 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFL--EYA---------------KLLWAQGEQEEAIQK  206 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHH--HHH---------------HHHHHcCCHHHHHHH
Confidence            3456788888888899999999998888876421     222221  112               667888899999998


Q ss_pred             HHHHHh
Q 004244          642 FELMLQ  647 (766)
Q Consensus       642 ~~~~~~  647 (766)
                      ++...+
T Consensus       207 L~~~~~  212 (352)
T PF02259_consen  207 LRELLK  212 (352)
T ss_pred             HHHHHH
Confidence            888876

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=91.20  E-value=32  Score=39.21  Aligned_cols=90  Identities=18%  Similarity=0.105  Sum_probs=62.6

Q ss_pred             HHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH--------HHHhcCCHHHHHHHHHHHHHC----CCCCCHHHHHHHH
Q 004244          474 FSRSQELDKAFDTKREMVEKGVLPDTITYSSLIH--------GLCEQRRITEACELFQEMLSR----GMSPDEFTYTTLI  541 (766)
Q Consensus       474 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~--------~~~~~g~~~~A~~~~~~m~~~----~~~p~~~~~~~l~  541 (766)
                      .....++++|..+..++...-..|+...-..+..        .....|++++|.++.+.....    -..+....+..+.
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            4567889999999988876533444333333322        123568999999999988764    1223455677777


Q ss_pred             HHHHhcCChHHHHHHHHHHHHC
Q 004244          542 NAYCTEGDIPQALRLHDEMIQK  563 (766)
Q Consensus       542 ~~~~~~g~~~~A~~~~~~~~~~  563 (766)
                      .+..-.|++++|..+..+..+.
T Consensus       505 ~a~~~~G~~~~Al~~~~~a~~~  526 (894)
T COG2909         505 EAAHIRGELTQALALMQQAEQM  526 (894)
T ss_pred             HHHHHhchHHHHHHHHHHHHHH
Confidence            8888899999999998877654

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.12  E-value=0.48  Score=29.97  Aligned_cols=25  Identities=20%  Similarity=0.165  Sum_probs=14.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHH
Q 004244          692 IIVLVKALHTAGMNEELSQVIENIL  716 (766)
Q Consensus       692 ~~~l~~~~~~~g~~~~A~~~~~~~~  716 (766)
                      |..|+..+.+.|++++|+.++++++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4455666666666666666666644

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.06  E-value=2.5  Score=38.41  Aligned_cols=92  Identities=11%  Similarity=0.125  Sum_probs=72.2

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Q 004244          659 IIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT----VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEIN  734 (766)
Q Consensus       659 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  734 (766)
                      .+...+...|++++|...++..+..  +.|.    ..-..|.......|..|+|...++.....+  ........-++++
T Consensus        94 ~lAk~~ve~~~~d~A~aqL~~~l~~--t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~--w~~~~~elrGDil  169 (207)
T COG2976          94 ELAKAEVEANNLDKAEAQLKQALAQ--TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEES--WAAIVAELRGDIL  169 (207)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHcc--chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccccc--HHHHHHHHhhhHH
Confidence            3456678999999999999988732  3333    223367788899999999999998877664  2344456678999


Q ss_pred             hcCCChhHHHHHHHHHHHCC
Q 004244          735 HKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       735 ~~~g~~~~A~~~~~~m~~~~  754 (766)
                      ...|+.++|..-|++...++
T Consensus       170 l~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         170 LAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHcCchHHHHHHHHHHHHcc
Confidence            99999999999999999887

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.01  E-value=15  Score=35.19  Aligned_cols=165  Identities=15%  Similarity=0.157  Sum_probs=76.9

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHC---CC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CCCCCHHHHH
Q 004244          469 TIISGFSRSQELDKAFDTKREMVEK---GV--LPDTITYSSLIHGLCEQRRITEACELFQEMLSR-----GMSPDEFTYT  538 (766)
Q Consensus       469 ~li~~~~~~g~~~~A~~~~~~m~~~---~~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~~p~~~~~~  538 (766)
                      .+|..+.+.+++++....+++|...   .+  .-+..+.+.+++-.....+.+.-.+.|+.-++.     +-..--.|-.
T Consensus        70 QmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNt  149 (440)
T KOG1464|consen   70 QMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNT  149 (440)
T ss_pred             HHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccc
Confidence            3444555555555555555544321   00  012233444454444444444444433332211     0011111223


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCC----C-------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCcHHh
Q 004244          539 TLINAYCTEGDIPQALRLHDEMIQKGF----L-------PDVVTYSVLINGLNKQARTMEAKKLLLKLFYDE-SVPSDVI  606 (766)
Q Consensus       539 ~l~~~~~~~g~~~~A~~~~~~~~~~g~----~-------p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~-~~p~~~~  606 (766)
                      .|...|...|++.+-.+++.++...-.    .       .-...|..-|..|..+.+-..-..++++.+.-. --|.+..
T Consensus       150 KLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlI  229 (440)
T KOG1464|consen  150 KLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLI  229 (440)
T ss_pred             hHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHH
Confidence            455666666666666666666653210    1       112445555666666666666666666655432 2233333


Q ss_pred             HHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHH
Q 004244          607 YNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFEL  644 (766)
Q Consensus       607 ~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  644 (766)
                       ..++..|+.          ....+.|++++|..-|-+
T Consensus       230 -mGvIRECGG----------KMHlreg~fe~AhTDFFE  256 (440)
T KOG1464|consen  230 -MGVIRECGG----------KMHLREGEFEKAHTDFFE  256 (440)
T ss_pred             -HhHHHHcCC----------ccccccchHHHHHhHHHH
Confidence             233444543          456667777777654433

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.98  E-value=30  Score=38.63  Aligned_cols=102  Identities=11%  Similarity=0.091  Sum_probs=51.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCC---ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhc
Q 004244          331 LNGYCKEGNLHQALVLHAEMVRNGLSP---NVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQH  407 (766)
Q Consensus       331 i~~~~~~g~~~~A~~~~~~~~~~g~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~  407 (766)
                      ++.+.+.+.+++|..+.+....  ..+   -......+|..+.-.|++++|-...-.|...    +..-|...+..+...
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~--~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~  436 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIG--NEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAEL  436 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccC--CccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhccc
Confidence            4555666666666665554332  222   2334555666666666666666666666543    455555555555555


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004244          408 GFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCT  441 (766)
Q Consensus       408 g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~  441 (766)
                      ++......++   .......+...|..++..+..
T Consensus       437 ~~l~~Ia~~l---Pt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  437 DQLTDIAPYL---PTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             cccchhhccC---CCCCcccCchHHHHHHHHHHH
Confidence            4443332221   111111344456666555554

>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=90.78  E-value=12  Score=33.64  Aligned_cols=29  Identities=21%  Similarity=0.438  Sum_probs=14.0

Q ss_pred             HHHHhhCCCCCCHHHHHHHHHHHHHcCCh
Q 004244          277 LRDMGLKGIEPNLISYNVIINGLCKEGRL  305 (766)
Q Consensus       277 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~  305 (766)
                      ++.+...+++|+...|..+++.+.+.|++
T Consensus        17 irSl~~~~i~~~~~L~~lli~lLi~~~~~   45 (167)
T PF07035_consen   17 IRSLNQHNIPVQHELYELLIDLLIRNGQF   45 (167)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Confidence            33334444455555555555555555543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=90.70  E-value=0.45  Score=30.11  Aligned_cols=26  Identities=15%  Similarity=0.259  Sum_probs=22.4

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHH
Q 004244          656 VYDIIIHGHSKVGNVQKAYDLYKKMV  681 (766)
Q Consensus       656 ~~~~l~~~~~~~g~~~~A~~~~~~m~  681 (766)
                      +|..|+..|.+.|++++|++++++.+
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            47789999999999999999999965

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.53  E-value=3  Score=40.94  Aligned_cols=78  Identities=19%  Similarity=0.237  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-----CCCCCCHHHHHH
Q 004244          500 ITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQ-----KGFLPDVVTYSV  574 (766)
Q Consensus       500 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~g~~p~~~~~~~  574 (766)
                      .++..++..+...|+.+.+.+.++++.... +-+...|..++.+|.+.|+...|+..++.+.+     .|+.|...+...
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            345566667777777777777777777765 56677777777777777777777777777664     367777766655


Q ss_pred             HHHH
Q 004244          575 LING  578 (766)
Q Consensus       575 li~~  578 (766)
                      +...
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5444

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=90.21  E-value=0.29  Score=30.49  Aligned_cols=22  Identities=18%  Similarity=0.262  Sum_probs=13.7

Q ss_pred             CHHHHHHHHHHHhccCChHHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAY  674 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~  674 (766)
                      +...|+.++..|...|++++|+
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            5566666666666666666654

>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]

Probab=90.10  E-value=23  Score=35.71  Aligned_cols=77  Identities=16%  Similarity=0.141  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHH----hcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCC---------
Q 004244          672 KAYDLYKKMVRSGFVPHTVTIIVLVKALH----TAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEG---------  738 (766)
Q Consensus       672 ~A~~~~~~m~~~~~~p~~~~~~~l~~~~~----~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---------  738 (766)
                      .|...+.++-..+   +......+...|.    ...+.++|..+|+++.+.+.   ......+. .+...|         
T Consensus       173 ~A~~~~~~aa~~~---~~~a~~~lg~~y~~G~Gv~~d~~~A~~wy~~Aa~~g~---~~a~~~~~-~~~~~g~g~~~~~~~  245 (292)
T COG0790         173 KALYLYRKAAELG---NPDAQLLLGRMYEKGLGVPRDLKKAFRWYKKAAEQGD---GAACYNLG-LMYLNGEGVKKAAFL  245 (292)
T ss_pred             hHHHHHHHHHHhc---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCC---HHHHHHHH-HHHhcCCCchhhhhc
Confidence            5666666655444   2222233332222    12355666666666666652   22222333 333333         


Q ss_pred             ------ChhHHHHHHHHHHHCCC
Q 004244          739 ------NMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       739 ------~~~~A~~~~~~m~~~~~  755 (766)
                            +...|...+......|.
T Consensus       246 ~~~~~~~~~~a~~~~~~~~~~~~  268 (292)
T COG0790         246 TAAKEEDKKQALEWLQKACELGF  268 (292)
T ss_pred             ccccCCCHHHHHHHHHHHHHcCC
Confidence                  55566666665555544

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.06  E-value=0.9  Score=27.98  Aligned_cols=28  Identities=25%  Similarity=0.110  Sum_probs=14.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          692 IIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       692 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      |..++..+...|++++|++.++++++..
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~l~   31 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALELD   31 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence            4445555555555555555555555544

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 ....

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=90.00  E-value=26  Score=36.36  Aligned_cols=132  Identities=18%  Similarity=0.234  Sum_probs=98.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          499 TITYSSLIHGLCEQRRITEACELFQEMLSRG-MSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLIN  577 (766)
Q Consensus       499 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~  577 (766)
                      ...|...+..-.+..-++.|..+|-++.+.+ +.+++..+++.+.-++ .|+...|.++|+.-..+ ++.+..--...+.
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~-f~d~~~y~~kyl~  474 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK-FPDSTLYKEKYLL  474 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh-CCCchHHHHHHHH
Confidence            4567777887778888899999999999888 5678888888888765 57888899999877765 3333344456677


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCc--HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhC
Q 004244          578 GLNKQARTMEAKKLLLKLFYDESVPS--DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQR  648 (766)
Q Consensus       578 ~~~~~g~~~~A~~l~~~~~~~~~~p~--~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (766)
                      -+...++-+.|..+|+..+.. +..+  ...|..++               +--..-|++..+..+-+++.+.
T Consensus       475 fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi---------------~YEs~~G~lN~v~sLe~rf~e~  531 (660)
T COG5107         475 FLIRINDEENARALFETSVER-LEKTQLKRIYDKMI---------------EYESMVGSLNNVYSLEERFREL  531 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHH---------------HHHHhhcchHHHHhHHHHHHHH
Confidence            778889999999999976654 2222  44566666               6667778888888888877763

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.80  E-value=8.6  Score=35.15  Aligned_cols=93  Identities=12%  Similarity=0.037  Sum_probs=68.1

Q ss_pred             HHHhccCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhc
Q 004244          662 HGHSKVGNVQKAYDLYKKMVRSGFVPHT-----VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHK  736 (766)
Q Consensus       662 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  736 (766)
                      .-+.+.|++++|..-|.++++. +++..     ..|..-+.++.+.+.++.|+.-..++++.+ |........-+.+|.+
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-pty~kAl~RRAeayek  180 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-PTYEKALERRAEAYEK  180 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-chhHHHHHHHHHHHHh
Confidence            3456788888888888888754 23222     445555677788888888888888888887 4445555667788888


Q ss_pred             CCChhHHHHHHHHHHHCCCC
Q 004244          737 EGNMDAVLNVLTEMAKDGLL  756 (766)
Q Consensus       737 ~g~~~~A~~~~~~m~~~~~~  756 (766)
                      ...+++|++-++++......
T Consensus       181 ~ek~eealeDyKki~E~dPs  200 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILESDPS  200 (271)
T ss_pred             hhhHHHHHHHHHHHHHhCcc
Confidence            88888888888888776643

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=89.70  E-value=3.1  Score=40.83  Aligned_cols=77  Identities=14%  Similarity=0.214  Sum_probs=64.1

Q ss_pred             hhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHH-----cCCCCCHHHHH
Q 004244          620 QNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVR-----SGFVPHTVTII  693 (766)
Q Consensus       620 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~~~  693 (766)
                      .....++..+...|+.+.+.+.++++.+.  .| +...|..++.+|.+.|+...|+..|+++.+     .|+.|...+..
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~--dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIEL--DPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            34456668899999999999999999985  45 889999999999999999999999998763     58888887776


Q ss_pred             HHHHH
Q 004244          694 VLVKA  698 (766)
Q Consensus       694 ~l~~~  698 (766)
                      .+...
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            65555

>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=89.34  E-value=16  Score=32.88  Aligned_cols=134  Identities=13%  Similarity=0.157  Sum_probs=64.2

Q ss_pred             HHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCC
Q 004244          205 EVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKG  284 (766)
Q Consensus       205 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g  284 (766)
                      +..+.+.+.|++|+...|..+++.+.+.|++..    +..+.+.++-+|.......+-.+.  +....+.++--.|..+ 
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkR-   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKR-   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHH-
Confidence            334444455666666677777777776666433    344445555555443333332221  2233344444444332 


Q ss_pred             CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 004244          285 IEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVR  352 (766)
Q Consensus       285 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  352 (766)
                         =...+..++..+...|++-+|+++.......    +......++.+..+.++...=..+++-..+
T Consensus        88 ---L~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   88 ---LGTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             ---hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               0113455566666677777776666554221    111123344444455554444444444333

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=89.10  E-value=33  Score=36.27  Aligned_cols=89  Identities=13%  Similarity=0.157  Sum_probs=51.7

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh--ccCChHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHhcC
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHS--KVGNVQKAYDLYKKMVR-SGFVPHTVTIIVLVKALHTAG  703 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~--~~g~~~~A~~~~~~m~~-~~~~p~~~~~~~l~~~~~~~g  703 (766)
                      +.+...|-..+|...+..+... .+|+...|..++..-.  ..-+...+.++++.|.. .|  .|+..|.....--...|
T Consensus       468 ~~~~e~~~~~~ark~y~~l~~l-pp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg--~d~~lw~~y~~~e~~~g  544 (568)
T KOG2396|consen  468 DWAYESGGYKKARKVYKSLQEL-PPFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFG--ADSDLWMDYMKEELPLG  544 (568)
T ss_pred             HHHHHhcchHHHHHHHHHHHhC-CCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhC--CChHHHHHHHHhhccCC
Confidence            5666677777777777777764 2335555555553321  12235666666776663 34  55555655555555666


Q ss_pred             ChHHHHHHHHHHHHc
Q 004244          704 MNEELSQVIENILRS  718 (766)
Q Consensus       704 ~~~~A~~~~~~~~~~  718 (766)
                      ..+.+-.++.++++.
T Consensus       545 ~~en~~~~~~ra~kt  559 (568)
T KOG2396|consen  545 RPENCGQIYWRAMKT  559 (568)
T ss_pred             CcccccHHHHHHHHh
Confidence            666666666665543

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=88.89  E-value=1.2  Score=27.54  Aligned_cols=29  Identities=21%  Similarity=0.070  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          691 TIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       691 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      +|..++..+...|++++|+..++++++.+
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            34445555555555555555555555544

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 ....

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=88.81  E-value=25  Score=34.40  Aligned_cols=56  Identities=18%  Similarity=0.087  Sum_probs=34.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHH
Q 004244          695 LVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMA  751 (766)
Q Consensus       695 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  751 (766)
                      ....|..+|.+.+|+++.++++..+ |-+...+..|...|...|+--+|.+-++++.
T Consensus       285 va~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         285 VARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            4455566666666666666666665 4455556666666666666666655555543

>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=88.45  E-value=6.5  Score=36.04  Aligned_cols=60  Identities=12%  Similarity=0.085  Sum_probs=28.6

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCChHHHHHHHHHH
Q 004244          291 SYNVIINGLCKEGRLKETKGILNEISRKGLVPDE--VTYNTLLNGYCKEGNLHQALVLHAEM  350 (766)
Q Consensus       291 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~~  350 (766)
                      .+..+...|++.|+.++|.+.|.++.+....+..  ..+..+|......|++..+.....+.
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            3444555555555555555555555544322221  23344445555555555555544443

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.

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=87.51  E-value=6.8  Score=37.15  Aligned_cols=92  Identities=16%  Similarity=0.167  Sum_probs=45.8

Q ss_pred             ccCChHHHHHHHHHHHH----cCCCCCH--HHHHHHHHHHHhcCChHH-------HHHHHHHHHHcCCC-----ChHHHH
Q 004244          666 KVGNVQKAYDLYKKMVR----SGFVPHT--VTIIVLVKALHTAGMNEE-------LSQVIENILRSCRL-----SDAELA  727 (766)
Q Consensus       666 ~~g~~~~A~~~~~~m~~----~~~~p~~--~~~~~l~~~~~~~g~~~~-------A~~~~~~~~~~~~~-----~~~~~~  727 (766)
                      ....+++|++.+.-++-    .+.+|..  ..+..+++.|...|+.+.       |...|+++.+....     ++..+.
T Consensus        89 ~~Rt~~~ai~~YkLAll~~~~~~~~~s~~A~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~  168 (214)
T PF09986_consen   89 GERTLEEAIESYKLALLCAQIKKEKPSKKAGLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLL  168 (214)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHH
Confidence            34445555555544331    1222222  334455566666665333       44444444433211     124445


Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHHCCCCC
Q 004244          728 KVLVEINHKEGNMDAVLNVLTEMAKDGLLP  757 (766)
Q Consensus       728 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  757 (766)
                      ..+++...+.|+.++|.++|.++...+-..
T Consensus       169 YLigeL~rrlg~~~eA~~~fs~vi~~~~~s  198 (214)
T PF09986_consen  169 YLIGELNRRLGNYDEAKRWFSRVIGSKKAS  198 (214)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHcCCCCC
Confidence            566666667777777777777666655433

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=87.31  E-value=1.8  Score=42.67  Aligned_cols=91  Identities=14%  Similarity=0.036  Sum_probs=71.1

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  705 (766)
                      +-|.++|.+++|+..|.+...  ..| +++++..-..+|.+...+..|..-.+.++... ..-...|..-+.+-...|+.
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~  181 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNN  181 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhH
Confidence            568999999999999998877  456 88889888899999999988888777776321 11124455555666677999


Q ss_pred             HHHHHHHHHHHHcCC
Q 004244          706 EELSQVIENILRSCR  720 (766)
Q Consensus       706 ~~A~~~~~~~~~~~~  720 (766)
                      .+|.+-++.+++..+
T Consensus       182 ~EAKkD~E~vL~LEP  196 (536)
T KOG4648|consen  182 MEAKKDCETVLALEP  196 (536)
T ss_pred             HHHHHhHHHHHhhCc
Confidence            999999999999873

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=86.80  E-value=61  Score=36.70  Aligned_cols=196  Identities=14%  Similarity=0.171  Sum_probs=104.5

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHH-CCCCC--ChHHHHHHHHHHH-hcCCHHHHHHHHHHHHHCCCCCCHh--
Q 004244          322 PDEVTYNTLLNGYCKEGNLHQALVLHAEMVR-NGLSP--NVVTYTSLINSMC-KSGNLNRAMEFFDQMHVRELRPNEK--  395 (766)
Q Consensus       322 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~g~~~--~~~~~~~li~~~~-~~g~~~~A~~~~~~m~~~~~~~~~~--  395 (766)
                      .+...|..||.         .|++.++.+.+ ..++|  +..++--+...+. ...++++|...+.+.....-.++..  
T Consensus        28 ~~l~~Y~kLI~---------~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~   98 (608)
T PF10345_consen   28 EQLKQYYKLIA---------TAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDL   98 (608)
T ss_pred             hhHHHHHHHHH---------HHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHH
Confidence            34556666665         57777777773 33444  2444555666665 5677888888888765543222221  


Q ss_pred             ---HHHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCCCHHHHHHH-HHHHHhcCCHHHHHHHHHHHHHCC---CCCCH
Q 004244          396 ---TYTTLINGFSQHGFLDEAYRLLNEMTKNG----FMPSIVTYNAL-IKGHCTGGRVEDAVGVLHGMARKG---LAPDV  464 (766)
Q Consensus       396 ---~~~~li~~~~~~g~~~~A~~l~~~m~~~g----~~~~~~~~~~l-l~~~~~~g~~~~A~~~~~~~~~~~---~~~~~  464 (766)
                         +...++..+.+.+... |...+++..+.-    ..+-...+..+ +..+...++...|.+.++.+...-   ..|..
T Consensus        99 k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~  177 (608)
T PF10345_consen   99 KFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAV  177 (608)
T ss_pred             HHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHH
Confidence               1234455666666555 777777765531    11222233333 222223367777777777765531   23334


Q ss_pred             HHHHHHHHHH--HccCCHHHHHHHHHHHHHCCC---------CCCHHHHHHHHHHHH--hcCCHHHHHHHHHHHHH
Q 004244          465 VSYSTIISGF--SRSQELDKAFDTKREMVEKGV---------LPDTITYSSLIHGLC--EQRRITEACELFQEMLS  527 (766)
Q Consensus       465 ~~~~~li~~~--~~~g~~~~A~~~~~~m~~~~~---------~p~~~~~~~li~~~~--~~g~~~~A~~~~~~m~~  527 (766)
                      .++..++.+.  .+.+..+++.+.++++.....         .|-..+|..+++.++  ..|+++.+...++++.+
T Consensus       178 ~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~  253 (608)
T PF10345_consen  178 FVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQ  253 (608)
T ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4444444432  345556666666666644321         223455555555443  45666666666655543

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 [].

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=86.50  E-value=63  Score=36.53  Aligned_cols=22  Identities=23%  Similarity=0.510  Sum_probs=13.0

Q ss_pred             HhccCChHHHHHHHHHHHHcCCCCC
Q 004244          664 HSKVGNVQKAYDLYKKMVRSGFVPH  688 (766)
Q Consensus       664 ~~~~g~~~~A~~~~~~m~~~~~~p~  688 (766)
                      +...|++++|++.++++   ++.|.
T Consensus       515 ~~~~g~~~~AL~~i~~L---~liP~  536 (613)
T PF04097_consen  515 LYHAGQYEQALDIIEKL---DLIPL  536 (613)
T ss_dssp             HHHTT-HHHHHHHHHHT---T-S-S
T ss_pred             HHHcCCHHHHHHHHHhC---CCCCC
Confidence            45777888887777766   45663

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.

>PRK09687 putative lyase; Provisional

Probab=86.44  E-value=37  Score=33.85  Aligned_cols=231  Identities=8%  Similarity=0.004  Sum_probs=115.9

Q ss_pred             CCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCCh----hhHHHHHHHHHhCCCCcCH
Q 004244          179 PGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDL----EMGLRFFSEMEKNNCLANV  254 (766)
Q Consensus       179 ~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~----~~A~~~~~~m~~~g~~~~~  254 (766)
                      +|.......+.++...|.    +.+......+..   .+|...-...+.++++.|+.    .++..++..+...  .++.
T Consensus        35 ~d~~vR~~A~~aL~~~~~----~~~~~~l~~ll~---~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~  105 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGG----QDVFRLAIELCS---SKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSA  105 (280)
T ss_pred             CCHHHHHHHHHHHHhcCc----chHHHHHHHHHh---CCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCH
Confidence            455555555666666552    345455555443   24555556666667776653    3566666666433  2454


Q ss_pred             HHHHHHHHHHHHcCC-----hhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHH
Q 004244          255 VTYNTLIDGYCKLGR-----IDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNT  329 (766)
Q Consensus       255 ~~~~~li~~~~~~g~-----~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  329 (766)
                      .+-...+.+++..+.     ..++...+......   ++...-...+.++.+.++ +++...+-.+.+.   +|..+-..
T Consensus       106 ~VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D---~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~  178 (280)
T PRK09687        106 CVRASAINATGHRCKKNPLYSPKIVEQSQITAFD---KSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNW  178 (280)
T ss_pred             HHHHHHHHHHhcccccccccchHHHHHHHHHhhC---CCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHH
Confidence            545455555544432     12333333333322   344444455566655554 4455555555542   34444444


Q ss_pred             HHHHHHhcC-ChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcC
Q 004244          330 LLNGYCKEG-NLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHG  408 (766)
Q Consensus       330 li~~~~~~g-~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  408 (766)
                      .+.++.+.+ ....+...+..+..   .+|..+....+.++.+.|+ ..|...+-+..+.+   +  .....+.++...|
T Consensus       179 A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~---~--~~~~a~~ALg~ig  249 (280)
T PRK09687        179 AAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKD-KRVLSVLIKELKKG---T--VGDLIIEAAGELG  249 (280)
T ss_pred             HHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCC-hhHHHHHHHHHcCC---c--hHHHHHHHHHhcC
Confidence            444444432 13345555555553   2455666666666666666 34555555544432   2  2234555666666


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          409 FLDEAYRLLNEMTKNGFMPSIVTYNALIK  437 (766)
Q Consensus       409 ~~~~A~~l~~~m~~~g~~~~~~~~~~ll~  437 (766)
                      .. +|...+..+.+.  .+|..+-...+.
T Consensus       250 ~~-~a~p~L~~l~~~--~~d~~v~~~a~~  275 (280)
T PRK09687        250 DK-TLLPVLDTLLYK--FDDNEIITKAID  275 (280)
T ss_pred             CH-hHHHHHHHHHhh--CCChhHHHHHHH
Confidence            54 466666665553  234444333333

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.31  E-value=8.9  Score=37.67  Aligned_cols=49  Identities=20%  Similarity=0.411  Sum_probs=27.0

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004244          479 ELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLS  527 (766)
Q Consensus       479 ~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  527 (766)
                      +.++++.++..=+..|+-||..+++.+++.+.+.+++.+|.++...|..
T Consensus       115 ~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  115 DPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             ChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            3445555555555555555555555555555555555555555555444

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=86.12  E-value=1.6  Score=26.91  Aligned_cols=31  Identities=16%  Similarity=0.081  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          724 AELAKVLVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       724 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      +..|..++.+|...|++++|++.+++..+..
T Consensus         1 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    1 AEAYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            3578899999999999999999999988754

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 ....

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=85.90  E-value=30  Score=32.27  Aligned_cols=29  Identities=14%  Similarity=0.094  Sum_probs=16.9

Q ss_pred             HHHHHHHHHHhcCCChhHHHHHHHHHHHC
Q 004244          725 ELAKVLVEINHKEGNMDAVLNVLTEMAKD  753 (766)
Q Consensus       725 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  753 (766)
                      ++|..|++.+...|+.++|..+|+-.+.+
T Consensus       238 EtyFYL~K~~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         238 ETYFYLGKYYLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            44555666666666666666666555444

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=85.89  E-value=1.7  Score=26.74  Aligned_cols=30  Identities=13%  Similarity=0.073  Sum_probs=25.6

Q ss_pred             HHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          725 ELAKVLVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       725 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      ..+..++.++...|++++|.+.+++..+..
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            567889999999999999999999987654

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 ....

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=85.85  E-value=19  Score=37.83  Aligned_cols=109  Identities=15%  Similarity=0.057  Sum_probs=73.5

Q ss_pred             hhhhhcCCHHHHHHHHHHHH---hCCC--CC---CHHHHHHHHHHHhccCChHHHHHHHHHHHH-------cCCCCCH--
Q 004244          627 KGFCMKGLMNEADRVFELML---QRNH--MP---NEAVYDIIIHGHSKVGNVQKAYDLYKKMVR-------SGFVPHT--  689 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~---~~~~--~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-------~~~~p~~--  689 (766)
                      ..+...|++.+|.+++...-   +.|.  .|   .-..||.++-.+.+.|.+.-+..+|.+++.       .|++|..  
T Consensus       248 q~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~  327 (696)
T KOG2471|consen  248 QLEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTF  327 (696)
T ss_pred             HHHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcce
Confidence            55667889999988875432   1221  12   122347777777788888888888877763       4655543  


Q ss_pred             --------HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhc
Q 004244          690 --------VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHK  736 (766)
Q Consensus       690 --------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  736 (766)
                              ......+-.+...|+.-.|.+.|.++...- ..++..|..|++++..
T Consensus       328 tls~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~vf-h~nPrlWLRlAEcCim  381 (696)
T KOG2471|consen  328 TLSQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHVF-HRNPRLWLRLAECCIM  381 (696)
T ss_pred             ehhcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHHH-hcCcHHHHHHHHHHHH
Confidence                    112233456678899999999999988763 5567889999888763

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=85.73  E-value=7.1  Score=40.50  Aligned_cols=129  Identities=16%  Similarity=0.086  Sum_probs=85.5

Q ss_pred             hhcCCHHHHHH-HHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHH
Q 004244          630 CMKGLMNEADR-VFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEEL  708 (766)
Q Consensus       630 ~~~g~~~~A~~-~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A  708 (766)
                      ...|+.-.|-+ ++..+....-.|+....  ........|.++.+...+...... +-....+..++++...+.|++++|
T Consensus       300 ~~~gd~~aas~~~~~~lr~~~~~p~~i~l--~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a  376 (831)
T PRK15180        300 LADGDIIAASQQLFAALRNQQQDPVLIQL--RSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREA  376 (831)
T ss_pred             hhccCHHHHHHHHHHHHHhCCCCchhhHH--HHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHH
Confidence            45677666654 44444444334544433  334466789999998887765521 234456778888899999999999


Q ss_pred             HHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCCCCC
Q 004244          709 SQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLPNSGRS  762 (766)
Q Consensus       709 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  762 (766)
                      ....+-++...+. ++++....+-.-...|-++++.-.|+++...+...+.|+.
T Consensus       377 ~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~~g~v  429 (831)
T PRK15180        377 LSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQSGWV  429 (831)
T ss_pred             HHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccCChhcccce
Confidence            9999888877533 3333333333445567889999999998888777777653

>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=85.71  E-value=1.2e+02  Score=39.03  Aligned_cols=322  Identities=14%  Similarity=0.077  Sum_probs=156.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHH----HHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004244          364 SLINSMCKSGNLNRAMEFFDQM----HVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGH  439 (766)
Q Consensus       364 ~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~  439 (766)
                      .+..+-.++|.+.+|...+++-    .+.  ......|..+...|...+++|....+...-..     +...+. -|-..
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~--~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a-----~~sl~~-qil~~ 1459 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEK--ETEEALYFLLQNLYGSIHDPDGVEGVSARRFA-----DPSLYQ-QILEH 1459 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchh--HHHHHHHHHHHHHHHhcCCcchhhhHHHHhhc-----CccHHH-HHHHH
Confidence            4556667888888888888873    221  11233444555578888888877777664211     222222 33445


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHH-HHHHHhcCCHHHH
Q 004244          440 CTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSL-IHGLCEQRRITEA  518 (766)
Q Consensus       440 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l-i~~~~~~g~~~~A  518 (766)
                      ...|++..|...|+.+.+.+.+ ...+++.++......|.++.++...+-.... ..+....|+.+ +.+--+.++++..
T Consensus      1460 e~~g~~~da~~Cye~~~q~~p~-~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~-~se~~~~~~s~~~eaaW~l~qwD~~ 1537 (2382)
T KOG0890|consen 1460 EASGNWADAAACYERLIQKDPD-KEKHHSGVLKSMLAIQHLSTEILHLDGLIIN-RSEEVDELNSLGVEAAWRLSQWDLL 1537 (2382)
T ss_pred             HhhccHHHHHHHHHHhhcCCCc-cccchhhHHHhhhcccchhHHHhhhcchhhc-cCHHHHHHHHHHHHHHhhhcchhhh
Confidence            6778888888888888876432 3566666666666667777766655544332 12233333332 2233455666655


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHH--HHHHHhc--CChHHHHHHHHHHHHC--------CCC-CCHHHHHHHHHHHHhcCCH
Q 004244          519 CELFQEMLSRGMSPDEFTYTTL--INAYCTE--GDIPQALRLHDEMIQK--------GFL-PDVVTYSVLINGLNKQART  585 (766)
Q Consensus       519 ~~~~~~m~~~~~~p~~~~~~~l--~~~~~~~--g~~~~A~~~~~~~~~~--------g~~-p~~~~~~~li~~~~~~g~~  585 (766)
                      ...+.   ..    +..+|...  .....+.  .+.-.-.+..+.+.+.        +.. .-...|..+++...-...-
T Consensus      1538 e~~l~---~~----n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~el~ 1610 (2382)
T KOG0890|consen 1538 ESYLS---DR----NIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLELE 1610 (2382)
T ss_pred             hhhhh---cc----cccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHHHH
Confidence            55544   11    11122221  2221111  1111111122222111        010 0012233333322111111


Q ss_pred             HHHHHHHHHHH-hCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHH-HhC----CCCC-CHHHHH
Q 004244          586 MEAKKLLLKLF-YDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELM-LQR----NHMP-NEAVYD  658 (766)
Q Consensus       586 ~~A~~l~~~~~-~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~----~~~p-~~~~~~  658 (766)
                      ... +.+.... .....-+..-|...+               ..-....+..+-+--+++. ...    +..- -..+|.
T Consensus      1611 ~~~-~~l~~~s~~~~s~~~sd~W~~Rl---------------~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wL 1674 (2382)
T KOG0890|consen 1611 NSI-EELKKVSYDEDSANNSDNWKNRL---------------ERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWL 1674 (2382)
T ss_pred             HHH-HHhhccCccccccccchhHHHHH---------------HHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHH
Confidence            111 1110000 000011111111111               1111111122222222221 111    1111 346777


Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 004244          659 IIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRL  721 (766)
Q Consensus       659 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  721 (766)
                      ..++.....|+++.|...+-++.+.+ .|  ..+...+..+...|+...|..++++.++...+
T Consensus      1675 qsAriaR~aG~~q~A~nall~A~e~r-~~--~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~~ 1734 (2382)
T KOG0890|consen 1675 QSARIARLAGHLQRAQNALLNAKESR-LP--EIVLERAKLLWQTGDELNALSVLQEILSKNFP 1734 (2382)
T ss_pred             HHHHHHHhcccHHHHHHHHHhhhhcc-cc--hHHHHHHHHHHhhccHHHHHHHHHHHHHhhcc
Confidence            88888888999999988887776554 23  44556778888999999999999999876533

>KOG2062 consensus 26S proteasome regulatory complex, subunit RPN2/PSMD1 [Posttranslational modification, protein turnover, chaperones]

Probab=85.68  E-value=65  Score=35.94  Aligned_cols=121  Identities=15%  Similarity=0.114  Sum_probs=65.4

Q ss_pred             hhhhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004244          628 GFCMKGLMNEADRVFELMLQRNHMPN--EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       628 ~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  705 (766)
                      ++..-|+.++|..+.++|.... .|-  ..-...++.+|+-.|+-.-..+++.-.+.. ..-|..-....+-++.-..+.
T Consensus       510 aL~~ygrqe~Ad~lI~el~~dk-dpilR~~Gm~t~alAy~GTgnnkair~lLh~aVsD-~nDDVrRaAVialGFVl~~dp  587 (929)
T KOG2062|consen  510 ALVVYGRQEDADPLIKELLRDK-DPILRYGGMYTLALAYVGTGNNKAIRRLLHVAVSD-VNDDVRRAAVIALGFVLFRDP  587 (929)
T ss_pred             HHHHhhhhhhhHHHHHHHhcCC-chhhhhhhHHHHHHHHhccCchhhHHHhhcccccc-cchHHHHHHHHHheeeEecCh
Confidence            3444566667777777776432 221  111224455677777766666655554422 122223333333444455666


Q ss_pred             HHHHHHHHHHHHcCCCChHH--HHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          706 EELSQVIENILRSCRLSDAE--LAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       706 ~~A~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      +.-..+.+-+.+.. .+.+.  +...|+-++.-.|. .+|..+++-|..
T Consensus       588 ~~~~s~V~lLses~-N~HVRyGaA~ALGIaCAGtG~-~eAi~lLepl~~  634 (929)
T KOG2062|consen  588 EQLPSTVSLLSESY-NPHVRYGAAMALGIACAGTGL-KEAINLLEPLTS  634 (929)
T ss_pred             hhchHHHHHHhhhc-ChhhhhhHHHHHhhhhcCCCc-HHHHHHHhhhhc
Confidence            66666666555543 34333  33345555556666 788899888876

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=85.66  E-value=3.8  Score=40.47  Aligned_cols=90  Identities=13%  Similarity=-0.007  Sum_probs=64.4

Q ss_pred             HHHHhccCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCC
Q 004244          661 IHGHSKVGNVQKAYDLYKKMVRSGFVP-HTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGN  739 (766)
Q Consensus       661 ~~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  739 (766)
                      +.-|.++|++++|+..|.+.+  ...| +++++..-+.+|.+...+..|..--+.++..+ ..-...|..-+.+--..|+
T Consensus       104 GN~yFKQgKy~EAIDCYs~~i--a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAI--AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhh--ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhh
Confidence            345778888888888888877  3456 66777777778888888887777777777665 3446667777766667777


Q ss_pred             hhHHHHHHHHHHHC
Q 004244          740 MDAVLNVLTEMAKD  753 (766)
Q Consensus       740 ~~~A~~~~~~m~~~  753 (766)
                      ..||.+-.+..++.
T Consensus       181 ~~EAKkD~E~vL~L  194 (536)
T KOG4648|consen  181 NMEAKKDCETVLAL  194 (536)
T ss_pred             HHHHHHhHHHHHhh
Confidence            77777766665543

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.18  E-value=9.2  Score=37.58  Aligned_cols=50  Identities=14%  Similarity=0.127  Sum_probs=32.1

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHH
Q 004244          632 KGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMV  681 (766)
Q Consensus       632 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  681 (766)
                      .-+.++++.++..=++.|+-||..+++.+++.+.+.+++.+|..+...|+
T Consensus       113 ky~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~  162 (418)
T KOG4570|consen  113 KYDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVM  162 (418)
T ss_pred             ccChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            33555666666666666666666666666666666666666666655554

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=84.78  E-value=28  Score=30.94  Aligned_cols=49  Identities=18%  Similarity=0.263  Sum_probs=22.0

Q ss_pred             hcCChhhHHHHHHHHHhCCCCcC---HHHHHHHHHHHHHcCChhHHHHHHHHHhhC
Q 004244          231 GVGDLEMGLRFFSEMEKNNCLAN---VVTYNTLIDGYCKLGRIDDAFKLLRDMGLK  283 (766)
Q Consensus       231 ~~g~~~~A~~~~~~m~~~g~~~~---~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  283 (766)
                      +.++.+++..+++.+.-.  .|.   ..++...  .+...|++.+|..+|+++...
T Consensus        22 ~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~--l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVL--RPEFPELDLFDGW--LHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             ccCChHHHHHHHHHHHHh--CCCchHHHHHHHH--HHHHhCCHHHHHHHHHHHhcc
Confidence            344555555555555432  222   1222222  233455555555555555443

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=84.58  E-value=59  Score=34.53  Aligned_cols=100  Identities=11%  Similarity=0.050  Sum_probs=73.5

Q ss_pred             CCCHHHH-HHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--hcCChHHHHHHHHHHHHcCCCChHHHH
Q 004244          651 MPNEAVY-DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALH--TAGMNEELSQVIENILRSCRLSDAELA  727 (766)
Q Consensus       651 ~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~--~~g~~~~A~~~~~~~~~~~~~~~~~~~  727 (766)
                      .|+..++ +.+++-+.+.|-.++|...+.++.... +|+...+..++..-.  .+.+..-+..+++.++..- ..++..|
T Consensus       456 ~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~lp-p~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~f-g~d~~lw  533 (568)
T KOG2396|consen  456 GADSVTLKSKYLDWAYESGGYKKARKVYKSLQELP-PFSLDLFRKMIQFEKEQESCNLANIREYYDRALREF-GADSDLW  533 (568)
T ss_pred             CCceeehhHHHHHHHHHhcchHHHHHHHHHHHhCC-CccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHh-CCChHHH
Confidence            3555555 667888889999999999999998542 455566666654432  3345888899999998773 2678888


Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          728 KVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       728 ~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      ......-...|..+.+-.++.+..+
T Consensus       534 ~~y~~~e~~~g~~en~~~~~~ra~k  558 (568)
T KOG2396|consen  534 MDYMKEELPLGRPENCGQIYWRAMK  558 (568)
T ss_pred             HHHHHhhccCCCcccccHHHHHHHH
Confidence            7777766788998888888777554

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=83.97  E-value=18  Score=34.31  Aligned_cols=104  Identities=12%  Similarity=0.074  Sum_probs=75.8

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCC
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNE-AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGM  704 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~  704 (766)
                      .-|....+++.|+..|.+.+.  +.|+. ..|..=+-++.+..+|+.+.+--.+++  .+.|+. .....+..++.....
T Consensus        18 nk~f~~k~y~~ai~~y~raI~--~nP~~~~Y~tnralchlk~~~~~~v~~dcrral--ql~~N~vk~h~flg~~~l~s~~   93 (284)
T KOG4642|consen   18 NKCFIPKRYDDAIDCYSRAIC--INPTVASYYTNRALCHLKLKHWEPVEEDCRRAL--QLDPNLVKAHYFLGQWLLQSKG   93 (284)
T ss_pred             ccccchhhhchHHHHHHHHHh--cCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHH--hcChHHHHHHHHHHHHHHhhcc
Confidence            456667889999998888887  45765 455667778889999999988888877  457776 344567778888899


Q ss_pred             hHHHHHHHHHHHHc----CCCChHHHHHHHHHHH
Q 004244          705 NEELSQVIENILRS----CRLSDAELAKVLVEIN  734 (766)
Q Consensus       705 ~~~A~~~~~~~~~~----~~~~~~~~~~~l~~~~  734 (766)
                      +++|+..++++...    .+++...+...|.++-
T Consensus        94 ~~eaI~~Lqra~sl~r~~~~~~~~di~~~L~~ak  127 (284)
T KOG4642|consen   94 YDEAIKVLQRAYSLLREQPFTFGDDIPKALRDAK  127 (284)
T ss_pred             ccHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHH
Confidence            99999999998543    2334445555555543

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.63  E-value=19  Score=38.88  Aligned_cols=148  Identities=19%  Similarity=0.126  Sum_probs=78.9

Q ss_pred             cCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHH
Q 004244          232 VGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGI  311 (766)
Q Consensus       232 ~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  311 (766)
                      .|+++.|-.++-.+.+       ..-+.+++.+-+.|-.++|+++-         +|...   -.....+.|+++.|.++
T Consensus       599 rrd~~~a~~vLp~I~k-------~~rt~va~Fle~~g~~e~AL~~s---------~D~d~---rFelal~lgrl~iA~~l  659 (794)
T KOG0276|consen  599 RRDLEVADGVLPTIPK-------EIRTKVAHFLESQGMKEQALELS---------TDPDQ---RFELALKLGRLDIAFDL  659 (794)
T ss_pred             hccccccccccccCch-------hhhhhHHhHhhhccchHhhhhcC---------CChhh---hhhhhhhcCcHHHHHHH
Confidence            4666666555444432       22345555566666666665532         12111   11223356677777666


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 004244          312 LNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELR  391 (766)
Q Consensus       312 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  391 (766)
                      ..+.      .+..-|..|.++..+.|++..|.+.|.....         |..|+-.+...|+-+....+-....+.|..
T Consensus       660 a~e~------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~~  724 (794)
T KOG0276|consen  660 AVEA------NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGKN  724 (794)
T ss_pred             HHhh------cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhccc
Confidence            5543      2445567777777777777777776665432         344555566666655555554444444432


Q ss_pred             CCHhHHHHHHHHHHhcCCHHHHHHHHHH
Q 004244          392 PNEKTYTTLINGFSQHGFLDEAYRLLNE  419 (766)
Q Consensus       392 ~~~~~~~~li~~~~~~g~~~~A~~l~~~  419 (766)
                       | .+|    -+|...|+++++.+++.+
T Consensus       725 -N-~AF----~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  725 -N-LAF----LAYFLSGDYEECLELLIS  746 (794)
T ss_pred             -c-hHH----HHHHHcCCHHHHHHHHHh
Confidence             2 222    234556677776666544

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=82.23  E-value=2.8  Score=27.16  Aligned_cols=28  Identities=18%  Similarity=0.289  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          725 ELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       725 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      .+++.|+..|...|++++|.+++++..+
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            3456666777777777777776666543

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.60  E-value=98  Score=34.89  Aligned_cols=102  Identities=16%  Similarity=0.078  Sum_probs=56.4

Q ss_pred             HHHHHhcCChhhHHHHHHHHHhCCCCc---CHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHc
Q 004244          226 IRGFCGVGDLEMGLRFFSEMEKNNCLA---NVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKE  302 (766)
Q Consensus       226 i~~~~~~g~~~~A~~~~~~m~~~g~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~  302 (766)
                      |+.+.+.+.+++|+++-+.....  .|   -...+...|+.+.-.|++++|-.+.-.|...    +...|..-+.-+...
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~--~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~  436 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGN--EERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAEL  436 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCC--ccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhccc
Confidence            44566677777777666555432  22   2345667777777777887777777777542    555566555555555


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004244          303 GRLKETKGILNEISRKGLVPDEVTYNTLLNGYCK  336 (766)
Q Consensus       303 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  336 (766)
                      ++......+   +.......+...|..++..+..
T Consensus       437 ~~l~~Ia~~---lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  437 DQLTDIAPY---LPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             cccchhhcc---CCCCCcccCchHHHHHHHHHHH
Confidence            554433222   2221112334455555555444

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=81.60  E-value=52  Score=31.72  Aligned_cols=281  Identities=17%  Similarity=0.156  Sum_probs=146.4

Q ss_pred             CCCCCCHHHHHHHHHH-HHhcCChHHHHHHHHHHHHCCCCCCh---HHHHHHHHHHHhcCCHHHHHHHHHHHHHC---CC
Q 004244          318 KGLVPDEVTYNTLLNG-YCKEGNLHQALVLHAEMVRNGLSPNV---VTYTSLINSMCKSGNLNRAMEFFDQMHVR---EL  390 (766)
Q Consensus       318 ~g~~p~~~~~~~li~~-~~~~g~~~~A~~~~~~~~~~g~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~---~~  390 (766)
                      .+-+||+..-|..-+. -.+..++++|+.-|+++++.......   ...-.+|..+.+.|++++..+.+.++..-   .+
T Consensus        20 s~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAV   99 (440)
T KOG1464|consen   20 SNSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAV   99 (440)
T ss_pred             cCCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHH
Confidence            3455666544432222 12455788999999988875322222   33446788888999999998888887542   11


Q ss_pred             --CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--
Q 004244          391 --RPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKN-----GFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLA--  461 (766)
Q Consensus       391 --~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-----g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~--  461 (766)
                        .-+..+.|.+++......+.+--...++.-.+.     +-..=-.|-..|.+.|...|.+.+..+++.++...--.  
T Consensus       100 TrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~ed  179 (440)
T KOG1464|consen  100 TRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTED  179 (440)
T ss_pred             hccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhcccc
Confidence              123455677776666666665555555443221     10111123345666777777777777787777664111  


Q ss_pred             --CC-------HHHHHHHHHHHHccCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHH-----HHhcCCHHHHHHHHHHHH
Q 004244          462 --PD-------VVSYSTIISGFSRSQELDKAFDTKREMVEK-GVLPDTITYSSLIHG-----LCEQRRITEACELFQEML  526 (766)
Q Consensus       462 --~~-------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~~-----~~~~g~~~~A~~~~~~m~  526 (766)
                        .|       ...|..=|..|....+-.+...++++.... .-.|.+..... |+-     ..+.|.+++|..-|-+..
T Consensus       180 GedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImGv-IRECGGKMHlreg~fe~AhTDFFEAF  258 (440)
T KOG1464|consen  180 GEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMGV-IRECGGKMHLREGEFEKAHTDFFEAF  258 (440)
T ss_pred             CchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHhH-HHHcCCccccccchHHHHHhHHHHHH
Confidence              01       234555566676666666666677665543 22344444332 332     345577777654443333


Q ss_pred             H----CCCCCCHHH---HHHHHHHHHhcCChHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 004244          527 S----RGMSPDEFT---YTTLINAYCTEGDIPQALRLHDEMIQK--GFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFY  597 (766)
Q Consensus       527 ~----~~~~p~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~--g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~  597 (766)
                      +    .| .|...+   |-.|.+++.+.|--     -|+.-..+  .-.|.....+.++.+| +..+..+-.+++..-..
T Consensus       259 KNYDEsG-spRRttCLKYLVLANMLmkS~iN-----PFDsQEAKPyKNdPEIlAMTnlv~aY-Q~NdI~eFE~Il~~~~~  331 (440)
T KOG1464|consen  259 KNYDESG-SPRRTTCLKYLVLANMLMKSGIN-----PFDSQEAKPYKNDPEILAMTNLVAAY-QNNDIIEFERILKSNRS  331 (440)
T ss_pred             hcccccC-CcchhHHHHHHHHHHHHHHcCCC-----CCcccccCCCCCCHHHHHHHHHHHHH-hcccHHHHHHHHHhhhc
Confidence            2    34 333322   33444444444310     01111111  1134556667777777 34455555444443322


Q ss_pred             CCCCCcHHhH
Q 004244          598 DESVPSDVIY  607 (766)
Q Consensus       598 ~~~~p~~~~~  607 (766)
                       .+..|++.-
T Consensus       332 -~IM~DpFIR  340 (440)
T KOG1464|consen  332 -NIMDDPFIR  340 (440)
T ss_pred             -cccccHHHH
Confidence             244444443

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=81.07  E-value=1e+02  Score=34.86  Aligned_cols=193  Identities=12%  Similarity=0.064  Sum_probs=96.9

Q ss_pred             HhcCChHHHHHHHHHHHHCCC-CC-----CHHHHHHHHHHH--HhcCCHHHHHHHHH--------HHHhCCCCCcHHhHH
Q 004244          545 CTEGDIPQALRLHDEMIQKGF-LP-----DVVTYSVLINGL--NKQARTMEAKKLLL--------KLFYDESVPSDVIYN  608 (766)
Q Consensus       545 ~~~g~~~~A~~~~~~~~~~g~-~p-----~~~~~~~li~~~--~~~g~~~~A~~l~~--------~~~~~~~~p~~~~~~  608 (766)
                      +-.|++..|....+++.+..- .|     ....+..++.|.  -..|+.+.|...|.        .....+...+...+.
T Consensus       372 ~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~~~~~~~~~~~~~~~~~~El~ila  451 (608)
T PF10345_consen  372 FIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQKPRFLLCEAANRKSKFRELYILA  451 (608)
T ss_pred             HHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHhhhHHhhhhhhccCCcchHHHHHH
Confidence            456889999999998885411 11     123333333333  35799999999997        333333333333332


Q ss_pred             HHhhhhchhhhhhHHHHHhhhhhcC--CHHH--HHHHHHHHHhC-CCCC--CHHHHHHH-HHHHhccC--ChHHHHHHHH
Q 004244          609 TLIENCTNIEFQNVAALLKGFCMKG--LMNE--ADRVFELMLQR-NHMP--NEAVYDII-IHGHSKVG--NVQKAYDLYK  678 (766)
Q Consensus       609 ~ll~~~~~~~~~~~~~l~~~~~~~g--~~~~--A~~~~~~~~~~-~~~p--~~~~~~~l-~~~~~~~g--~~~~A~~~~~  678 (766)
                      .+=             ++..+...+  ..++  +.++++.+... .-.|  +..++..+ +.++....  ...++...+.
T Consensus       452 ~LN-------------l~~I~~~~~~~~~~~~~~~~l~~~i~p~~~~~~~~~~~~a~~~~~~~~~~~~~~~~ne~k~~l~  518 (608)
T PF10345_consen  452 ALN-------------LAIILQYESSRDDSESELNELLEQIEPLCSNSPNSYNRTAYCLVLATYNTFEPFSSNEAKRHLQ  518 (608)
T ss_pred             HHH-------------HHHHhHhhcccchhhhHHHHHHHhcCccccCCccHHHHHHHHHHHHHHhhCCccccHHHHHHHH
Confidence            211             001222222  2223  66666665531 1122  33344333 33333221  2235544444


Q ss_pred             HHHHc---CCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CChHHHHH-----HHHHHHhcCCChhHHH
Q 004244          679 KMVRS---GFVPHT---VTIIVLVKALHTAGMNEELSQVIENILRSCR---LSDAELAK-----VLVEINHKEGNMDAVL  744 (766)
Q Consensus       679 ~m~~~---~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~-----~l~~~~~~~g~~~~A~  744 (766)
                      +.++.   ....+.   .+++.+...+. .|+.++.......+.....   ......|.     .+.+.+...|+.++|.
T Consensus       519 ~~L~~~~~~~~n~~l~~~~L~lm~~~lf-~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~~~~l~~~~~~~G~~~ka~  597 (608)
T PF10345_consen  519 EALKMANNKLGNSQLLAILLNLMGHRLF-EGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVASGMLADSYEVQGDRDKAE  597 (608)
T ss_pred             HHHHHHHHhhccchHHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHcCcHHHHH
Confidence            43311   111111   22333333333 7888887777666554321   11344552     4446677899999999


Q ss_pred             HHHHHHH
Q 004244          745 NVLTEMA  751 (766)
Q Consensus       745 ~~~~~m~  751 (766)
                      ....+..
T Consensus       598 ~~~~~~~  604 (608)
T PF10345_consen  598 EARQQLD  604 (608)
T ss_pred             HHHHHHH
Confidence            8877654

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 [].

>KOG2297 consensus Predicted translation factor, contains W2 domain [Translation, ribosomal structure and biogenesis]

Probab=80.99  E-value=60  Score=32.02  Aligned_cols=73  Identities=21%  Similarity=0.344  Sum_probs=37.3

Q ss_pred             cCChhHHHHHH-HHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHH
Q 004244          302 EGRLKETKGIL-NEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAM  379 (766)
Q Consensus       302 ~g~~~~a~~~~-~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~  379 (766)
                      ...+++..... ++|++..+ |+..+...+.++....+.+.+-.++..+-.-+    ....|..|+.++|..|+.+-.+
T Consensus       268 e~p~~evi~~VKee~k~~nl-Pe~eVi~ivWs~iMsaveWnKkeelva~qalr----hlK~yaPLL~af~s~g~sEL~L  341 (412)
T KOG2297|consen  268 EDPVKEVILYVKEEMKRNNL-PETEVIGIVWSGIMSAVEWNKKEELVAEQALR----HLKQYAPLLAAFCSQGQSELEL  341 (412)
T ss_pred             CCCHHHHHHHHHHHHHhcCC-CCceEEeeeHhhhhHHHhhchHHHHHHHHHHH----HHHhhhHHHHHHhcCChHHHHH
Confidence            34444444443 34444444 56554444444444444444333332221111    3446788888888888877544

>PRK09687 putative lyase; Provisional

Probab=80.97  E-value=63  Score=32.25  Aligned_cols=58  Identities=19%  Similarity=0.227  Sum_probs=24.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 004244          498 DTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQ  562 (766)
Q Consensus       498 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  562 (766)
                      |..+-...+.++.+.|+ ..|+..+-...+.+   +  .....+.++.+.|.. +|...+..+.+
T Consensus       205 ~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-~a~p~L~~l~~  262 (280)
T PRK09687        205 NEEIRIEAIIGLALRKD-KRVLSVLIKELKKG---T--VGDLIIEAAGELGDK-TLLPVLDTLLY  262 (280)
T ss_pred             ChHHHHHHHHHHHccCC-hhHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-hHHHHHHHHHh
Confidence            44444444555555554 23333333333322   1  122344444455543 35555555444

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=80.64  E-value=2.1  Score=26.04  Aligned_cols=24  Identities=21%  Similarity=0.304  Sum_probs=12.4

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHH
Q 004244          729 VLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       729 ~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      .++.++.+.|++++|.+.++++.+
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHH
Confidence            444555555555555555555444

>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=80.21  E-value=3.9  Score=25.04  Aligned_cols=27  Identities=15%  Similarity=0.169  Sum_probs=17.8

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          726 LAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       726 ~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      +|..++..|...|++++|.+.|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            456666677777777777777666554

...

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=80.20  E-value=1.1e+02  Score=34.41  Aligned_cols=26  Identities=19%  Similarity=0.290  Sum_probs=19.7

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004244          145 SSAVIDLVVKSYSHLNMIDKAVNIVNL  171 (766)
Q Consensus       145 ~~~~~~~l~~~~~~~g~~~~A~~~~~~  171 (766)
                      ++..|+ .+..+.-.|++++|..+++.
T Consensus       148 ~p~FW~-~v~~lvlrG~~~~a~~lL~~  173 (566)
T PF07575_consen  148 DPDFWD-YVQRLVLRGLFDQARQLLRL  173 (566)
T ss_dssp             SHHHHH-HHHHHHHTT-HHHHHHHH-T
T ss_pred             chhHHH-HHHHHHHcCCHHHHHHHHHh
Confidence            378888 67788888999999999854

Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=80.13  E-value=3.8  Score=26.53  Aligned_cols=26  Identities=12%  Similarity=0.261  Sum_probs=14.5

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHH
Q 004244          656 VYDIIIHGHSKVGNVQKAYDLYKKMV  681 (766)
Q Consensus       656 ~~~~l~~~~~~~g~~~~A~~~~~~m~  681 (766)
                      +++.+...|...|++++|.+++++.+
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            45555556666666666666665554

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=80.02  E-value=62  Score=31.59  Aligned_cols=51  Identities=16%  Similarity=0.227  Sum_probs=30.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH-------HHHHHHHHccCCHHHHHH
Q 004244          435 LIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSY-------STIISGFSRSQELDKAFD  485 (766)
Q Consensus       435 ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-------~~li~~~~~~g~~~~A~~  485 (766)
                      +.+-..+.+++++|+..+.++...|...+..+.       ..+...|.+.|+...-.+
T Consensus         9 ~a~~~v~~~~~~~ai~~yk~iL~kg~s~dek~~nEqE~tvlel~~lyv~~g~~~~l~~   66 (421)
T COG5159           9 LANNAVKSNDIEKAIGEYKRILGKGVSKDEKTLNEQEATVLELFKLYVSKGDYCSLGD   66 (421)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHhcCCCChhhhhhhHHHHHHHHHHHHHHhcCCcchHHH
Confidence            344556677778888888777777776654433       334455555555544433

---

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	766
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-22
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-21
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-20
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-17
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	1e-05
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	2e-05
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	3e-04
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	8e-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 =  102 bits (253), Expect = 2e-22
 Identities = 45/346 (13%), Positives = 108/346 (31%), Gaps = 13/346 (3%)

Query: 374 NLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYN 433
           +   A    D        P E+    L+        LD       + ++           
Sbjct: 72  SKQMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLL 131

Query: 434 ALIKGHCTGGRVEDAVGVL---HGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREM 490
           A  K      ++  A  +L   HG  +K     +  Y+ ++ G++R     +       +
Sbjct: 132 AFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMV 191

Query: 491 VEKGVLPDTITYSSLIHGLCEQRRITEACE-LFQEMLSRGMSPDEFTYTTLINAYCTEGD 549
            + G+ PD ++Y++ +  +  Q +     E   ++M   G+         L++       
Sbjct: 192 KDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATV 251

Query: 550 IPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNT 609
           +    ++         LP  V  S L+  +  +   +   KL L L   + +    ++  
Sbjct: 252 LKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLH-- 309

Query: 610 LIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGN 669
            +E  + +   +V         K + +    +  L  Q       A+ +       +V  
Sbjct: 310 -MELASRVCVVSVEKPTL--PSKEVKHARKTLKTLRDQWEKALCRALRETKNRLEREVYE 366

Query: 670 VQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENI 715
            + +   +  ++        V  ++L          E  + +   +
Sbjct: 367 GRFSLYPFLCLLD----EREVVRMLLQVLQALPAQGESFTTLAREL 408

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 99.9 bits (247), Expect = 1e-21
 Identities = 25/199 (12%), Positives = 67/199 (33%), Gaps = 4/199 (2%)

Query: 200 VKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMG---LRFFSEMEKNNCLANVVT 256
           +   +    +  ++++S          +       L +    L       +   L  +  
Sbjct: 108 LDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDM 167

Query: 257 YNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKET-KGILNEI 315
           YN ++ G+ + G   +   +L  +   G+ P+L+SY   +  + ++ +   T +  L ++
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQM 227

Query: 316 SRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNL 375
           S++GL    +    LL+   +   L     +          P  V  + L+  +      
Sbjct: 228 SQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGR 287

Query: 376 NRAMEFFDQMHVRELRPNE 394
               +    +   +    +
Sbjct: 288 VSYPKLHLPLKTLQCLFEK 306

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 96.4 bits (238), Expect = 1e-20
 Identities = 28/241 (11%), Positives = 75/241 (31%), Gaps = 33/241 (13%)

Query: 201 KFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTL 260
           + A  + +   ++  SP       L++   G   L++      +  +             
Sbjct: 74  QMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAF 133

Query: 261 IDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGL 320
                   ++  A  LL                                   +   +K  
Sbjct: 134 FKCCLLTDQLPLAHHLLVVH--------------------------------HGQRQKRK 161

Query: 321 VPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAME 380
           +     YN ++ G+ ++G   + + +   +   GL+P++++Y + +  M +       +E
Sbjct: 162 LLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIE 221

Query: 381 -FFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGH 439
              +QM    L+        L++   +   L   +++    +    +P  V  + L++  
Sbjct: 222 RCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDV 281

Query: 440 C 440
            
Sbjct: 282 Y 282

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 68.3 bits (165), Expect = 7e-12
 Identities = 18/155 (11%), Positives = 51/155 (32%), Gaps = 7/155 (4%)

Query: 152 VVKSYSHLNMIDKAVNIVNLAK---VHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYN 208
             K     + +  A +++ +         +  +  YNA++    R G     K    V  
Sbjct: 133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGA---FKELVYVLF 189

Query: 209 EMGKSRVSPNVYTYNVLIRGFCGVG-DLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKL 267
            +  + ++P++ +Y   ++       D     R   +M +       +    L+    + 
Sbjct: 190 MVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA 249

Query: 268 GRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKE 302
             +    K+     L    P  ++ + ++  +  +
Sbjct: 250 TVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAK 284

>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 = 84.9 bits (209), Expect = 6e-17
 Identities = 100/671 (14%), Positives = 201/671 (29%), Gaps = 200/671 (29%)

Query: 63  FNLLLKTQSDQTLTLKFLKWA-QPQ-PFFTPKLKCLTLHILTKFKLYKSAQTLAQNLAVD 120
           F  LL  Q +     KF++   +    F    +K          ++Y   +    N    
Sbjct: 68  FWTLLSKQEEMVQ--KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN---- 121

Query: 121 LPRDDGNFVFSCLKETYHLCDSTSSSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPG 180
                 N VF+     Y++         +   +K    L  +  A N++    + G + G
Sbjct: 122 -----DNQVFA----KYNVSR-------LQPYLKLRQALLELRPAKNVL----IDG-VLG 160

Query: 181 ----VLSYNAILDSVIRSGRNN---WVKFAEE------------VYNEMGKSRVSPNVYT 221
                ++ +  L   ++   +    W+                 +  ++  +  S + ++
Sbjct: 161 SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS 220

Query: 222 YNVLIRGFCGVGDLEMGLR-FFSEMEKNNCL---ANVVTYNTL--IDGYCKLGRIDDAFK 275
            N+ +R    +  ++  LR         NCL    NV         +  CK+        
Sbjct: 221 SNIKLR----IHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKI-------- 268

Query: 276 LL--RDMG----LKGIEPNLISYNVIINGLCKEGRLKETKGILN---EISRKGLVPDEVT 326
           LL  R       L       IS +     L  +    E K +L    +   + L P EV 
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD----EVKSLLLKYLDCRPQDL-PREV- 322

Query: 327 YNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMH 386
                           +++  AE +R+G           +N       L   +E      
Sbjct: 323 --------LTTNPRRLSII--AESIRDG--LATWDNWKHVNCD----KLTTIIESS---- 362

Query: 387 VRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVE 446
           +  L P E                 + +  L          S+   +A I          
Sbjct: 363 LNVLEPAE---------------YRKMFDRL----------SVFPPSAHIP--------T 389

Query: 447 DAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLI 506
             + ++     K     VV             +L      K  +VEK   P   T S  I
Sbjct: 390 ILLSLIWFDVIKSDVMVVV------------NKL-----HKYSLVEKQ--PKESTIS--I 428

Query: 507 HGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFL 566
             +     +    E    +           + ++++ Y    +IP+     D       +
Sbjct: 429 PSI--YLELKVKLENEYAL-----------HRSIVDHY----NIPKTFDSDD------LI 465

Query: 567 PDVVT---YSVLINGLNKQARTMEAKKLLLKLFYDES-VPSDVIYNTLIENCTNIEFQNV 622
           P  +    YS + + L K     E   L   +F D   +   + +++   N +     N 
Sbjct: 466 PPYLDQYFYSHIGHHL-KNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASG-SILNT 523

Query: 623 AALLKGFCMKGLMNEADRVFELMLQ--RNHMPNEAVYDIIIHGHSKVGNVQKA------- 673
              LK +  K  + + D  +E ++    + +P     ++I   ++ +  ++ A       
Sbjct: 524 LQQLKFY--KPYICDNDPKYERLVNAILDFLPKIE-ENLICSKYTDL--LRIALMAEDEA 578

Query: 674 --YDLYKKMVR 682
              + +K++ R
Sbjct: 579 IFEEAHKQVQR 589

>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 = 60.3 bits (145), Expect = 2e-09
 Identities = 70/570 (12%), Positives = 146/570 (25%), Gaps = 218/570 (38%)

Query: 234 DLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYN 293
           D E G     E +          Y  ++  +      +DAF    +   K ++      +
Sbjct: 8   DFETG-----EHQ--------YQYKDILSVF------EDAFV--DNFDCKDVQDMP--KS 44

Query: 294 VIINGLCKEGRLKETKGILNEISRKGLVPDEVT-----YNTLLNGYCKEGNLHQALV--- 345
           ++          +E   I+          D V+     + TLL+   K+  + Q  V   
Sbjct: 45  ILSK--------EEIDHIIMS-------KDAVSGTLRLFWTLLS---KQEEMVQKFVEEV 86

Query: 346 -----------LHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNE 394
                      +  E      S     Y    + +     +      F + +V       
Sbjct: 87  LRINYKFLMSPIKTEQ--RQPSMMTRMYIEQRDRLYNDNQV------FAKYNV----SRL 134

Query: 395 KTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHG 454
           + Y  L                L E+     +                        ++ G
Sbjct: 135 QPYLKLRQA-------------LLELRPAKNV------------------------LIDG 157

Query: 455 MARKG---LAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCE 511
           +   G   +A DV            S ++                   I + +L    C 
Sbjct: 158 VLGSGKTWVALDVC----------LSYKVQCKM------------DFKIFWLNL--KNC- 192

Query: 512 QRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGF------ 565
                E      + L   + P+          + +  D    ++L    IQ         
Sbjct: 193 --NSPETVLEMLQKLLYQIDPN----------WTSRSDHSSNIKLRIHSIQAELRRLLKS 240

Query: 566 ---------LPDV----------------VT--YSVLINGLNKQARTMEAKKLLLKLFY- 597
                    L +V                +T  +  + + L+    T  +          
Sbjct: 241 KPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP 300

Query: 598 DESVPSDVIYNTLIENCTNIEFQNV-AALLKGFCMK-GLMNEADRVFELMLQR-NHMPNE 654
           DE         +L+    +   Q++   +L     +  ++ E+ R          H+  +
Sbjct: 301 DEVK-------SLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCD 353

Query: 655 AVYDIIIHGHSKVGNVQKAYD---LYKKMVRSGFVPHT-VTIIVLVKALHTAGM--NEEL 708
            +  II        NV +  +   ++ ++    F P   +  I+L        +   + +
Sbjct: 354 KLTTII----ESSLNVLEPAEYRKMFDRLSV--FPPSAHIPTILLS-------LIWFDVI 400

Query: 709 SQVIENILRSCRLSDAELAKVLVEINHKEG 738
              +  ++             LVE   KE 
Sbjct: 401 KSDVMVVVNKLH------KYSLVEKQPKES 424

>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 = 52.2 bits (124), Expect = 6e-07
 Identities = 57/380 (15%), Positives = 115/380 (30%), Gaps = 121/380 (31%)

Query: 26  TLSATADAVIADKALTLLKRHPYQLNSLSSEFTPEAAFNLLLKTQSDQTLTLKFLKWAQP 85
            L  T    + D  L+        L+  S   TP+   +L              LK+   
Sbjct: 268 ILLTTRFKQVTD-FLSAATTTHISLDHHSMTLTPDEVKSL-------------LLKYLDC 313

Query: 86  QPFFTPKLKCLT--LHILTKFKLYKSAQTLAQNLAVDLPRDDGNFVFSCLKETYHLCDST 143
           +P   P+    T    +            +A+++   L   D N+        +  CD  
Sbjct: 314 RPQDLPREVLTTNPRRL----------SIIAESIRDGLATWD-NW-------KHVNCDKL 355

Query: 144 SSSAVIDLVVKS---------YSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRS 194
           ++  +I+  +           +  L++   + +I            +LS   ++      
Sbjct: 356 TT--IIESSLNVLEPAEYRKMFDRLSVFPPSAHI---------PTILLS---LI------ 395

Query: 195 GRNNWVK----FAEEVYNEMGKSRV---SPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEK 247
               W          V N++ K  +    P   T ++          + + L+   ++E 
Sbjct: 396 ----WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP--------SIYLELK--VKLEN 441

Query: 248 NNCL-ANVVT-YNTLIDGYCKLGRIDDAFKLLRDM------G--LKGIEPN--------- 288
              L  ++V  YN +   +      DD      D       G  LK IE           
Sbjct: 442 EYALHRSIVDHYN-IPKTFDS----DDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV 496

Query: 289 LISYNVIINGLCKEGRLKETKG-ILNEIS-----RKGLVPDEVTYNTLLNGYCK-----E 337
            + +  +   +  +       G ILN +      +  +  ++  Y  L+N         E
Sbjct: 497 FLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIE 556

Query: 338 GNLHQALVLHAEMVRNGLSP 357
            NL  +   + +++R  L  
Sbjct: 557 ENLICS--KYTDLLRIALMA 574

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 47.5 bits (112), Expect = 2e-05
 Identities = 52/328 (15%), Positives = 104/328 (31%), Gaps = 74/328 (22%)

Query: 466 SYSTIISGFSRSQELDKAFDTKR-EMVEKGVL-----------PDTITYSSLIHG-LCEQ 512
            Y  I+S F         FD K  + + K +L            D ++ +  +   L  +
Sbjct: 17  QYKDILSVFE--DAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSK 74

Query: 513 RRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRL-----HDEMIQKG--F 565
           +      E+ Q+ +   +  +   Y  L++   TE   P  +        D +      F
Sbjct: 75  QE-----EMVQKFVEEVLRIN---YKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF 126

Query: 566 LPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIY-------NTL-IENCTNI 617
               V+       L         ++ LL+L   ++V   +I          + ++ C + 
Sbjct: 127 AKYNVSRLQPYLKL---------RQALLELRPAKNV---LIDGVLGSGKTWVALDVCLSY 174

Query: 618 EFQNVAALLKGFCMK-GLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDL 676
           + Q      K F +     N  + V E MLQ+     +  +       S   N++     
Sbjct: 175 KVQCKMDF-KIFWLNLKNCNSPETVLE-MLQKLLYQIDPNWTSRSDHSS---NIKLRIHS 229

Query: 677 YKKMVRSGFV--PHTVTIIVL--VKALHTAGMNEELSQVIENILRSCRL----SDAELAK 728
            +  +R      P+   ++VL  V+           ++       SC++       ++  
Sbjct: 230 IQAELRRLLKSKPYENCLLVLLNVQN----------AKAWNAFNLSCKILLTTRFKQVTD 279

Query: 729 VLVEINHKEGNMDAVLNVLTEMAKDGLL 756
            L        ++D     LT      LL
Sbjct: 280 FLSAATTTHISLDHHSMTLTPDEVKSLL 307

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 44.9 bits (105), Expect = 1e-05
 Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 5/33 (15%)

Query: 581 KQA-RTMEAKKLLLKLFYDESVPSDVIYNTLIE 612
           KQA + ++A    LKL+ D+S P+  I    +E
Sbjct: 19  KQALKKLQAS---LKLYADDSAPALAI-KATME 47

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2 Length = 373

 Score = 46.5 bits (110), Expect = 2e-05
 Identities = 39/296 (13%), Positives = 84/296 (28%), Gaps = 61/296 (20%)

Query: 325 VTYNTLLNGYCKEGNLHQALVLHAEMV----RNGLSPNVVT-YTSLINSMCKSGNLNRAM 379
           V  + L      +G L ++L L  +      ++ +    +         +   G L  A 
Sbjct: 54  VATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAW 113

Query: 380 EFFDQ-------MHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNE----MTKNGFMPS 428
           E  ++        H+ +L  +E               LDEA          ++       
Sbjct: 114 ETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQ 173

Query: 429 IVTYNALIKGHCTGGRVEDAVGVL----HGMARKGLAPDVVSYSTIISGFSRSQELDKAF 484
           +     LI+     G +++A   L    + +       D +S +  +             
Sbjct: 174 LQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKV------------- 220

Query: 485 DTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFT---YTTLI 541
                                +           A    +       + + F    +  + 
Sbjct: 221 --------------------RVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIA 260

Query: 542 NAYCTEGDIPQALRLHDEMI----QKGFLPDVVTYSVLINGLNKQA-RTMEAKKLL 592
            A    G+   A  + +E+         + D+    +L+N L  QA R  +A+++L
Sbjct: 261 RAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVL 316

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 43.5 bits (102), Expect = 3e-04
 Identities = 57/345 (16%), Positives = 105/345 (30%), Gaps = 26/345 (7%)

Query: 252 ANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLI-SYNVIINGLCKEGRLKETKG 310
           A VV   +   G   L  +     +L      G+ P+ + +    I G      ++    
Sbjct: 224 AQVVAIASHDGGKQALETMQRLLPVLCQ--AHGLPPDQVVAIASNIGGKQALETVQRLLP 281

Query: 311 ILNEISRKGLVPDEV-TYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPN-VVTYTSLINS 368
           +L +    GL PD+V    +   G      + + L +  +    GL+P+ VV   S    
Sbjct: 282 VLCQA--HGLTPDQVVAIASHGGGKQALETVQRLLPVLCQAH--GLTPDQVVAIASHDGG 337

Query: 369 MCKSGNLNRAMEFFDQMHVRELRPNE-KTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMP 427
                 + R +    Q H   L P++     +   G      +     +L +    G  P
Sbjct: 338 KQALETVQRLLPVLCQAH--GLTPDQVVAIASNGGGKQALETVQRLLPVLCQAH--GLTP 393

Query: 428 SIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPD-VVSYSTIISGFSRSQELDKA-FD 485
             V   A   G      V+  + VL      GL PD VV+ ++   G    + + +    
Sbjct: 394 DQVVAIASNGGKQALETVQRLLPVLCQAH--GLTPDQVVAIASHDGGKQALETVQRLLPV 451

Query: 486 TKREMVEKGVLPDTI-TYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAY 544
             +        P  +   +S   G      + +   +  +              + I   
Sbjct: 452 LCQTHGLT---PAQVVAIASHDGGKQALETVQQLLPVLCQAHGLTP-DQVVAIASNIGGK 507

Query: 545 CTEGDIPQALRLHDEMIQKGFLPD-VVTYSVLINGLNKQARTMEA 588
                + + L +  +    G  PD VV  +    G          
Sbjct: 508 QALATVQRLLPVLCQAH--GLTPDQVVAIASNGGGKQALETVQRL 550

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 41.7 bits (98), Expect = 8e-04
 Identities = 49/349 (14%), Positives = 103/349 (29%), Gaps = 35/349 (10%)

Query: 253 NVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLI-SYNVIINGLCKEGRLKETKGI 311
            VV   +   G   L  +     +L      G+ P  + +      G      ++    +
Sbjct: 105 QVVAIASHDGGKQALETVQRLLPVLCQ--AHGLTPEQVVAIASHDGGKQALETVQALLPV 162

Query: 312 LNEISRKGLVPDE-VTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPN-VVTYTSLINSM 369
           L +    GL P++ V   +   G      + + L +  +     L+P  VV   S     
Sbjct: 163 LCQA--HGLTPEQVVAIASNGGGKQALETVQRLLPVLCQAHG--LTPQQVVAIASNGGGK 218

Query: 370 CKSGNLNRAMEFFDQMHVRELRPNE-KTYTTLINGFSQHGFLDEA---YRLLNEMTKNGF 425
                + R +    Q H   L P +     +   G      +          + +T    
Sbjct: 219 QALETVQRLLPVLCQAH--GLTPQQVVAIASNGGGKQALETVQRLLPVLCQAHGLTPQ-- 274

Query: 426 MPSIVTYNALIKGHCTGGRVEDAVGVLHGMARK--GLAPD-VVSYSTIISGFSRSQELDK 482
              +V   +   G      V+  + VL     +  GL P  VV+ ++   G    + + +
Sbjct: 275 --QVVAIASNSGGKQALETVQRLLPVL----CQAHGLTPQQVVAIASNGGGKQALETVQR 328

Query: 483 AFDTKREMVEKGVLPD-TITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDE-FTYTTL 540
                 +     + P   +  +S   G      +     +  +    G++P++     + 
Sbjct: 329 LLPVLCQAHG--LTPQQVVAIASHDGGKQALETVQRLLPVLCQAH--GLTPEQVVAIASN 384

Query: 541 INAYCTEGDIPQALRLHDEMIQKGFLPD-VVTYSVLINGLNKQARTMEA 588
                    + + L +  +    G  P+ VV  +    G          
Sbjct: 385 GGGKQALETVQRLLPVLCQAH--GLTPEQVVAIASHDGGKQALETVQRL 431

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	766
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.91
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.91
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.87
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.86
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.85
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.85
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.85
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.83
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.83
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.82
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.81
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.8
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.79
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.79
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.78
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.77
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.75
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.75
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.75
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.74
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.74
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.74
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.74
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.73
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.72
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.71
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.65
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.64
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.64
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.63
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.6
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.59
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.58
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.58
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.57
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.56
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.55
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.55
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.55
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.54
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.53
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.53
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.53
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.52
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.51
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.51
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.5
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.5
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.5
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.48
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.45
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.45
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.44
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.44
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.42
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.41
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.41
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.4
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.39
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.39
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.36
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.34
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.32
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.31
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.3
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.27
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.25
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.25
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.24
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.24
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.22
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.2
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.2
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.16
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.13
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.09
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.06
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.05
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.04
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.99
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.98
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.98
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.97
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.97
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.96
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.95
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.93
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.93
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.92
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.91
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.86
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.86
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.85
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.83
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.82
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.81
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.8
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.8
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.8
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.8
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.8
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.78
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.75
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.75
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.74
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.73
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.73
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.73
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.72
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.71
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.67
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.67
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.62
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.62
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.61
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.61
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.57
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.57
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.57
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.56
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.56
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.54
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.54
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.53
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.51
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.51
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.51
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.48
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.48
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.46
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.45
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.45
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.43
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.42
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.42
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.39
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.38
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.38
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.37
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.36
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.36
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.35
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.32
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.32
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.31
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.31
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.29
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.28
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.27
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.26
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.25
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.25
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.25
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.25
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.24
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.24
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.23
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.19
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.19
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.16
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.16
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.15
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.14
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.11
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.09
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.08
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.08
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.06
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.06
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.05
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.04
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.03
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.03
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.02
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.0
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.0
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.98
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.96
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.95
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.92
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.9
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.9
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.86
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.74
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.73
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.68
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.64
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.6
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.6
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.49
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.48
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.46
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.46
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.43
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.42
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.36
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.25
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.2
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.18
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.04
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.03
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.0
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.85
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.82
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.81
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.66
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.6
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.55
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.51
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.34
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.31
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.3
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.15
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.1
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.08
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.96
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.84
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.7
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.1
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	94.66
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.45
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.31
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.18
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.98
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.84
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	93.41
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	93.33
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	92.28
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	91.61
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.55
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	91.48
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	91.45
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	91.15
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	90.4
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	90.08
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	89.8
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	88.85
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	88.57
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	88.16
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	87.97
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	87.23
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	86.88
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	86.34
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	85.89
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	85.82
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	84.72
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	80.88

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.9e-40  Score=374.77  Aligned_cols=506  Identities=12%  Similarity=0.030  Sum_probs=359.6

Q ss_pred             CCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHH
Q 004244          178 MPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTY  257 (766)
Q Consensus       178 ~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~  257 (766)
                      .++...|+.++..+.+.|+   +++|..+|++|...  .|+..++..++.+|.+.|++++|..+|+.+...  +++..++
T Consensus        81 ~~~~~~~~~~~~~~~~~g~---~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~  153 (597)
T 2xpi_A           81 LSREDYLRLWRHDALMQQQ---YKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACR  153 (597)
T ss_dssp             -CHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHH
T ss_pred             HHHHHHHHHHHHHHHHccC---chHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHH
Confidence            3677788888888888874   38888888888753  567788888888888888888888888877543  5677888


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004244          258 NTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKE  337 (766)
Q Consensus       258 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  337 (766)
                      +.++.+|++.|++++|.++|+++..     +..    ...++.+.++           ...+..++..+|+.++.+|.+.
T Consensus       154 ~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~----~~~~~~~~~~-----------~~~~~~~~~~~~~~l~~~~~~~  213 (597)
T 2xpi_A          154 YLAAFCLVKLYDWQGALNLLGETNP-----FRK----DEKNANKLLM-----------QDGGIKLEASMCYLRGQVYTNL  213 (597)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHCSSCT-----TC--------------C-----------CCSSCCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhHHHHHHHHhccCC-----ccc----cccccccccc-----------cccccchhHHHHHHHHHHHHHc
Confidence            8888888888888888888875321     110    0000001000           1123344566666777777777


Q ss_pred             CChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHH--HH-HHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHH
Q 004244          338 GNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAM--EF-FDQMHVRELRPNEKTYTTLINGFSQHGFLDEAY  414 (766)
Q Consensus       338 g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~--~~-~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~  414 (766)
                      |++++|.++|+++.+.+ +.+...+..+...+...+..+.+.  .+ +..+...+..+...+|+.++..|.+.|++++|.
T Consensus       214 g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~  292 (597)
T 2xpi_A          214 SNFDRAKECYKEALMVD-AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAE  292 (597)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHH
Confidence            77777777777766653 124444554544443332222211  11 344444433444555666677777777777777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 004244          415 RLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKG  494 (766)
Q Consensus       415 ~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  494 (766)
                      ++|+++.+.  +++..+++.++.+|.+.|++++|..+|+++.+.+.. +..+++.++.+|.+.|++++|.++++++.+..
T Consensus       293 ~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  369 (597)
T 2xpi_A          293 DYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRH  369 (597)
T ss_dssp             HHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC
Confidence            777777654  467777777777777777777777777777765433 66677777777777777777777777777543


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 004244          495 VLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSV  574 (766)
Q Consensus       495 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~  574 (766)
                       +.+..+|..++..|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|..
T Consensus       370 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~  446 (597)
T 2xpi_A          370 -PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLF  446 (597)
T ss_dssp             -TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHH
T ss_pred             -cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHH
Confidence             3367777777777888888888888888777653 4456777888888888888888888888877652 456777888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhC----CC
Q 004244          575 LINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQR----NH  650 (766)
Q Consensus       575 li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~  650 (766)
                      ++.+|.+.|++++|.++|+++.+. .+.+..+|..+.               ..|.+.|++++|.++|+++.+.    +.
T Consensus       447 l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~---------------~~~~~~g~~~~A~~~~~~~~~~~~~~~~  510 (597)
T 2xpi_A          447 LGMQHMQLGNILLANEYLQSSYAL-FQYDPLLLNELG---------------VVAFNKSDMQTAINHFQNALLLVKKTQS  510 (597)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH-CCCCHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh-CCCChHHHHHHH---------------HHHHHhCCHHHHHHHHHHHHHhhhcccc
Confidence            888888888888888888888764 233566677766               7888888888888888888764    55


Q ss_pred             CCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHH
Q 004244          651 MPN--EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAK  728 (766)
Q Consensus       651 ~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  728 (766)
                      .|+  ..+|..++.+|.+.|++++|++.++++.+.+ +.+..+|..++.+|...|++++|..+++++++.+ |.+...+.
T Consensus       511 ~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~  588 (597)
T 2xpi_A          511 NEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAIS-PNEIMASD  588 (597)
T ss_dssp             CSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             chhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCChHHHH
Confidence            776  7899999999999999999999999998764 4467899999999999999999999999999998 66788888


Q ss_pred             HHHHHHh
Q 004244          729 VLVEINH  735 (766)
Q Consensus       729 ~l~~~~~  735 (766)
                      .++.+|.
T Consensus       589 ~l~~~~~  595 (597)
T 2xpi_A          589 LLKRALE  595 (597)
T ss_dssp             HHHHTTC
T ss_pred             HHHHHHh
Confidence            8887764

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2e-40  Score=374.73  Aligned_cols=503  Identities=11%  Similarity=-0.014  Sum_probs=408.9

Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHH
Q 004244          201 KFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDM  280 (766)
Q Consensus       201 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m  280 (766)
                      ..+...+..+.    .++...|+.++..+.+.|++++|..+|++|.+.  .|+..++..++.+|.+.|++++|..+|+++
T Consensus        70 ~~~~~~~~~~~----~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  143 (597)
T 2xpi_A           70 LKERNAQNTDS----LSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLLTKE  143 (597)
T ss_dssp             ----------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             CCCCCccccch----HHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHHHHH
Confidence            45555555443    367888999999999999999999999998854  577788888999999999999999999888


Q ss_pred             hhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChH
Q 004244          281 GLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVV  360 (766)
Q Consensus       281 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~  360 (766)
                      ...  +++..+++.++.+|++.|++++|.++|+++.     |+..    ...++.+.++           ...|.+.+..
T Consensus       144 ~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~----~~~~~~~~~~-----------~~~~~~~~~~  201 (597)
T 2xpi_A          144 DLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETN-----PFRK----DEKNANKLLM-----------QDGGIKLEAS  201 (597)
T ss_dssp             CGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSC-----TTC--------------C-----------CCSSCCHHHH
T ss_pred             hcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccC-----Cccc----cccccccccc-----------cccccchhHH
Confidence            543  5788889999999999999999999888532     2210    0111111111           1234566899


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHH--HH-HHHHHHCCCCCCHHHHHHHHH
Q 004244          361 TYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAY--RL-LNEMTKNGFMPSIVTYNALIK  437 (766)
Q Consensus       361 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~--~l-~~~m~~~g~~~~~~~~~~ll~  437 (766)
                      +|+.++.+|.+.|++++|.++|++|.+.+.. +...+..+...+...+..+.+.  .+ +..+...+..+...+|+.++.
T Consensus       202 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  280 (597)
T 2xpi_A          202 MCYLRGQVYTNLSNFDRAKECYKEALMVDAK-CYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLN  280 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCch-hhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHH
Confidence            9999999999999999999999999987432 5566666665554443332222  11 555555555556667888889


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004244          438 GHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITE  517 (766)
Q Consensus       438 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  517 (766)
                      .|.+.|++++|.++|+.+.+.  +++..+++.++.+|.+.|++++|.++|+++.+.+.. +..++..++.++.+.|++++
T Consensus       281 ~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~  357 (597)
T 2xpi_A          281 KTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNK  357 (597)
T ss_dssp             TTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHH
T ss_pred             HHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHH
Confidence            999999999999999999876  579999999999999999999999999999987644 77889999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 004244          518 ACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFY  597 (766)
Q Consensus       518 A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~  597 (766)
                      |.++++++.+.. +.+..++..++.+|.+.|++++|.++|+++.+. .+.+..+|+.++.+|.+.|++++|.++|+++..
T Consensus       358 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  435 (597)
T 2xpi_A          358 LYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTM-DPQFGPAWIGFAHSFAIEGEHDQAISAYTTAAR  435 (597)
T ss_dssp             HHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999999764 667889999999999999999999999999875 245788999999999999999999999999988


Q ss_pred             CCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHH
Q 004244          598 DESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLY  677 (766)
Q Consensus       598 ~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  677 (766)
                      .+ +.+..+|..+.               .+|.+.|++++|.+.|+++.+.. +.+..+|+.++.+|.+.|++++|+++|
T Consensus       436 ~~-~~~~~~~~~l~---------------~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  498 (597)
T 2xpi_A          436 LF-QGTHLPYLFLG---------------MQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHF  498 (597)
T ss_dssp             TT-TTCSHHHHHHH---------------HHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hC-ccchHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHH
Confidence            52 34667777777               89999999999999999999753 237899999999999999999999999


Q ss_pred             HHHHHc----CCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHH
Q 004244          678 KKMVRS----GFVPH--TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMA  751 (766)
Q Consensus       678 ~~m~~~----~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  751 (766)
                      +++.+.    +..|+  ..+|..++.+|.+.|++++|..+++++++.+ |.+..+|..++.+|.+.|++++|.+.++++.
T Consensus       499 ~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  577 (597)
T 2xpi_A          499 QNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESL  577 (597)
T ss_dssp             HHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            999865    66787  6899999999999999999999999999998 6678999999999999999999999999998


Q ss_pred             HCCC
Q 004244          752 KDGL  755 (766)
Q Consensus       752 ~~~~  755 (766)
                      +...
T Consensus       578 ~~~p  581 (597)
T 2xpi_A          578 AISP  581 (597)
T ss_dssp             HHCT
T ss_pred             hcCC
Confidence            8654

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=3.1e-30  Score=278.49  Aligned_cols=207  Identities=15%  Similarity=0.257  Sum_probs=150.4

Q ss_pred             HHHHHHHHHHhhCCCCCCH-HHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCC---------h
Q 004244          201 KFAEEVYNEMGKSRVSPNV-YTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGR---------I  270 (766)
Q Consensus       201 ~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~---------~  270 (766)
                      ..+..+.+++.+.+..+.+ ..++.+|++||+.|++++|+++|++|.+.|+.||.+|||+||.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            4566666777766655443 35777888888888888888888888888888888888888888876554         5


Q ss_pred             hHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 004244          271 DDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEM  350 (766)
Q Consensus       271 ~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  350 (766)
                      ++|.++|++|...|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            67777888887778888888888888888888888888888888887777788888888888888888888888888888


Q ss_pred             HHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhc
Q 004244          351 VRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQH  407 (766)
Q Consensus       351 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~  407 (766)
                      .+.|+.||..+|++||.+|++.|++++|.++|++|.+.|..|+..||+.++..++..
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            877888888888888888888888888888888887777777888887777777653

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=9.8e-30  Score=274.62  Aligned_cols=206  Identities=20%  Similarity=0.246  Sum_probs=160.0

Q ss_pred             HHHHHHHHHHHCCCCCCHh-hHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCC--------
Q 004244          164 KAVNIVNLAKVHGFMPGVL-SYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGD--------  234 (766)
Q Consensus       164 ~A~~~~~~~~~~g~~~~~~-~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~--------  234 (766)
                      .+..+.+.+++.+..+++. .++.+|++|++.|+   +++|+++|++|.+.|+.||.+|||+||.+|++.+.        
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~---~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~   84 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGD---VLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNP   84 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCC---HHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCH
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCC---HHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcc
Confidence            3445555666666555443 46777888888873   38888888888888888888888888888876654        


Q ss_pred             -hhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHH
Q 004244          235 -LEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILN  313 (766)
Q Consensus       235 -~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  313 (766)
                       +++|.++|++|.+.|+.||.+|||+||.+|++.|++++|.++|++|...|+.||..||+++|.+|++.|++++|.++|+
T Consensus        85 ~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~  164 (501)
T 4g26_A           85 GLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDA  164 (501)
T ss_dssp             HHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHH
Confidence             5778888888888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhc
Q 004244          314 EISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKS  372 (766)
Q Consensus       314 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~  372 (766)
                      +|.+.|+.||..||++||.+|++.|++++|.+++++|.+.|..|+..||+.++..|+..
T Consensus       165 ~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          165 HMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            88888888888888888888888888888888888888888888888888888888764

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=1.8e-26  Score=245.11  Aligned_cols=381  Identities=16%  Similarity=0.079  Sum_probs=265.8

Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHH
Q 004244          332 NGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLD  411 (766)
Q Consensus       332 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  411 (766)
                      ..+.+.|++++|.+.++.+.+.. +.+...+..+...+...|++++|...++...+.. +.+..+|..+...+.+.|+++
T Consensus         7 ~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~   84 (388)
T 1w3b_A            7 HREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHH
Confidence            34555666666666666665542 2244455555566666666666666666665542 335566666666666666666


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 004244          412 EAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMV  491 (766)
Q Consensus       412 ~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  491 (766)
                      +|...|+++.+.. +.+..+|..+...+.+.|++++|...++.+.+..+. +...+..+...+...|++++|.+.|+++.
T Consensus        85 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al  162 (388)
T 1w3b_A           85 EAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            6666666666542 223445666666677777777777777666665322 44556666667777777777777777777


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHH
Q 004244          492 EKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVT  571 (766)
Q Consensus       492 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  571 (766)
                      +.... +..+|..+...+...|++++|...|+++.+.+ +.+...+..+...+...|++++|...+++..+.. +.+..+
T Consensus       163 ~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~  239 (388)
T 1w3b_A          163 ETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVV  239 (388)
T ss_dssp             HHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHH
T ss_pred             HhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHH
Confidence            65422 56677777777777788888888877777764 4456677777788888888888888888777652 345677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-cHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCC
Q 004244          572 YSVLINGLNKQARTMEAKKLLLKLFYDESVP-SDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNH  650 (766)
Q Consensus       572 ~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p-~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (766)
                      +..+...+.+.|++++|.+.++++++.  .| +...+..+.               ..+.+.|++++|++.|+++.+.. 
T Consensus       240 ~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~---------------~~~~~~g~~~~A~~~~~~al~~~-  301 (388)
T 1w3b_A          240 HGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLA---------------NALKEKGSVAEAEDCYNTALRLC-  301 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHH---------------HHHHHHSCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHhhC-
Confidence            778888888888888888888888774  33 344555555               77888888888888888888752 


Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHH
Q 004244          651 MPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVL  730 (766)
Q Consensus       651 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  730 (766)
                      +++..+|..++..+.+.|++++|++.++++++.. +.+..++..++..+.+.|++++|...++++++.. |.....|..+
T Consensus       302 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~a~~~l  379 (388)
T 1w3b_A          302 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNM  379 (388)
T ss_dssp             TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHhH
Confidence            3377888888888888999999999998887532 3345778888888889999999999999998876 5667788888


Q ss_pred             HHHHhcCCC
Q 004244          731 VEINHKEGN  739 (766)
Q Consensus       731 ~~~~~~~g~  739 (766)
                      +..+.+.|+
T Consensus       380 g~~~~~~~~  388 (388)
T 1w3b_A          380 GNTLKEMQD  388 (388)
T ss_dssp             HHHHHHTCC
T ss_pred             HHHHHHccC
Confidence            888776653

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.96  E-value=1.1e-25  Score=239.15  Aligned_cols=378  Identities=16%  Similarity=0.094  Sum_probs=208.8

Q ss_pred             HHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHH
Q 004244          299 LCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRA  378 (766)
Q Consensus       299 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  378 (766)
                      +.+.|++++|.+.++++.+... .+...+..+...+...|++++|...++...+.. +.+..+|..+...+.+.|++++|
T Consensus         9 ~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A   86 (388)
T 1w3b_A            9 EYQAGDFEAAERHCMQLWRQEP-DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEA   86 (388)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHH
Confidence            3344445555554444444221 122333334444444555555555554444431 22444555555555555555555


Q ss_pred             HHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004244          379 MEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARK  458 (766)
Q Consensus       379 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  458 (766)
                      .+.|+++.+.. +.+..+|..+...+.+.|++++|.+.++++.+.. +.+...+..+...+...|++++|...|+++.+.
T Consensus        87 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  164 (388)
T 1w3b_A           87 IEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIET  164 (388)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            55555554432 1133345555555555555555555555555432 122334444455555555555555555555554


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004244          459 GLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYT  538 (766)
Q Consensus       459 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  538 (766)
                      .+. +..+|..+...|.+.|++++|...|+++.+.+.. +...+..+...+...|++++|...+++..... +.+..++.
T Consensus       165 ~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~  241 (388)
T 1w3b_A          165 QPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHG  241 (388)
T ss_dssp             CTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHH
Confidence            222 4555556666666666666666666666554322 45556666666666666666666666666543 33455666


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhh
Q 004244          539 TLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIE  618 (766)
Q Consensus       539 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~  618 (766)
                      .+...|.+.|++++|.+.++++.+.+ +.+..+|..+...+.+.|++++|.+.++++++. .+.+..++..+.       
T Consensus       242 ~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~-------  312 (388)
T 1w3b_A          242 NLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLA-------  312 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHH-------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CcccHHHHHHHH-------
Confidence            66666666666666666666666542 334556666666666777777777777766654 233444555554       


Q ss_pred             hhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHHHHH
Q 004244          619 FQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIVLVK  697 (766)
Q Consensus       619 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~  697 (766)
                              ..+...|++++|+..++++.+.. +.+..++..++.++.+.|++++|++.++++++  ..|+ ...|..++.
T Consensus       313 --------~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~--~~p~~~~a~~~lg~  381 (388)
T 1w3b_A          313 --------NIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGN  381 (388)
T ss_dssp             --------HHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHHHH
T ss_pred             --------HHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCHHHHHhHHH
Confidence                    66677777777777777776632 22566677777777777777777777777774  3444 355555655


Q ss_pred             HHHhcC
Q 004244          698 ALHTAG  703 (766)
Q Consensus       698 ~~~~~g  703 (766)
                      .+...|
T Consensus       382 ~~~~~~  387 (388)
T 1w3b_A          382 TLKEMQ  387 (388)
T ss_dssp             HHHHTC
T ss_pred             HHHHcc
Confidence            555444

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=2e-23  Score=230.66  Aligned_cols=279  Identities=12%  Similarity=-0.021  Sum_probs=214.9

Q ss_pred             HHHHHHHHHHHHh---cCCHHHHHHHHHHHHH-----C--CC------CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 004244          429 IVTYNALIKGHCT---GGRVEDAVGVLHGMAR-----K--GL------APDVVSYSTIISGFSRSQELDKAFDTKREMVE  492 (766)
Q Consensus       429 ~~~~~~ll~~~~~---~g~~~~A~~~~~~~~~-----~--~~------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  492 (766)
                      ...+......+..   .|++++|...++.+.+     .  ..      +.+..++..+...+...|++++|...++++.+
T Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~  265 (514)
T 2gw1_A          186 ADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIE  265 (514)
T ss_dssp             HHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            3334444443443   7888888888888776     3  11      12356677788888999999999999999887


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHH
Q 004244          493 KGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTY  572 (766)
Q Consensus       493 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  572 (766)
                      ....  ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+
T Consensus       266 ~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  341 (514)
T 2gw1_A          266 LFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPY  341 (514)
T ss_dssp             HCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHH
T ss_pred             hCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHH
Confidence            7543  7788888889999999999999999988774 5567788888999999999999999999998763 4466788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCC-
Q 004244          573 SVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHM-  651 (766)
Q Consensus       573 ~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-  651 (766)
                      ..+...+...|++++|...++++.... +.+...+..+.               ..+...|++++|...++++.+.... 
T Consensus       342 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la---------------~~~~~~~~~~~A~~~~~~a~~~~~~~  405 (514)
T 2gw1_A          342 IQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFA---------------EILTDKNDFDKALKQYDLAIELENKL  405 (514)
T ss_dssp             HHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHH---------------HHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            888888999999999999999988742 22344455555               7888999999999999988763211 


Q ss_pred             CC----HHHHHHHHHHHhc---cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChH
Q 004244          652 PN----EAVYDIIIHGHSK---VGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDA  724 (766)
Q Consensus       652 p~----~~~~~~l~~~~~~---~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  724 (766)
                      ++    ..+|..++..+..   .|++++|.+.++++++.. +.+..++..++..+...|++++|...++++++.+ |.+.
T Consensus       406 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~  483 (514)
T 2gw1_A          406 DGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESADLA-RTME  483 (514)
T ss_dssp             SSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSHH
T ss_pred             chHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhc-cccH
Confidence            11    3378889999999   999999999999988653 3345778889999999999999999999999987 4555


Q ss_pred             HHHHH
Q 004244          725 ELAKV  729 (766)
Q Consensus       725 ~~~~~  729 (766)
                      ..+..
T Consensus       484 ~~~~~  488 (514)
T 2gw1_A          484 EKLQA  488 (514)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=1.6e-23  Score=231.41  Aligned_cols=439  Identities=10%  Similarity=-0.002  Sum_probs=285.3

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHh
Q 004244          292 YNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCK  371 (766)
Q Consensus       292 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~  371 (766)
                      +......+.+.|++++|...|+++.+..  |+..++..+..++.+.|++++|.+.++++.+.+ +.+..++..++.++.+
T Consensus         9 ~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~   85 (514)
T 2gw1_A            9 LKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEG   85 (514)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHH
Confidence            3444444555555555555555555432  455555555555555555555555555555442 2244455555555555


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004244          372 SGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGV  451 (766)
Q Consensus       372 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~  451 (766)
                      .|++++|...|+++...+. ++......++..+........+.+.+..+...+..|+...+..-...............+
T Consensus        86 ~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (514)
T 2gw1_A           86 LGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSM  164 (514)
T ss_dssp             TTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHH
T ss_pred             HhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHH
Confidence            5555555555555555432 233333333333333222222222222222211111111111100000000111111111


Q ss_pred             HHHHHHCCC---------CCCHHHHHHHHHHHHc---cCCHHHHHHHHHHHHH-----CCC--------CCCHHHHHHHH
Q 004244          452 LHGMARKGL---------APDVVSYSTIISGFSR---SQELDKAFDTKREMVE-----KGV--------LPDTITYSSLI  506 (766)
Q Consensus       452 ~~~~~~~~~---------~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~-----~~~--------~p~~~~~~~li  506 (766)
                      ...+.....         +.+...+......+..   .|++++|...++++.+     ..-        ..+..++..+.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTG  244 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHH
Confidence            111111110         1224555555555554   8999999999999988     311        12356788889


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 004244          507 HGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTM  586 (766)
Q Consensus       507 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~  586 (766)
                      ..+...|++++|...++++.+..  |+...+..+...+...|++++|...++++.+. .+.+...+..+...+...|+++
T Consensus       245 ~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~  321 (514)
T 2gw1_A          245 IFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKL-DSNNSSVYYHRGQMNFILQNYD  321 (514)
T ss_dssp             HHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTT-CTTCTHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhc-CcCCHHHHHHHHHHHHHhCCHH
Confidence            99999999999999999999874  33888999999999999999999999999976 3556788999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 004244          587 EAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSK  666 (766)
Q Consensus       587 ~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~  666 (766)
                      +|...+++++... +.+...+..+.               ..+...|++++|+..++++.+.. +.+..++..++..+..
T Consensus       322 ~A~~~~~~~~~~~-~~~~~~~~~l~---------------~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~  384 (514)
T 2gw1_A          322 QAGKDFDKAKELD-PENIFPYIQLA---------------CLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTD  384 (514)
T ss_dssp             HHHHHHHHHHHTC-SSCSHHHHHHH---------------HHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-hhhHHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHH
Confidence            9999999998853 22344555555               78999999999999999998753 2267788999999999


Q ss_pred             cCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHh---cCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCC
Q 004244          667 VGNVQKAYDLYKKMVRSGF-VPH----TVTIIVLVKALHT---AGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEG  738 (766)
Q Consensus       667 ~g~~~~A~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  738 (766)
                      .|++++|++.++++.+... .++    ...+..++..+..   .|++++|...++++++.. +.+...+..++.+|.+.|
T Consensus       385 ~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g  463 (514)
T 2gw1_A          385 KNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQE  463 (514)
T ss_dssp             TTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhc
Confidence            9999999999999985321 122    2388899999999   999999999999999987 567888899999999999


Q ss_pred             ChhHHHHHHHHHHHCCC
Q 004244          739 NMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       739 ~~~~A~~~~~~m~~~~~  755 (766)
                      ++++|.+.+++..+.+.
T Consensus       464 ~~~~A~~~~~~a~~~~~  480 (514)
T 2gw1_A          464 DIDEAITLFEESADLAR  480 (514)
T ss_dssp             CHHHHHHHHHHHHHHCS
T ss_pred             CHHHHHHHHHHHHHhcc
Confidence            99999999999888654

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.92  E-value=1.6e-21  Score=211.46  Aligned_cols=360  Identities=12%  Similarity=0.044  Sum_probs=253.5

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          358 NVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIK  437 (766)
Q Consensus       358 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~  437 (766)
                      +...+..++..+.+.|++++|..+|+++.+.. +.+..++..+...+...|++++|...|+++.+.+ +.+..++..+..
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  102 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHH
Confidence            55666667777777777777777777766552 2356666666677777777777777777766653 234556666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004244          438 GHCTGGRVEDAVGVLHGMARKGLAPDV---VSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRR  514 (766)
Q Consensus       438 ~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  514 (766)
                      .|.+.|++++|...|+.+.+.... +.   ..+..++..+..                       ..+..+...+...|+
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~-----------------------~~~~~~a~~~~~~~~  158 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEM-----------------------QRLRSQALNAFGSGD  158 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTC
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHcCC
Confidence            666666666666666666654221 22   344444333211                       112233445777888


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004244          515 ITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLK  594 (766)
Q Consensus       515 ~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~  594 (766)
                      +++|...++++.+.. +.+..++..+...|.+.|++++|.+.++++.+. .+.+..+|..++..+...|++++|...|++
T Consensus       159 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  236 (450)
T 2y4t_A          159 YTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKL-KNDNTEAFYKISTLYYQLGDHELSLSEVRE  236 (450)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHH-HCSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999998888764 557778888888899999999999999888865 255778888888999999999999999998


Q ss_pred             HHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCC-----HHHHHHHHHHHhccCC
Q 004244          595 LFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPN-----EAVYDIIIHGHSKVGN  669 (766)
Q Consensus       595 ~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~  669 (766)
                      ++..  .|+.......+....  .......+...+...|++++|+..|+++.+.  .|+     ...|..++.++.+.|+
T Consensus       237 ~~~~--~p~~~~~~~~~~~~~--~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~  310 (450)
T 2y4t_A          237 CLKL--DQDHKRCFAHYKQVK--KLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEK  310 (450)
T ss_dssp             HHHH--CTTCHHHHHHHHHHH--HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHh--CCChHHHHHHHHHHH--HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCC
Confidence            8863  444433322221000  0111122347899999999999999999984  354     4578889999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHH------------HHHhcC
Q 004244          670 VQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLV------------EINHKE  737 (766)
Q Consensus       670 ~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~------------~~~~~~  737 (766)
                      +++|++.++++++.. +.+...|..++.++...|++++|...++++++.. |.+...+..+.            +.|...
T Consensus       311 ~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~y~~l  388 (450)
T 2y4t_A          311 PVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHN-ENDQQIREGLEKAQRLLKQSQKRDYYKIL  388 (450)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHHHHHHSCCSGGGS
T ss_pred             HHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHhhcccchhHHHHh
Confidence            999999999998653 3456889999999999999999999999999987 56677777777            334445


Q ss_pred             C-----ChhHHHHHHHH-HHHC
Q 004244          738 G-----NMDAVLNVLTE-MAKD  753 (766)
Q Consensus       738 g-----~~~~A~~~~~~-m~~~  753 (766)
                      |     +.+++.+.+++ ..+.
T Consensus       389 g~~~~~~~~~~~~~y~~~~l~~  410 (450)
T 2y4t_A          389 GVKRNAKKQEIIKAYRKLALQW  410 (450)
T ss_dssp             CSSTTCCTTHHHHHHHHHHHHS
T ss_pred             CCCccCCHHHHHHHHHHHHHHh
Confidence            5     66777888776 4443

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.91  E-value=3.2e-21  Score=209.05  Aligned_cols=385  Identities=14%  Similarity=0.027  Sum_probs=245.8

Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 004244          310 GILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRE  389 (766)
Q Consensus       310 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  389 (766)
                      ..+.+..... +.+...+..+...+.+.|++++|..+|+++.+.. +.+..++..++.++...|++++|...|+++.+.+
T Consensus        13 ~~~~~~~~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~   90 (450)
T 2y4t_A           13 LGTENLYFQS-MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK   90 (450)
T ss_dssp             -----------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cccccccccc-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            3344444322 2356788899999999999999999999999863 4478999999999999999999999999999875


Q ss_pred             CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 004244          390 LRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSI---VTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVS  466 (766)
Q Consensus       390 ~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~---~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  466 (766)
                      . .+..++..+...|.+.|++++|...|+++.+.. +.+.   ..+..++..+..                       ..
T Consensus        91 p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-----------------------~~  145 (450)
T 2y4t_A           91 M-DFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEM-----------------------QR  145 (450)
T ss_dssp             T-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHH-----------------------HH
T ss_pred             C-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHH-----------------------HH
Confidence            3 368899999999999999999999999999864 2233   556655444211                       11


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004244          467 YSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCT  546 (766)
Q Consensus       467 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~  546 (766)
                      +..+...+.+.|++++|+..++++.+... .+..++..++..|.+.|++++|...++++.+.. +.+..++..+...|..
T Consensus       146 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  223 (450)
T 2y4t_A          146 LRSQALNAFGSGDYTAAIAFLDKILEVCV-WDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQ  223 (450)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            12233344455555555555555554432 244555555555555566666666655555442 3345555555566666


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHH------------HHHHHhcCCHHHHHHHHHHHHhCCCCCcH-----HhHHH
Q 004244          547 EGDIPQALRLHDEMIQKGFLPDVVTYSVL------------INGLNKQARTMEAKKLLLKLFYDESVPSD-----VIYNT  609 (766)
Q Consensus       547 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~l------------i~~~~~~g~~~~A~~l~~~~~~~~~~p~~-----~~~~~  609 (766)
                      .|++++|...++++.+. .+.+...+..+            ...+.+.|++++|.+.|++++..  .|+.     ..+..
T Consensus       224 ~g~~~~A~~~~~~~~~~-~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~  300 (450)
T 2y4t_A          224 LGDHELSLSEVRECLKL-DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKER  300 (450)
T ss_dssp             TTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh-CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHH
Confidence            66666666666655543 12233333333            66677778888888888777763  3432     23333


Q ss_pred             HhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH
Q 004244          610 LIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT  689 (766)
Q Consensus       610 ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~  689 (766)
                      +.               ..+.+.|++++|+..++++.+.. +.+..+|..++.+|...|++++|.+.++++++  ..|+.
T Consensus       301 l~---------------~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~  362 (450)
T 2y4t_A          301 IC---------------HCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQE--HNEND  362 (450)
T ss_dssp             HH---------------HHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TSSSC
T ss_pred             HH---------------HHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCcch
Confidence            33               67777888888888888877632 22677778888888888888888888888774  34543


Q ss_pred             -HHHHHHHHH------------HHhcC-----ChHHHHHHHHH-HHHcCCCC--h-------HHHHHHHHHHHhcCCChh
Q 004244          690 -VTIIVLVKA------------LHTAG-----MNEELSQVIEN-ILRSCRLS--D-------AELAKVLVEINHKEGNMD  741 (766)
Q Consensus       690 -~~~~~l~~~------------~~~~g-----~~~~A~~~~~~-~~~~~~~~--~-------~~~~~~l~~~~~~~g~~~  741 (766)
                       ..+..+..+            +...|     +.+++.+.+++ +++..|..  +       ...+..+..+|...|+.+
T Consensus       363 ~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~  442 (450)
T 2y4t_A          363 QQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPE  442 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGG
T ss_pred             HHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHH
Confidence             444444422            22333     56777888886 55554221  1       235666777777777766


Q ss_pred             HHH
Q 004244          742 AVL  744 (766)
Q Consensus       742 ~A~  744 (766)
                      ++.
T Consensus       443 ~r~  445 (450)
T 2y4t_A          443 MRK  445 (450)
T ss_dssp             GC-
T ss_pred             HHH
Confidence            543

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.91  E-value=2e-21  Score=215.86  Aligned_cols=439  Identities=12%  Similarity=0.026  Sum_probs=301.3

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          253 NVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLN  332 (766)
Q Consensus       253 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  332 (766)
                      ....+..+...+.+.|++++|.+.|+++.... +.+..+|..+...|.+.|++++|.+.++++.+... .+..++..+..
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~  101 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKP-DHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-chHHHHHHHHH
Confidence            34677888888888999999999999887764 23677888888888889999999999998887542 35677888888


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCCHhHHHHHHHHHHhcCCH
Q 004244          333 GYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVREL--RPNEKTYTTLINGFSQHGFL  410 (766)
Q Consensus       333 ~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--~~~~~~~~~li~~~~~~g~~  410 (766)
                      .+...|++++|...|+ ....  .|+  .....+..+...+...+|...++++.....  .+........+..+....+.
T Consensus       102 ~~~~~g~~~~A~~~~~-~~~~--~~~--~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  176 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLS-VLSL--NGD--FDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDS  176 (537)
T ss_dssp             HHHHHTCHHHHHHHHH-HHC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCH
T ss_pred             HHHHcCCHHHHHHHHH-HHhc--CCC--CChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcCh
Confidence            8888999999998886 3322  222  222234455566667788888888865411  11111223344455566666


Q ss_pred             HHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhc--------CCHHHHHHHHHHHHHCCCCCC-------HHHHHHHHHHH
Q 004244          411 DEAYRLLNEMTKNGFMPSIV-TYNALIKGHCTG--------GRVEDAVGVLHGMARKGLAPD-------VVSYSTIISGF  474 (766)
Q Consensus       411 ~~A~~l~~~m~~~g~~~~~~-~~~~ll~~~~~~--------g~~~~A~~~~~~~~~~~~~~~-------~~~~~~li~~~  474 (766)
                      +.+...+......  .+... ....+...+...        |++++|..+++.+.+.... +       ..++..+...+
T Consensus       177 ~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~g~~~  253 (537)
T 3fp2_A          177 HLEVSSVNTSSNY--DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTV-DDPLRENAALALCYTGIFH  253 (537)
T ss_dssp             HHHHHTSCCCCSS--CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CC-CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccc--ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCC-cchhhHHHHHHHHHHHHHH
Confidence            6665554433221  22222 233333333322        3788888888888876433 2       23466666778


Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 004244          475 SRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQAL  554 (766)
Q Consensus       475 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  554 (766)
                      ...|++++|...++++.+..  |+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|.
T Consensus       254 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  330 (537)
T 3fp2_A          254 FLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAK  330 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHH
Confidence            88888899999998888764  457778888888888899999999998888764 556778888888888889999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCC
Q 004244          555 RLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGL  634 (766)
Q Consensus       555 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~  634 (766)
                      ..++++.+.. +.+...+..+...+...|++++|.+.+++++... +.+...+..+.               ..+...|+
T Consensus       331 ~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~---------------~~~~~~g~  393 (537)
T 3fp2_A          331 EDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFA---------------EILTDRGD  393 (537)
T ss_dssp             HHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHH---------------HHHHHTTC
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHH---------------HHHHHhCC
Confidence            9988888752 3456778888888888899999999988887742 22334455544               77888899


Q ss_pred             HHHHHHHHHHHHhCCCC-----CCHHHHHHHHHHHhcc----------CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 004244          635 MNEADRVFELMLQRNHM-----PNEAVYDIIIHGHSKV----------GNVQKAYDLYKKMVRSGFVPHTVTIIVLVKAL  699 (766)
Q Consensus       635 ~~~A~~~~~~~~~~~~~-----p~~~~~~~l~~~~~~~----------g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~  699 (766)
                      +++|...++++.+....     .....+......+.+.          |++++|+..++++++.. +.+...+..++..+
T Consensus       394 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~  472 (537)
T 3fp2_A          394 FDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLK  472 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            99999888888753211     0122244555667777          88899999988888653 33457788888888


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCC
Q 004244          700 HTAGMNEELSQVIENILRSCRLS  722 (766)
Q Consensus       700 ~~~g~~~~A~~~~~~~~~~~~~~  722 (766)
                      ...|++++|...++++++..+..
T Consensus       473 ~~~g~~~~A~~~~~~al~~~~~~  495 (537)
T 3fp2_A          473 LQMEKIDEAIELFEDSAILARTM  495 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--C
T ss_pred             HHhccHHHHHHHHHHHHHhCCCc
Confidence            88899999999999988887433

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.91  E-value=4.7e-21  Score=212.85  Aligned_cols=438  Identities=11%  Similarity=0.025  Sum_probs=303.7

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 004244          219 VYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIING  298 (766)
Q Consensus       219 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~  298 (766)
                      ...+..+...+.+.|++++|.+.|+++.+.. +.+..+|..+..+|.+.|++++|.+.++++.+.+ +.+..++..+...
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHH
Confidence            4556667777788888888888888887754 4467778888888888888888888888877654 2356677777788


Q ss_pred             HHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC--CCCChHHHHHHHHHHHhcCCHH
Q 004244          299 LCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNG--LSPNVVTYTSLINSMCKSGNLN  376 (766)
Q Consensus       299 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~  376 (766)
                      +...|++++|...|+.+ ..  .|+..  ...+..+...+...+|...++.+....  ..+........+..+....+.+
T Consensus       103 ~~~~g~~~~A~~~~~~~-~~--~~~~~--~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  177 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVL-SL--NGDFD--GASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSH  177 (537)
T ss_dssp             HHHHTCHHHHHHHHHHH-C---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHH
T ss_pred             HHHcCCHHHHHHHHHHH-hc--CCCCC--hHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChH
Confidence            88888888888888533 21  22221  222334455555667777777775431  0001111123344455566666


Q ss_pred             HHHHHHHHHHHCCCCCCHh-HHHHHHHHHH--------hcCCHHHHHHHHHHHHHCCCCCC-------HHHHHHHHHHHH
Q 004244          377 RAMEFFDQMHVRELRPNEK-TYTTLINGFS--------QHGFLDEAYRLLNEMTKNGFMPS-------IVTYNALIKGHC  440 (766)
Q Consensus       377 ~A~~~~~~m~~~~~~~~~~-~~~~li~~~~--------~~g~~~~A~~l~~~m~~~g~~~~-------~~~~~~ll~~~~  440 (766)
                      .+...+......  .+... ....+...+.        ..|++++|..+++++.+... .+       ..++..+...+.
T Consensus       178 ~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~~~~~g~~~~  254 (537)
T 3fp2_A          178 LEVSSVNTSSNY--DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANT-VDDPLRENAALALCYTGIFHF  254 (537)
T ss_dssp             HHHHTSCCCCSS--CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--C-CCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccc--ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCC-CcchhhHHHHHHHHHHHHHHH
Confidence            655544433222  11211 2222222222        12478888888888887532 12       224666677888


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004244          441 TGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACE  520 (766)
Q Consensus       441 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  520 (766)
                      ..|++++|...++.+.+..  |+...+..+...|...|++++|...++++.+.... +..++..+...+...|++++|..
T Consensus       255 ~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~  331 (537)
T 3fp2_A          255 LKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKE  331 (537)
T ss_dssp             HTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHH
Confidence            8999999999999998863  45788888999999999999999999999887543 67889999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 004244          521 LFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDES  600 (766)
Q Consensus       521 ~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~  600 (766)
                      .++++.+.. +.+...+..+...+...|++++|...++++.+. .+.+...+..+...+...|++++|.+.+++++... 
T Consensus       332 ~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-  408 (537)
T 3fp2_A          332 DFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLK-FPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLE-  408 (537)
T ss_dssp             HHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-
Confidence            999998874 456778889999999999999999999999876 35567788899999999999999999999987642 


Q ss_pred             CCcHH-hHHHHhhhhchhhhhhHHHHHhhhhhc----------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCC
Q 004244          601 VPSDV-IYNTLIENCTNIEFQNVAALLKGFCMK----------GLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGN  669 (766)
Q Consensus       601 ~p~~~-~~~~ll~~~~~~~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  669 (766)
                       |+.. .+..+.         .+..+...+...          |++++|+..|+++.+.. +.+..++..++.+|.+.|+
T Consensus       409 -~~~~~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~  477 (537)
T 3fp2_A          409 -EVQEKIHVGIG---------PLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEK  477 (537)
T ss_dssp             -HHCSSCSSTTH---------HHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             -CcchhhHHHHH---------HHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcc
Confidence             1110 000000         000111456666          99999999999999853 2378889999999999999


Q ss_pred             hHHHHHHHHHHHHc
Q 004244          670 VQKAYDLYKKMVRS  683 (766)
Q Consensus       670 ~~~A~~~~~~m~~~  683 (766)
                      +++|.+.++++++.
T Consensus       478 ~~~A~~~~~~al~~  491 (537)
T 3fp2_A          478 IDEAIELFEDSAIL  491 (537)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999999965

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.87  E-value=2.5e-17  Score=180.21  Aligned_cols=352  Identities=13%  Similarity=0.026  Sum_probs=197.5

Q ss_pred             CHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCH
Q 004244          323 DEVTYNTLLNGYCK----EGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCK----SGNLNRAMEFFDQMHVRELRPNE  394 (766)
Q Consensus       323 ~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~  394 (766)
                      +...+..+...|..    .+++++|...|++..+.|   +...+..|...|..    .+++++|.+.|++..+.|   +.
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            33444444444444    455555555555555442   34445555555555    555555555555555543   34


Q ss_pred             hHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHH
Q 004244          395 KTYTTLINGFSQ----HGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCT----GGRVEDAVGVLHGMARKGLAPDVVS  466 (766)
Q Consensus       395 ~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~  466 (766)
                      ..+..|...|..    .+++++|...|++..+.|   +...+..+...|..    .++.++|...|+...+.+   +...
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a  185 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWS  185 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            444445555554    455555555555555543   34444445555544    455666666666655542   4555


Q ss_pred             HHHHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004244          467 YSTIISGFSR----SQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCE----QRRITEACELFQEMLSRGMSPDEFTYT  538 (766)
Q Consensus       467 ~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~  538 (766)
                      +..+...|..    .++.++|.+.|++..+.|   +...+..+...|..    .+++++|..+|++..+.|   +...+.
T Consensus       186 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~  259 (490)
T 2xm6_A          186 CNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQF  259 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHH
T ss_pred             HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            5555555555    566666666666665553   44555555555554    566666666666665543   334445


Q ss_pred             HHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCcHHhHHH
Q 004244          539 TLINAYCT----EGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQ-----ARTMEAKKLLLKLFYDESVPSDVIYNT  609 (766)
Q Consensus       539 ~l~~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~-----g~~~~A~~l~~~~~~~~~~p~~~~~~~  609 (766)
                      .+...|..    .++.++|.+.+++..+.|   +...+..+...|...     +++++|.+.+++..+.+   +...+..
T Consensus       260 ~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~  333 (490)
T 2xm6_A          260 RLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQAN  333 (490)
T ss_dssp             HHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHH
Confidence            55555555    566666666666666543   344555555555554     66666776666666543   1222222


Q ss_pred             HhhhhchhhhhhHHHHHhhhhhcC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHH
Q 004244          610 LIENCTNIEFQNVAALLKGFCMKG---LMNEADRVFELMLQRNHMPNEAVYDIIIHGHSK----VGNVQKAYDLYKKMVR  682 (766)
Q Consensus       610 ll~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~  682 (766)
                      +.               ..|...|   +.++|++.|++..+.|   ++..+..+...|..    .+++++|++.|++..+
T Consensus       334 lg---------------~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~  395 (490)
T 2xm6_A          334 LG---------------AIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAE  395 (490)
T ss_dssp             HH---------------HHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             HH---------------HHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHh
Confidence            22               3344434   5666777777766643   55566666666666    6677777777777665


Q ss_pred             cCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcC
Q 004244          683 SGFVPHTVTIIVLVKALHT----AGMNEELSQVIENILRSC  719 (766)
Q Consensus       683 ~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  719 (766)
                      .+   +...+..+...+..    .++.++|..+++++.+.+
T Consensus       396 ~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          396 QG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             TT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             CC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            43   34555566666665    667777777777777665

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.86  E-value=1.8e-18  Score=180.94  Aligned_cols=343  Identities=11%  Similarity=0.042  Sum_probs=235.6

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          358 NVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIK  437 (766)
Q Consensus       358 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~  437 (766)
                      |+..+..+...+...|++++|...|+++.+.. +.+..++..+...+...|++++|...++++.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            34566677777777777777777777777653 2356677777777777777777777777776653 234566667777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 004244          438 GHCTGGRVEDAVGVLHGMARKGLA--PDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRI  515 (766)
Q Consensus       438 ~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  515 (766)
                      .+...|++++|...++.+.+....  .+...+..+...+.                       ...+..+...+...|++
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCH
Confidence            777777777777777777665220  12222322211100                       11122345667778888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004244          516 TEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKL  595 (766)
Q Consensus       516 ~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~  595 (766)
                      ++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+. .+.+...+..+...+...|++++|...+++.
T Consensus       137 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  214 (359)
T 3ieg_A          137 TAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKL-KSDNTEAFYKISTLYYQLGDHELSLSEVREC  214 (359)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-CSCCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            88888888887764 556777778888888888888888888888775 3556777888888888888888888888888


Q ss_pred             HhCCCCCcHHh-HHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHhccCCh
Q 004244          596 FYDESVPSDVI-YNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNE----AVYDIIIHGHSKVGNV  670 (766)
Q Consensus       596 ~~~~~~p~~~~-~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~  670 (766)
                      .+.  .|+... +..+. ...  .......+...+...|++++|...++++.+.... +.    ..+..++.++.+.|++
T Consensus       215 ~~~--~~~~~~~~~~~~-~~~--~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~  288 (359)
T 3ieg_A          215 LKL--DQDHKRCFAHYK-QVK--KLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKP  288 (359)
T ss_dssp             HHH--CTTCHHHHHHHH-HHH--HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCH
T ss_pred             Hhh--CccchHHHHHHH-HHH--HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCH
Confidence            764  333222 21110 000  0111112236788999999999999999974322 33    2355688899999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHh
Q 004244          671 QKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINH  735 (766)
Q Consensus       671 ~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  735 (766)
                      ++|++.++++++.. +.+...+..++..+...|++++|...++++++.. |.+...+..+..+..
T Consensus       289 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~  351 (359)
T 3ieg_A          289 VEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN-ENDQQIREGLEKAQR  351 (359)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChHHHHHHHHHHH
Confidence            99999999998752 3456888999999999999999999999999998 556666666666554

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.85  E-value=1e-15  Score=174.27  Aligned_cols=317  Identities=14%  Similarity=0.159  Sum_probs=173.6

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004244          371 KSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVG  450 (766)
Q Consensus       371 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~  450 (766)
                      ..|++++|.++.++..      +..+|..+..++.+.|++++|.+.|.+.      .|...|..++..+.+.|++++|.+
T Consensus      1088 ~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIe 1155 (1630)
T 1xi4_A         1088 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK 1155 (1630)
T ss_pred             HHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHH
Confidence            3444555555544331      3444555555555555555555555332      244444555555555555555555


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004244          451 VLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGM  530 (766)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  530 (766)
                      .+....+..  ++....+.++.+|++.+++++.....    .   .++...|..+...|...|++++|..+|...     
T Consensus      1156 yL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA----- 1221 (1630)
T 1xi4_A         1156 YLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----- 1221 (1630)
T ss_pred             HHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh-----
Confidence            555444432  12222223455555555544322221    1   123344444555555555555555555543     


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHH
Q 004244          531 SPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTL  610 (766)
Q Consensus       531 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~l  610 (766)
                          ..|..+...|++.|++++|.+.+++.      .+..+|..+..++...|++..|........     .+...    
T Consensus      1222 ----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~Ii-----v~~de---- 1282 (1630)
T 1xi4_A         1222 ----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADE---- 1282 (1630)
T ss_pred             ----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHhhh-----cCHHH----
Confidence                14555555555555555555555444      133555555555555555555554443221     11222    


Q ss_pred             hhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc--cCChHHHHHHHHHHHHcCCCC-
Q 004244          611 IENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSK--VGNVQKAYDLYKKMVRSGFVP-  687 (766)
Q Consensus       611 l~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~--~g~~~~A~~~~~~m~~~~~~p-  687 (766)
                                 +..++..|.+.|.+++|+.+++..+... +-....|+-+..+|++  -++..+++++|..-.  .++| 
T Consensus      1283 -----------Leeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~peklmEhlk~f~~ri--ni~k~ 1348 (1630)
T 1xi4_A         1283 -----------LEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRV--NIPKV 1348 (1630)
T ss_pred             -----------HHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhc--ccchH
Confidence                       2344488999999999999998887643 2256677667666665  456677777776543  3333 


Q ss_pred             -----CHHHHHHHHHHHHhcCChHHHHHHHH-------------HHHHcCCCChHHHHHHHHHHHhcCC-----------
Q 004244          688 -----HTVTIIVLVKALHTAGMNEELSQVIE-------------NILRSCRLSDAELAKVLVEINHKEG-----------  738 (766)
Q Consensus       688 -----~~~~~~~l~~~~~~~g~~~~A~~~~~-------------~~~~~~~~~~~~~~~~l~~~~~~~g-----------  738 (766)
                           +...|..++-.|.+.|+++.|...+-             ..+.  ...++..|...+..|...+           
T Consensus      1349 ~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~--kv~n~elyykai~Fyl~~~P~~lndLl~~l 1426 (1630)
T 1xi4_A         1349 LRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIIT--KVANVELYYRAIQFYLEFKPLLLNDLLMVL 1426 (1630)
T ss_pred             hHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhc--ccccHHHHHHHHHHHHhhChHHHHHHHHHh
Confidence                 34678889999999999999983222             2222  2456788888888888776           


Q ss_pred             ----ChhHHHHHHH
Q 004244          739 ----NMDAVLNVLT  748 (766)
Q Consensus       739 ----~~~~A~~~~~  748 (766)
                          +.+.+.+++.
T Consensus      1427 ~~rlD~~R~V~l~~ 1440 (1630)
T 1xi4_A         1427 SPRLDHTRAVNYFS 1440 (1630)
T ss_pred             hhcCChHHHHHHHH
Confidence                6677766665

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.85  E-value=5.6e-18  Score=177.08  Aligned_cols=298  Identities=12%  Similarity=0.072  Sum_probs=205.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004244          433 NALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQ  512 (766)
Q Consensus       433 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  512 (766)
                      ..+...+...|++++|...++.+.+..+. +..++..+...+...|++++|...++++.+.... +...+..+...+...
T Consensus         7 ~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~   84 (359)
T 3ieg_A            7 LELGKKLLAAGQLADALSQFHAAVDGDPD-NYIAYYRRATVFLAMGKSKAALPDLTKVIALKMD-FTAARLQRGHLLLKQ   84 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-cchHHHHHHHHHHHc
Confidence            33334444444444444444444433211 3344444444444444444444444444443211 334444444444444


Q ss_pred             CCHHHHHHHHHHHHHCCCC---CCHHHH------------HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          513 RRITEACELFQEMLSRGMS---PDEFTY------------TTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLIN  577 (766)
Q Consensus       513 g~~~~A~~~~~~m~~~~~~---p~~~~~------------~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~  577 (766)
                      |++++|...++++.+.. +   .+...+            ..+...+...|++++|.+.++++.+. .+.+...+..+..
T Consensus        85 ~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~  162 (359)
T 3ieg_A           85 GKLDEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEV-CVWDAELRELRAE  162 (359)
T ss_dssp             TCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-CCCchHHHHHHHH
Confidence            55555555555444432 1   122222            23367889999999999999999976 3567889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHH
Q 004244          578 GLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAV  656 (766)
Q Consensus       578 ~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~  656 (766)
                      .+...|++++|.+.+++++.. .+.+...+..+.               ..+...|++++|...++++.+..  | +...
T Consensus       163 ~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~la---------------~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~  224 (359)
T 3ieg_A          163 CFIKEGEPRKAISDLKAASKL-KSDNTEAFYKIS---------------TLYYQLGDHELSLSEVRECLKLD--QDHKRC  224 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTT-CSCCHHHHHHHH---------------HHHHHHTCHHHHHHHHHHHHHHC--TTCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHhhC--ccchHH
Confidence            999999999999999999885 233455555555               88999999999999999999743  4 4444


Q ss_pred             HH------------HHHHHHhccCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          657 YD------------IIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-----VTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       657 ~~------------~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      +.            .++..+.+.|++++|++.++++.+..  |+.     ..+..++..+...|++++|...++++++..
T Consensus       225 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  302 (359)
T 3ieg_A          225 FAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME  302 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            43            23677899999999999999998653  443     235567889999999999999999999987


Q ss_pred             CCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          720 RLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       720 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                       |.+...+..++.++...|++++|.+.++++.+...
T Consensus       303 -~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p  337 (359)
T 3ieg_A          303 -PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNE  337 (359)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             -cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence             66788999999999999999999999999988753

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.85  E-value=2.2e-16  Score=172.62  Aligned_cols=353  Identities=11%  Similarity=0.023  Sum_probs=228.0

Q ss_pred             CHHHHHHHHHHHHH----cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCh
Q 004244          288 NLISYNVIINGLCK----EGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCK----EGNLHQALVLHAEMVRNGLSPNV  359 (766)
Q Consensus       288 ~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~  359 (766)
                      +...+..+...|..    .+++++|...|++..+.|   +...+..|...|..    .++.++|.+.|++..+.|   +.
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            44444444444444    455555555555555542   34444455555555    555666666666555543   44


Q ss_pred             HHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHH
Q 004244          360 VTYTSLINSMCK----SGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQ----HGFLDEAYRLLNEMTKNGFMPSIVT  431 (766)
Q Consensus       360 ~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~~~~~~  431 (766)
                      ..+..|...|..    .+++++|.+.|++..+.|   +...+..|...|..    .++.++|.+.|++..+.|   +...
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a  185 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWS  185 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            455555555555    556666666666665543   44555555555554    556666666666666654   4555


Q ss_pred             HHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004244          432 YNALIKGHCT----GGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSR----SQELDKAFDTKREMVEKGVLPDTITYS  503 (766)
Q Consensus       432 ~~~ll~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~  503 (766)
                      +..+...|..    .++.++|...|+...+.+   +...+..+...|..    .++.++|...|++..+.|   +...+.
T Consensus       186 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~  259 (490)
T 2xm6_A          186 CNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQF  259 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHH
T ss_pred             HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            5566666655    666777777777666653   44556666666654    667777777777776654   455566


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-----CChHHHHHHHHHHHHCCCCCCHHHHHH
Q 004244          504 SLIHGLCE----QRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTE-----GDIPQALRLHDEMIQKGFLPDVVTYSV  574 (766)
Q Consensus       504 ~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~~~g~~p~~~~~~~  574 (766)
                      .+...+..    .++.++|...|++..+.|   +...+..+...|...     ++.++|...+++..+.|   +...+..
T Consensus       260 ~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~  333 (490)
T 2xm6_A          260 RLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQAN  333 (490)
T ss_dssp             HHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHH
Confidence            66666666    677888888888777654   445666677777766     78888888888887764   4566666


Q ss_pred             HHHHHHhcC---CHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhh----cCCHHHHHHHHHHHHh
Q 004244          575 LINGLNKQA---RTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCM----KGLMNEADRVFELMLQ  647 (766)
Q Consensus       575 li~~~~~~g---~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~  647 (766)
                      +...|...|   +.++|++.|++..+.+   +...+..+.               ..|..    .+++++|...|++..+
T Consensus       334 lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg---------------~~y~~g~g~~~~~~~A~~~~~~A~~  395 (490)
T 2xm6_A          334 LGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLG---------------NALLQGKGVKKDEQQAAIWMRKAAE  395 (490)
T ss_dssp             HHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHH---------------HHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHH---------------HHHHcCCCCCCCHHHHHHHHHHHHh
Confidence            777776655   6788888888887753   344444444               55655    7888999999988888


Q ss_pred             CCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHcCC
Q 004244          648 RNHMPNEAVYDIIIHGHSK----VGNVQKAYDLYKKMVRSGF  685 (766)
Q Consensus       648 ~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~  685 (766)
                      .+   ++..+..+...|.+    .++.++|.+.|+++.+.+.
T Consensus       396 ~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          396 QG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             TT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHC
T ss_pred             CC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC
Confidence            64   56777888888887    7889999999999887653

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.83  E-value=1e-14  Score=166.23  Aligned_cols=534  Identities=13%  Similarity=0.134  Sum_probs=361.7

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHH
Q 004244          145 SSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHG--FMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTY  222 (766)
Q Consensus       145 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g--~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  222 (766)
                      ++.-....+++|...|.+.+|+++++.....+  +.-+....|.++....+...    .+..+..++....       ..
T Consensus       984 ~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIkaD~----~Rv~eyI~kLd~~-------d~ 1052 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKADR----TRVMEYINRLDNY-------DA 1052 (1630)
T ss_pred             CHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHhCh----hhHHHHHHHhhhc-------cH
Confidence            56667889999999999999999999988432  22355678888888888753    4555555554321       23


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHc
Q 004244          223 NVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKE  302 (766)
Q Consensus       223 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~  302 (766)
                      .-+...+...|.+++|..+|++...     .....+.++.   ..|++++|.++.++..      +..+|..+..++.+.
T Consensus      1053 ~eIA~Iai~lglyEEAf~IYkKa~~-----~~~A~~VLie---~i~nldrAiE~Aervn------~p~vWsqLAKAql~~ 1118 (1630)
T 1xi4_A         1053 PDIANIAISNELFEEAFAIFRKFDV-----NTSAVQVLIE---HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQK 1118 (1630)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCC-----HHHHHHHHHH---HHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhC
Confidence            4477888899999999999999732     2333344443   6789999999998763      467899999999999


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHH
Q 004244          303 GRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFF  382 (766)
Q Consensus       303 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  382 (766)
                      |++++|.+.|.+.      -|...|..++..+.+.|++++|.+.+....+..  +++...+.++.+|++.+++++...+.
T Consensus      1119 G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI 1190 (1630)
T 1xi4_A         1119 GMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI 1190 (1630)
T ss_pred             CCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH
Confidence            9999999999664      477788889999999999999999999877754  44444556999999999998644432


Q ss_pred             HHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 004244          383 DQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAP  462 (766)
Q Consensus       383 ~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~  462 (766)
                          .   .++...|..+...|...|++++|..+|...         ..|..+...+++.|++++|.+.+++.      .
T Consensus      1191 ----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~ 1248 (1630)
T 1xi4_A         1191 ----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------N 1248 (1630)
T ss_pred             ----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------C
Confidence                2   346677888999999999999999999985         37999999999999999999999877      3


Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          463 DVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLIN  542 (766)
Q Consensus       463 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~  542 (766)
                      +..+|..+-.+|...|++..|......+.     .++..+..++..|.+.|.+++|+.+++..+... +-....|+-+..
T Consensus      1249 n~~aWkev~~acve~~Ef~LA~~cgl~Ii-----v~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELai 1322 (1630)
T 1xi4_A         1249 STRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAI 1322 (1630)
T ss_pred             CHHHHHHHHHHHhhhhHHHHHHHHHHhhh-----cCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHH
Confidence            67899999999999999999988766432     366778899999999999999999998887654 444556777777


Q ss_pred             HHHhc--CChHHHHHHHHHHHHCCCCC------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----------CCCCc
Q 004244          543 AYCTE--GDIPQALRLHDEMIQKGFLP------DVVTYSVLINGLNKQARTMEAKKLLLKLFYD-----------ESVPS  603 (766)
Q Consensus       543 ~~~~~--g~~~~A~~~~~~~~~~g~~p------~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~-----------~~~p~  603 (766)
                      .|++.  ++..++.++|..-..  +++      +...|..++-.|.+.|+++.|...+-+-...           ....+
T Consensus      1323 LyaKy~peklmEhlk~f~~rin--i~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~kv~n 1400 (1630)
T 1xi4_A         1323 LYSKFKPQKMREHLELFWSRVN--IPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVAN 1400 (1630)
T ss_pred             HHHhCCHHHHHHHHHHHHHhcc--cchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhccccc
Confidence            77653  556666666654332  222      5678999999999999999998433222110           01222


Q ss_pred             HHhHHHHhhhhchhh---hh----------hHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCCh
Q 004244          604 DVIYNTLIENCTNIE---FQ----------NVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNV  670 (766)
Q Consensus       604 ~~~~~~ll~~~~~~~---~~----------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  670 (766)
                      ...|...+.-+-...   +.          .....+..+.+.|++.-+..+++.+...+   +...-..+.+.|....++
T Consensus      1401 ~elyykai~Fyl~~~P~~lndLl~~l~~rlD~~R~V~l~~~~~~l~lik~yl~~vq~~n---~~~Vneal~el~ieeed~ 1477 (1630)
T 1xi4_A         1401 VELYYRAIQFYLEFKPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDY 1477 (1630)
T ss_pred             HHHHHHHHHHHHhhChHHHHHHHHHhhhcCChHHHHHHHHHcCChHHhHHHHHHHHHhc---chhhhHHHHHHhcCccch
Confidence            333322221111000   00          01123344455555555555555544322   223334455555555554


Q ss_pred             HHHHHHHH------HH-HHcCCCC-CHHHHHHHHHHHH-hcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChh
Q 004244          671 QKAYDLYK------KM-VRSGFVP-HTVTIIVLVKALH-TAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMD  741 (766)
Q Consensus       671 ~~A~~~~~------~m-~~~~~~p-~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  741 (766)
                      +.-..-.+      .+ +...+.- +..-+..++..+. +.|++++|.+.+.+.-         .|...++...+.|+.+
T Consensus      1478 ~~Lr~si~~~~nfd~~~La~~lekheLl~frrIAa~ly~~n~~~~~ai~l~k~d~---------l~~dAm~~a~~S~d~e 1548 (1630)
T 1xi4_A         1478 QALRTSIDAYDNFDNISLAQRLEKHELIEFRRIAAYLFKGNNRWKQSVELCKKDS---------LYKDAMQYASESKDTE 1548 (1630)
T ss_pred             HHHHHHHhhccCcCHHHHHHHhhhhhHHHHHHHHHHHHHhcCcHHHHHHHHHhcc---------CHHHHHHHHHHcCCHH
Confidence            32221111      11 0001111 1122344444444 4488888887765532         2334455556666666


Q ss_pred             HHHHHHHHHHHC
Q 004244          742 AVLNVLTEMAKD  753 (766)
Q Consensus       742 ~A~~~~~~m~~~  753 (766)
                      .+.+++.-..+.
T Consensus      1549 ~~e~ll~~F~~~ 1560 (1630)
T 1xi4_A         1549 LAEELLQWFLQE 1560 (1630)
T ss_pred             HHHHHHHHHHhc
Confidence            666655555444

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.83  E-value=4.2e-18  Score=175.82  Aligned_cols=293  Identities=10%  Similarity=-0.014  Sum_probs=213.1

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004244          427 PSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLI  506 (766)
Q Consensus       427 ~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li  506 (766)
                      .+...+..+...+...|++++|..+++.+.+.... +...+..++..+...|++++|...++++.+.... +...+..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPF-HASCLPVHIGTLVELNKANELFYLSHKLVDLYPS-NPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-ChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHH
Confidence            34445555666666667777777777776665332 4445555666667777777777777777765432 556677777


Q ss_pred             HHHHhcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 004244          507 HGLCEQR-RITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQART  585 (766)
Q Consensus       507 ~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~  585 (766)
                      ..+...| ++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~  175 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNS  175 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhH
Confidence            7777777 7788888887777664 4456677777778888888888888888777652 33456666677778888888


Q ss_pred             HHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCC--------CCCCHHHH
Q 004244          586 MEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRN--------HMPNEAVY  657 (766)
Q Consensus       586 ~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--------~~p~~~~~  657 (766)
                      ++|.+.+++.+... +.+...+..+.               ..+...|++++|...++++.+..        .+....+|
T Consensus       176 ~~A~~~~~~al~~~-~~~~~~~~~l~---------------~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~  239 (330)
T 3hym_B          176 KLAERFFSQALSIA-PEDPFVMHEVG---------------VVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLL  239 (330)
T ss_dssp             HHHHHHHHHHHTTC-TTCHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHH
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHH---------------HHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHH
Confidence            88888888887642 22344455544               77888888888888888877521        12346788


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHH-hc
Q 004244          658 DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEIN-HK  736 (766)
Q Consensus       658 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~-~~  736 (766)
                      ..++.++.+.|++++|++.++++++.. +.+...+..++..+...|++++|..+++++++.. |.+...+..++.++ ..
T Consensus       240 ~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  317 (330)
T 3hym_B          240 NNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCIEMY  317 (330)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHHHHH
Confidence            999999999999999999999998653 3355788899999999999999999999999987 66788888899888 56


Q ss_pred             CCChh
Q 004244          737 EGNMD  741 (766)
Q Consensus       737 ~g~~~  741 (766)
                      .|+.+
T Consensus       318 ~g~~~  322 (330)
T 3hym_B          318 IGDSE  322 (330)
T ss_dssp             TTC--
T ss_pred             hCchh
Confidence            66644

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.82  E-value=2.5e-16  Score=174.10  Aligned_cols=429  Identities=11%  Similarity=0.090  Sum_probs=225.5

Q ss_pred             HHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC
Q 004244          277 LRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLS  356 (766)
Q Consensus       277 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~  356 (766)
                      +++..... +-|...|..++. +.+.|++++|..+|+++.+.- +-+...|..++..+.+.|++++|..+|++++...  
T Consensus         2 le~al~~~-P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--   76 (530)
T 2ooe_A            2 AEKKLEEN-PYDLDAWSILIR-EAQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--   76 (530)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--
T ss_pred             hhhHhhhC-CCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--
Confidence            34444432 236778888888 478899999999999998853 3356778888999999999999999999998763  


Q ss_pred             CChHHHHHHHHHH-HhcCCHHHHHH----HHHHHHHC-CCCC-CHhHHHHHHHHHHh---------cCCHHHHHHHHHHH
Q 004244          357 PNVVTYTSLINSM-CKSGNLNRAME----FFDQMHVR-ELRP-NEKTYTTLINGFSQ---------HGFLDEAYRLLNEM  420 (766)
Q Consensus       357 ~~~~~~~~li~~~-~~~g~~~~A~~----~~~~m~~~-~~~~-~~~~~~~li~~~~~---------~g~~~~A~~l~~~m  420 (766)
                      |++..|..++... ...|++++|.+    +|++.... |..| +...|...+.....         .|++++|..+|++.
T Consensus        77 p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~a  156 (530)
T 2ooe_A           77 LHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRG  156 (530)
T ss_dssp             CCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHH
Confidence            5777777777533 34677776665    66666543 4333 45677777766554         67888899999888


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH------HCC
Q 004244          421 TKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMV------EKG  494 (766)
Q Consensus       421 ~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~------~~~  494 (766)
                      .+....+....|..........|. ..+..                   ++.  .+.++++.|..+++++.      +..
T Consensus       157 l~~P~~~~~~~~~~~~~~e~~~~~-~~~~~-------------------~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~  214 (530)
T 2ooe_A          157 CVNPMINIEQLWRDYNKYEEGINI-HLAKK-------------------MIE--DRSRDYMNARRVAKEYETVMKGLDRN  214 (530)
T ss_dssp             TTSCCTTHHHHHHHHHHHHHHHCH-HHHHH-------------------HHH--TTHHHHHHHHHHHHHHHHHHHHCCSS
T ss_pred             HhchhhhHHHHHHHHHHHHHhhch-hHHHH-------------------HHH--HhhHHHHHHHHHHHHHHHHHHHhccc
Confidence            873111112233332221100110 00000                   000  01223334443333311      110


Q ss_pred             ---CCCC--------HHHHHHHHHHHHhc----CCH----HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-------cC
Q 004244          495 ---VLPD--------TITYSSLIHGLCEQ----RRI----TEACELFQEMLSRGMSPDEFTYTTLINAYCT-------EG  548 (766)
Q Consensus       495 ---~~p~--------~~~~~~li~~~~~~----g~~----~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~-------~g  548 (766)
                         +.|+        ...|...+......    ++.    +.+..+|++.+... +.+...|..++..+.+       .|
T Consensus       215 ~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g  293 (530)
T 2ooe_A          215 APSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKG  293 (530)
T ss_dssp             SCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             cccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhcc
Confidence               1222        12333333221111    111    24455555555542 3344555555555443       45


Q ss_pred             ChH-------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcH--HhHHHHhhhhchhhh
Q 004244          549 DIP-------QALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSD--VIYNTLIENCTNIEF  619 (766)
Q Consensus       549 ~~~-------~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~--~~~~~ll~~~~~~~~  619 (766)
                      +++       +|..++++.++.-.+.+...|..++..+.+.|++++|..+|++++..  .|+.  ..|....        
T Consensus       294 ~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~--------  363 (530)
T 2ooe_A          294 DMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYM--------  363 (530)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHH--------
T ss_pred             chhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHH--------
Confidence            554       55666655554212334555555555555566666666666665552  3321  2344333        


Q ss_pred             hhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004244          620 QNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHG-HSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKA  698 (766)
Q Consensus       620 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~  698 (766)
                             ..+.+.|++++|.++|++..+.. +.+...|...+.. +...|++++|..+|+++++.. +.+...|..++..
T Consensus       364 -------~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~  434 (530)
T 2ooe_A          364 -------KFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDY  434 (530)
T ss_dssp             -------HHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHH
T ss_pred             -------HHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence                   44445555666666666655531 1122222221111 223556666666666655431 1233555555555


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCC---ChHHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          699 LHTAGMNEELSQVIENILRSCRL---SDAELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       699 ~~~~g~~~~A~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      +.+.|+.++|..++++++...+.   .....|...+......|+.+.+.++.+++.+
T Consensus       435 ~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~  491 (530)
T 2ooe_A          435 LSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  491 (530)
T ss_dssp             HTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             HHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55666666666666666654311   1133455555555555666666655555544

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.81  E-value=9.2e-16  Score=169.52  Aligned_cols=219  Identities=11%  Similarity=0.066  Sum_probs=170.1

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-------cCCHH-------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 004244          411 DEAYRLLNEMTKNGFMPSIVTYNALIKGHCT-------GGRVE-------DAVGVLHGMARKGLAPDVVSYSTIISGFSR  476 (766)
Q Consensus       411 ~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~-------~g~~~-------~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  476 (766)
                      +++..+|++..... +.+...|..++..+.+       .|+++       +|..++++..+.-.+.+...|..++..+.+
T Consensus       255 ~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~  333 (530)
T 2ooe_A          255 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  333 (530)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            46778888888752 4467788888877765       78887       899999999863234468899999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCChHHHH
Q 004244          477 SQELDKAFDTKREMVEKGVLPDT-ITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINA-YCTEGDIPQAL  554 (766)
Q Consensus       477 ~g~~~~A~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~-~~~~g~~~~A~  554 (766)
                      .|++++|..+|+++.+.... +. ..|..++..+.+.|++++|.++|++..+.. +.+...|...... +...|+.++|.
T Consensus       334 ~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~  411 (530)
T 2ooe_A          334 RMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  411 (530)
T ss_dssp             TTCHHHHHHHHHHHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHH
T ss_pred             cCCHHHHHHHHHHHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHH
Confidence            99999999999999986322 33 588888888899999999999999998863 3333333332222 34689999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCc--HHhHHHHhhhhchhhhhhHHHHHhhhhh
Q 004244          555 RLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDES-VPS--DVIYNTLIENCTNIEFQNVAALLKGFCM  631 (766)
Q Consensus       555 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~-~p~--~~~~~~ll~~~~~~~~~~~~~l~~~~~~  631 (766)
                      .+|+..++. .+.+...|..++..+.+.|+.++|..+|++.+.... .|+  ...|...+               .....
T Consensus       412 ~~~e~al~~-~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~---------------~~e~~  475 (530)
T 2ooe_A          412 KIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFL---------------AFESN  475 (530)
T ss_dssp             HHHHHHHHH-HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHH---------------HHHHH
T ss_pred             HHHHHHHHH-CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHH---------------HHHHH
Confidence            999999876 345688999999999999999999999999988632 232  33555555               66677


Q ss_pred             cCCHHHHHHHHHHHHhC
Q 004244          632 KGLMNEADRVFELMLQR  648 (766)
Q Consensus       632 ~g~~~~A~~~~~~~~~~  648 (766)
                      .|+.+.+..+++++.+.
T Consensus       476 ~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          476 IGDLASILKVEKRRFTA  492 (530)
T ss_dssp             SSCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            89999999999998863

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.80  E-value=4.9e-17  Score=167.76  Aligned_cols=200  Identities=12%  Similarity=0.017  Sum_probs=104.3

Q ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004244          357 PNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALI  436 (766)
Q Consensus       357 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll  436 (766)
                      .+...+..++..+...|++++|.++|+++.+... .+...+..++..+...|++++|..+++++.+.. +.+...+..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDP-FHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            3445555566666666666666666666655432 234445555555666666666666666665542 22444555555


Q ss_pred             HHHHhcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 004244          437 KGHCTGG-RVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRI  515 (766)
Q Consensus       437 ~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  515 (766)
                      ..+...| ++++|...++.+.+.... +...|..+...+...|++++|...++++.+.... +...+..+...+...|++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~  175 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNS  175 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhH
Confidence            5555555 555666665555554322 3444555555555555555555555555544222 233344444455555555


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 004244          516 TEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMI  561 (766)
Q Consensus       516 ~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  561 (766)
                      ++|...++++.+.. +.+...+..+...+...|++++|...++++.
T Consensus       176 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  220 (330)
T 3hym_B          176 KLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDAL  220 (330)
T ss_dssp             HHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            55555555554442 3334444444455555555555555554444

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.79  E-value=1.1e-16  Score=174.48  Aligned_cols=395  Identities=13%  Similarity=-0.005  Sum_probs=224.6

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHC--------CCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----C-
Q 004244          324 EVTYNTLLNGYCKEGNLHQALVLHAEMVRN--------GLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVR-----E-  389 (766)
Q Consensus       324 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--------g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~-  389 (766)
                      ...|+.|...+...|++++|++.|++.++.        .-+....+|+.+...|...|++++|...+++..+.     + 
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~  130 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP  130 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc
Confidence            456777888888888888888888776542        11224567777888888888888888888776542     0 


Q ss_pred             CC-CCHhHHHHHHHHHHh--cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH---HHhcCCHHHHHHHHHHHHHCCCCCC
Q 004244          390 LR-PNEKTYTTLINGFSQ--HGFLDEAYRLLNEMTKNGFMPSIVTYNALIKG---HCTGGRVEDAVGVLHGMARKGLAPD  463 (766)
Q Consensus       390 ~~-~~~~~~~~li~~~~~--~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~---~~~~g~~~~A~~~~~~~~~~~~~~~  463 (766)
                      .. ....++..+..++..  .+++++|...|++..+.. +.+...+..+...   +...++.++|++.+++..+.... +
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~-~  208 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD-N  208 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS-C
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc-c
Confidence            01 123445555444444  345777888887777653 2233344443333   33456667777777777665332 4


Q ss_pred             HHHHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 004244          464 VVSYSTIISGFSR----SQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTT  539 (766)
Q Consensus       464 ~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  539 (766)
                      ...+..+...+..    .++.++|.+.+++....... +..++..+...+...|++++|...+++..+.. +.+..++..
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~  286 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHH
Confidence            5555555444333    35566777777776665432 55667777777777777777777777777653 344555555


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhh
Q 004244          540 LINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEF  619 (766)
Q Consensus       540 l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~  619 (766)
                      +...|...+...         .... ..      .........+..++|...+++..... +.+...+..+.        
T Consensus       287 lg~~y~~~~~~~---------~~~~-~~------~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg--------  341 (472)
T 4g1t_A          287 IGCCYRAKVFQV---------MNLR-EN------GMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILA--------  341 (472)
T ss_dssp             HHHHHHHHHHHH---------HHC-------------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHH--------
T ss_pred             HHHHHHHHHHHh---------hhHH-HH------HHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHH--------
Confidence            555543221111         0000 00      00001112234677888888877642 22233444444        


Q ss_pred             hhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHH-HHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004244          620 QNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNE--AVYDIIIH-GHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLV  696 (766)
Q Consensus       620 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~--~~~~~l~~-~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~  696 (766)
                             ..|...|++++|+..|+++++....|..  ..+..+.. .+...|++++|++.|++.++  +.|+.....   
T Consensus       342 -------~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~--i~~~~~~~~---  409 (472)
T 4g1t_A          342 -------SLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK--INQKSREKE---  409 (472)
T ss_dssp             -------HHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH--SCCCCHHHH---
T ss_pred             -------HHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCcccHHHH---
Confidence                   7899999999999999999985433321  12333333 34578999999999999985  356653322   


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCCCCCCCCC
Q 004244          697 KALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLPNSGRSTYGQ  766 (766)
Q Consensus       697 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~  766 (766)
                            +..+.+..++++.++.+ |.++.+|..|+.+|...|++++|++.+++..+.|..-....+|.|+
T Consensus       410 ------~~~~~l~~~~~~~l~~~-p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G~  472 (472)
T 4g1t_A          410 ------KMKDKLQKIAKMRLSKN-GADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNGE  472 (472)
T ss_dssp             ------HHHHHHHHHHHHHHHHC-C-CTTHHHHHHHHHHHHHHCC-------------------------
T ss_pred             ------HHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCCC
Confidence                  22345567788888887 6678889999999999999999999999999999888888888885

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.79  E-value=1.2e-17  Score=175.53  Aligned_cols=262  Identities=13%  Similarity=0.026  Sum_probs=171.3

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004244          467 YSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCT  546 (766)
Q Consensus       467 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~  546 (766)
                      +..+...+.+.|++++|...++++.+... .+..++..+...+...|++++|...++++.+.. +.+..++..+...|..
T Consensus        67 ~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~  144 (368)
T 1fch_A           67 PFEEGLRRLQEGDLPNAVLLFEAAVQQDP-KHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTN  144 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHH
Confidence            33444444444444444444444444322 134444444444445555555555555444432 3344444444455555


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHH----------------HHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-cHHhHHH
Q 004244          547 EGDIPQALRLHDEMIQKGFLPDVVTY----------------SVLINGLNKQARTMEAKKLLLKLFYDESVP-SDVIYNT  609 (766)
Q Consensus       547 ~g~~~~A~~~~~~~~~~g~~p~~~~~----------------~~li~~~~~~g~~~~A~~l~~~~~~~~~~p-~~~~~~~  609 (766)
                      .|++++|.+.++++.+.. +.+...+                ..+.. +...|++++|...+++++...... +...+..
T Consensus       145 ~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~  222 (368)
T 1fch_A          145 ESLQRQACEILRDWLRYT-PAYAHLVTPAEEGAGGAGLGPSKRILGS-LLSDSLFLEVKELFLAAVRLDPTSIDPDVQCG  222 (368)
T ss_dssp             TTCHHHHHHHHHHHHHTS-TTTGGGCC---------------CTTHH-HHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHhhhhcccHHHHHHHH-HhhcccHHHHHHHHHHHHHhCcCcccHHHHHH
Confidence            555555555555544431 1111111                12233 338889999999999988742211 3556666


Q ss_pred             HhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH
Q 004244          610 LIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT  689 (766)
Q Consensus       610 ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~  689 (766)
                      +.               ..+...|++++|+..++++.+.. +.+..+|..++..+.+.|++++|++.++++++.. +.+.
T Consensus       223 l~---------------~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~  285 (368)
T 1fch_A          223 LG---------------VLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYI  285 (368)
T ss_dssp             HH---------------HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HH---------------HHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcH
Confidence            65               78889999999999999988742 2267889999999999999999999999998653 3446


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC----------hHHHHHHHHHHHhcCCChhHHHHHHHH
Q 004244          690 VTIIVLVKALHTAGMNEELSQVIENILRSCRLS----------DAELAKVLVEINHKEGNMDAVLNVLTE  749 (766)
Q Consensus       690 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~----------~~~~~~~l~~~~~~~g~~~~A~~~~~~  749 (766)
                      ..+..++..+...|++++|...++++++..+..          ...+|..++.+|...|++++|..++++
T Consensus       286 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          286 RSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHH
Confidence            788899999999999999999999999875322          167899999999999999999988764

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.78  E-value=6.9e-18  Score=173.06  Aligned_cols=281  Identities=12%  Similarity=0.137  Sum_probs=96.9

Q ss_pred             hcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHH
Q 004244          231 GVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKG  310 (766)
Q Consensus       231 ~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  310 (766)
                      +.|++++|.++++++.      +..+|..|+.++.+.|++++|.+.|.+.      +|..+|..++..+...|++++|..
T Consensus        15 ~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            4555666666666662      2235666666666666666666666442      355566666666666666666666


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004244          311 ILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVREL  390 (766)
Q Consensus       311 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  390 (766)
                      .++..++.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..++..|...|++++|...|..+     
T Consensus        83 yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----  148 (449)
T 1b89_A           83 YLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----  148 (449)
T ss_dssp             ----------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----
T ss_pred             HHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----
Confidence            55555542  2345556666666666666666665553       245556666666666666666666666654     


Q ss_pred             CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004244          391 RPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTI  470 (766)
Q Consensus       391 ~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  470 (766)
                          ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|+..|+++.|......     +...+.....+
T Consensus       149 ----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~l  213 (449)
T 1b89_A          149 ----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEEL  213 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHH
Confidence                25666666666666666666666665      2556666666666666666666443332     11233334456


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHCCCCC------CHHHHHHHHH
Q 004244          471 ISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQ--RRITEACELFQEMLSRGMSP------DEFTYTTLIN  542 (766)
Q Consensus       471 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~--g~~~~A~~~~~~m~~~~~~p------~~~~~~~l~~  542 (766)
                      +..|.+.|++++|+.+++...... .-....|+.|.-.|++-  ++..+.++.|..-  .+++|      +...|..+.-
T Consensus       214 v~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~--ini~k~~~~~~~~~~w~e~~~  290 (449)
T 1b89_A          214 INYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSR--VNIPKVLRAAEQAHLWAELVF  290 (449)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTT--SCHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHHHHHH
Confidence            666667777777777666665443 22344555555555443  3333333333311  12222      3445666777


Q ss_pred             HHHhcCChHHHHH
Q 004244          543 AYCTEGDIPQALR  555 (766)
Q Consensus       543 ~~~~~g~~~~A~~  555 (766)
                      .|.+.++++.|..
T Consensus       291 ly~~~~e~d~A~~  303 (449)
T 1b89_A          291 LYDKYEEYDNAII  303 (449)
T ss_dssp             HHHHTTCHHHHHH
T ss_pred             HHHhhchHHHHHH
Confidence            7777777777665

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.77  E-value=5.6e-19  Score=194.77  Aligned_cols=122  Identities=16%  Similarity=0.235  Sum_probs=97.5

Q ss_pred             CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHh---CCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHH
Q 004244          216 SPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEK---NNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISY  292 (766)
Q Consensus       216 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~  292 (766)
                      .--..|||++|++||+.|++++|.++|++|.+   .|+.||++|||+||++||+.|++++|.++|++|.+.|+.||++||
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            33466888888888888888888888877653   477888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHcCCh-hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004244          293 NVIINGLCKEGRL-KETKGILNEISRKGLVPDEVTYNTLLNGYCKE  337 (766)
Q Consensus       293 ~~li~~~~~~g~~-~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  337 (766)
                      |++|.++|+.|+. ++|.++|++|.+.|+.||..+|+.++.+..+.
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~  249 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA  249 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH
Confidence            8888888888874 67788888888888888888888877666554

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.75  E-value=2.4e-16  Score=165.45  Aligned_cols=303  Identities=12%  Similarity=-0.029  Sum_probs=154.5

Q ss_pred             cCChhHHHH-HHHHHhhCCC---CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHH
Q 004244          267 LGRIDDAFK-LLRDMGLKGI---EPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQ  342 (766)
Q Consensus       267 ~g~~~~A~~-l~~~m~~~g~---~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  342 (766)
                      .|++++|.+ .+++......   ..+...+..+...+.+.|++++|...|+++.+... .+..++..+...+.+.|++++
T Consensus        38 ~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~  116 (368)
T 1fch_A           38 LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDP-KHMEAWQYLGTTQAENEQELL  116 (368)
T ss_dssp             --------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCcCHHH
Confidence            366666666 6654433211   11234566666677777777777777777776532 245566667777777777777


Q ss_pred             HHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004244          343 ALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTK  422 (766)
Q Consensus       343 A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  422 (766)
                      |...++++.+.. +.+..++..+...+...|++++|.+.|+++...... +...+..+...       ..       .  
T Consensus       117 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~-------~~-------~--  178 (368)
T 1fch_A          117 AISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEG-------AG-------G--  178 (368)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC------------------------
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHH-------hh-------h--
Confidence            777777776653 335666777777777777777777777777665322 12111111000       00       0  


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHH
Q 004244          423 NGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAP-DVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTIT  501 (766)
Q Consensus       423 ~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  501 (766)
                        ..+. ..+.. +..+...|++++|...++.+.+..... +..++..+...|.+.|++++|...++++..... .+..+
T Consensus       179 --~~~~-~~~~~-~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~  253 (368)
T 1fch_A          179 --AGLG-PSKRI-LGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRP-NDYLL  253 (368)
T ss_dssp             ----------CT-THHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHH
T ss_pred             --hccc-HHHHH-HHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHH
Confidence              0000 00001 111124455555555555554432211 345555555555555555555555555554422 23455


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC----------CCCHHH
Q 004244          502 YSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGF----------LPDVVT  571 (766)
Q Consensus       502 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~----------~p~~~~  571 (766)
                      +..+...+...|++++|...++++.+.. +.+..++..+...|.+.|++++|...++++.+...          +....+
T Consensus       254 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  332 (368)
T 1fch_A          254 WNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENI  332 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHH
Confidence            5555555555566666666665555542 33455555555666666666666666655554210          001455


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHH
Q 004244          572 YSVLINGLNKQARTMEAKKLLLK  594 (766)
Q Consensus       572 ~~~li~~~~~~g~~~~A~~l~~~  594 (766)
                      |..+..++...|++++|..++.+
T Consensus       333 ~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          333 WSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             HHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             HHHHHHHHHHhCChHhHHHhHHH
Confidence            66666666666666666655543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.75  E-value=9.5e-17  Score=168.45  Aligned_cols=264  Identities=12%  Similarity=-0.015  Sum_probs=182.2

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004244          465 VSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAY  544 (766)
Q Consensus       465 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~  544 (766)
                      ..+..+...+.+.|++++|...|+++.+.... +..+|..+...+...|++++|...|+++.+.. +.+..++..+...|
T Consensus        66 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  143 (365)
T 4eqf_A           66 PGAFEEGLKRLKEGDLPVTILFMEAAILQDPG-DAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSY  143 (365)
T ss_dssp             TTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            33555555666666666666666666554322 45566666666666666666666666666553 34455666666666


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCC-----------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CcHHhHHHHhh
Q 004244          545 CTEGDIPQALRLHDEMIQKGFLPD-----------VVTYSVLINGLNKQARTMEAKKLLLKLFYDESV-PSDVIYNTLIE  612 (766)
Q Consensus       545 ~~~g~~~~A~~~~~~~~~~g~~p~-----------~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~-p~~~~~~~ll~  612 (766)
                      ...|++++|...++++.+.  .|+           ...+..+...+...|++++|.+.+++++..... ++...+..+. 
T Consensus       144 ~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~-  220 (365)
T 4eqf_A          144 TNTSHQQDACEALKNWIKQ--NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG-  220 (365)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH-
T ss_pred             HccccHHHHHHHHHHHHHh--CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH-
Confidence            6666666666666666653  121           223344577788889999999999998875221 1456666666 


Q ss_pred             hhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHH
Q 004244          613 NCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTI  692 (766)
Q Consensus       613 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  692 (766)
                                    ..|...|++++|+..++++.+.. +.+..+|..++.+|.+.|++++|++.++++++.. +.+..++
T Consensus       221 --------------~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~  284 (365)
T 4eqf_A          221 --------------VLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSR  284 (365)
T ss_dssp             --------------HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             --------------HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHH
Confidence                          78888999999999999988753 2368889999999999999999999999998652 3346788


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCC-----------hHHHHHHHHHHHhcCCChhHHHHHHHH
Q 004244          693 IVLVKALHTAGMNEELSQVIENILRSCRLS-----------DAELAKVLVEINHKEGNMDAVLNVLTE  749 (766)
Q Consensus       693 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~A~~~~~~  749 (766)
                      ..++..+...|++++|...++++++..+..           ....|..++.++...|+.+.|.+..++
T Consensus       285 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          285 YNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            889999999999999999999998875321           256788999999999999988887664

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.75  E-value=3.4e-15  Score=162.59  Aligned_cols=386  Identities=11%  Similarity=-0.030  Sum_probs=252.4

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC-----C--CCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-----
Q 004244          287 PNLISYNVIINGLCKEGRLKETKGILNEISRK-----G--LVP-DEVTYNTLLNGYCKEGNLHQALVLHAEMVRN-----  353 (766)
Q Consensus       287 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g--~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----  353 (766)
                      .....||.+...+...|++++|++.|++..+.     +  ..| ...+|+.+...|...|++++|...+++..+.     
T Consensus        49 ~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           49 FKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcc
Confidence            34667999999999999999999999987652     1  123 4578999999999999999999999987752     


Q ss_pred             C-CC-CChHHHHHHHHHHHhc--CCHHHHHHHHHHHHHCCCCCCHhHHHHHHHH---HHhcCCHHHHHHHHHHHHHCCCC
Q 004244          354 G-LS-PNVVTYTSLINSMCKS--GNLNRAMEFFDQMHVRELRPNEKTYTTLING---FSQHGFLDEAYRLLNEMTKNGFM  426 (766)
Q Consensus       354 g-~~-~~~~~~~~li~~~~~~--g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~---~~~~g~~~~A~~l~~~m~~~g~~  426 (766)
                      + .. ....++..+..++.+.  +++++|.+.|++..+..+. +...+..+...   +...++.++|++.+++..+.. +
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p  206 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-P  206 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-S
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-C
Confidence            1 11 1345666666666554  5799999999999887422 45555555544   345677889999999988764 3


Q ss_pred             CCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHH
Q 004244          427 PSIVTYNALIKGHCT----GGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITY  502 (766)
Q Consensus       427 ~~~~~~~~ll~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  502 (766)
                      .+..++..+...+..    .|+.++|...+++...... .+..++..+...|...|++++|...+++..+..+. +..++
T Consensus       207 ~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~  284 (472)
T 4g1t_A          207 DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAP-GVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYLH  284 (472)
T ss_dssp             SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHH
T ss_pred             cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHHH
Confidence            355666665555544    4678899999999888654 37888999999999999999999999999987543 56677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004244          503 SSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQ  582 (766)
Q Consensus       503 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~  582 (766)
                      ..+...|...+...         .... .      ..........+..+.|...++...+.. +.+..++..+...+...
T Consensus       285 ~~lg~~y~~~~~~~---------~~~~-~------~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~  347 (472)
T 4g1t_A          285 CQIGCCYRAKVFQV---------MNLR-E------NGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALA  347 (472)
T ss_dssp             HHHHHHHHHHHHHH---------HHC-------------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHh---------hhHH-H------HHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHh
Confidence            77766654321111         1110 0      001111112234677888888877652 44556777888889999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCcHH--hHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 004244          583 ARTMEAKKLLLKLFYDESVPSDV--IYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDII  660 (766)
Q Consensus       583 g~~~~A~~l~~~~~~~~~~p~~~--~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l  660 (766)
                      |++++|.+.|++.+.....+...  .+..+..              -.....|+.++|+..|++.++  +.|+...... 
T Consensus       348 ~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~Ai~~y~kal~--i~~~~~~~~~-  410 (472)
T 4g1t_A          348 DQYEEAEYYFQKEFSKELTPVAKQLLHLRYGN--------------FQLYQMKCEDKAIHHFIEGVK--INQKSREKEK-  410 (472)
T ss_dssp             TCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH--------------HHHHTSSCHHHHHHHHHHHHH--SCCCCHHHHH-
T ss_pred             ccHHHHHHHHHHHHhcCCCChHHHHHHHHHHH--------------HHHHHCCCHHHHHHHHHHHHh--cCcccHHHHH-
Confidence            99999999999988753332221  1111110              134567899999999999988  4454332221 


Q ss_pred             HHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          661 IHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       661 ~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                              ..+.+.+++++.++.. +.+..+|..++..+...|++++|++.|+++++.+
T Consensus       411 --------~~~~l~~~~~~~l~~~-p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~  460 (472)
T 4g1t_A          411 --------MKDKLQKIAKMRLSKN-GADSEALHVLAFLQELNEKMQQADEDSERGLESG  460 (472)
T ss_dssp             --------HHHHHHHHHHHHHHHC-C-CTTHHHHHHHHHHHHHHCC-------------
T ss_pred             --------HHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence                    2234455666666443 4456788899999999999999999999999886

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.74  E-value=3.4e-16  Score=161.19  Aligned_cols=261  Identities=9%  Similarity=-0.040  Sum_probs=169.2

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 004244          469 TIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEG  548 (766)
Q Consensus       469 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g  548 (766)
                      .+...+...|++++|...++++.+.... +...+..+...+...|++++|...++++.+.. +.+..++..+...+...|
T Consensus        26 ~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~  103 (327)
T 3cv0_A           26 EEGLSMLKLANLAEAALAFEAVCQAAPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH  103 (327)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcC
Confidence            3334444444444444444444443221 33444444444444455555555554444432 333444444445555555


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHH-------------H-HH-HHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhh
Q 004244          549 DIPQALRLHDEMIQKGFLPDVVTYSV-------------L-IN-GLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIEN  613 (766)
Q Consensus       549 ~~~~A~~~~~~~~~~g~~p~~~~~~~-------------l-i~-~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~  613 (766)
                      ++++|.+.++++.+.. +.+...+..             + .. .+...|++++|.+.+++++... +.+...+..+.  
T Consensus       104 ~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la--  179 (327)
T 3cv0_A          104 NANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLG--  179 (327)
T ss_dssp             CHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHH--
T ss_pred             CHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHH--
Confidence            5555555555544431 111111111             1 22 3667888899999999888742 22445555555  


Q ss_pred             hchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHH
Q 004244          614 CTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTII  693 (766)
Q Consensus       614 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  693 (766)
                                   ..+...|++++|.+.++++.+.. +.+..+|..++..+...|++++|++.++++++.. +.+..++.
T Consensus       180 -------------~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~  244 (327)
T 3cv0_A          180 -------------VLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMY  244 (327)
T ss_dssp             -------------HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             -------------HHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHH
Confidence                         78889999999999999988753 2367888999999999999999999999988653 34567888


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCC-----------hHHHHHHHHHHHhcCCChhHHHHHHHHH
Q 004244          694 VLVKALHTAGMNEELSQVIENILRSCRLS-----------DAELAKVLVEINHKEGNMDAVLNVLTEM  750 (766)
Q Consensus       694 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~A~~~~~~m  750 (766)
                      .++..+...|++++|...++++++..+..           ....+..++.++.+.|++++|..++++.
T Consensus       245 ~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          245 NMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            89999999999999999999999886332           6788899999999999999999887653

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.74  E-value=4.1e-16  Score=160.00  Aligned_cols=284  Identities=15%  Similarity=0.155  Sum_probs=132.0

Q ss_pred             HcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 004244          266 KLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALV  345 (766)
Q Consensus       266 ~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  345 (766)
                      +.|++++|.+.++++..      ..+|..++.++.+.|++++|++.|.+.      +|..+|..++..+...|++++|+.
T Consensus        15 ~~~~ld~A~~fae~~~~------~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNE------PAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCC------hHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            56889999999999842      348999999999999999999999653      577789999999999999999999


Q ss_pred             HHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004244          346 LHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGF  425 (766)
Q Consensus       346 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  425 (766)
                      .++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|+.+.+.|...|.+++|..+|..+     
T Consensus        83 yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----  148 (449)
T 1b89_A           83 YLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----  148 (449)
T ss_dssp             ----------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----
T ss_pred             HHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----
Confidence            88777664  4567888999999999999999998884       367789999999999999999999999976     


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004244          426 MPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSL  505 (766)
Q Consensus       426 ~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  505 (766)
                          ..|..++.++.+.|++++|.+.+..+      .++.+|..++.+|...|+++.|......+.     ..+.-...+
T Consensus       149 ----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~l~~l  213 (449)
T 1b89_A          149 ----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEEL  213 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHHHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHHHH
Confidence                36889999999999999999999888      278999999999999999999966555422     244445578


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc--CChHHHHHHHHHHHHCCCCC------CHHHHHHHHH
Q 004244          506 IHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTE--GDIPQALRLHDEMIQKGFLP------DVVTYSVLIN  577 (766)
Q Consensus       506 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~--g~~~~A~~~~~~~~~~g~~p------~~~~~~~li~  577 (766)
                      +..|.+.|++++|..+++..+... +-....|+-|.-+|++-  ++..+.++.|..-  .+++|      +...|..++.
T Consensus       214 v~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~--ini~k~~~~~~~~~~w~e~~~  290 (449)
T 1b89_A          214 INYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSR--VNIPKVLRAAEQAHLWAELVF  290 (449)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTT--SCHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHHHHHH
Confidence            888999999999999999988665 55567788887777754  4455555544321  12233      4567888888


Q ss_pred             HHHhcCCHHHHHHHHH
Q 004244          578 GLNKQARTMEAKKLLL  593 (766)
Q Consensus       578 ~~~~~g~~~~A~~l~~  593 (766)
                      .|.+.++++.|...+-
T Consensus       291 ly~~~~e~d~A~~tm~  306 (449)
T 1b89_A          291 LYDKYEEYDNAIITMM  306 (449)
T ss_dssp             HHHHTTCHHHHHHHHH
T ss_pred             HHHhhchHHHHHHHHH
Confidence            8888888888877543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.74  E-value=3.1e-18  Score=188.95  Aligned_cols=153  Identities=17%  Similarity=0.163  Sum_probs=126.9

Q ss_pred             CcCHHHHHHHHHHHHHcCChhHHHHHHHHHhh---CCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHH
Q 004244          251 LANVVTYNTLIDGYCKLGRIDDAFKLLRDMGL---KGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTY  327 (766)
Q Consensus       251 ~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~---~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  327 (766)
                      ..-..|||+||++||+.|++++|.++|++|.+   +|+.||++|||+||++||+.|++++|.++|++|.+.|+.||.+||
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            33567999999999999999999999988764   589999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCh-HHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC------HhHHHHH
Q 004244          328 NTLLNGYCKEGNL-HQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPN------EKTYTTL  400 (766)
Q Consensus       328 ~~li~~~~~~g~~-~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~------~~~~~~l  400 (766)
                      +++|+++|+.|+. ++|.++|++|.+.|+.||..+|++++.+..+.+-++    ..+++ ..+..|+      ..+...|
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~----~Vrkv-~P~f~p~~~~~~~~~t~~LL  278 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLK----AVHKV-KPTFSLPPQLPPPVNTSKLL  278 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHH----HHGGG-CCCCCCCCCCCCCCCCCTTT
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHH----HHHHh-CcccCCCCCCcccccchHHH
Confidence            9999999999985 789999999999999999999999987665543333    33333 2233333      4445556


Q ss_pred             HHHHHhcC
Q 004244          401 INGFSQHG  408 (766)
Q Consensus       401 i~~~~~~g  408 (766)
                      .+.|.+.+
T Consensus       279 ~dl~s~d~  286 (1134)
T 3spa_A          279 RDVYAKDG  286 (1134)
T ss_dssp             HHHHCCCS
T ss_pred             HHHHccCC
Confidence            66666544

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.74  E-value=7.5e-16  Score=155.11  Aligned_cols=278  Identities=14%  Similarity=0.113  Sum_probs=200.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004244          438 GHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITE  517 (766)
Q Consensus       438 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  517 (766)
                      -....|++.+|+...+........+.......+..+|...|+++.|+..++.    .-.|+..++..+...+...++.++
T Consensus         8 ~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~   83 (291)
T 3mkr_A            8 NAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDA   83 (291)
T ss_dssp             HHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHH
T ss_pred             HHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHH
Confidence            3445688888888776654432221123445567788888888888876644    234567778888888888888888


Q ss_pred             HHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004244          518 ACELFQEMLSRGMSP-DEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLF  596 (766)
Q Consensus       518 A~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~  596 (766)
                      |++.++++...+..| +...+..+...+...|++++|++.+++      +.+...+..++..+.+.|++++|.+.++++.
T Consensus        84 A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~  157 (291)
T 3mkr_A           84 IVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQ  157 (291)
T ss_dssp             HHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            888888888765434 455667777888888999999888876      4577888888888899999999999999988


Q ss_pred             hCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHH
Q 004244          597 YDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDL  676 (766)
Q Consensus       597 ~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  676 (766)
                      ..  .|+....+...            ..+..+...|++++|..+|+++.+. .+.+...|+.++.++.+.|++++|.+.
T Consensus       158 ~~--~p~~~~~~l~~------------a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~  222 (291)
T 3mkr_A          158 DQ--DEDATLTQLAT------------AWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGV  222 (291)
T ss_dssp             HH--CTTCHHHHHHH------------HHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hh--CcCcHHHHHHH------------HHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHH
Confidence            74  45543222111            0113444568999999999999976 334888899999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCChHH-HHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHH
Q 004244          677 YKKMVRSGFVPHTVTIIVLVKALHTAGMNEE-LSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNV  746 (766)
Q Consensus       677 ~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  746 (766)
                      ++++++.. +-+..++..++..+...|+.++ +..+++++++.+ |.++.+    .+...+.+.++++..-
T Consensus       223 l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~-P~~~~~----~d~~~~~~~fd~~~~~  287 (291)
T 3mkr_A          223 LQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH-RSHPFI----KEYRAKENDFDRLVLQ  287 (291)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHH----HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC-CCChHH----HHHHHHHHHHHHHHHH
Confidence            99988653 3355788889989999999876 578999999988 444433    2334455555555443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.73  E-value=2.5e-16  Score=165.23  Aligned_cols=262  Identities=10%  Similarity=-0.040  Sum_probs=174.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004244          432 YNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCE  511 (766)
Q Consensus       432 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~  511 (766)
                      +..+...+.+.|++++|...|+.+.+... .+..++..+...|.+.|++++|+..|+++.+... .+..++..+...|..
T Consensus        68 ~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~  145 (365)
T 4eqf_A           68 AFEEGLKRLKEGDLPVTILFMEAAILQDP-GDAEAWQFLGITQAENENEQAAIVALQRCLELQP-NNLKALMALAVSYTN  145 (365)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHc
Confidence            44445555555555555555555554432 2455555555666666666666666665555432 245556666666666


Q ss_pred             cCCHHHHHHHHHHHHHCCCCC----------CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCC--CHHHHHHHHHHH
Q 004244          512 QRRITEACELFQEMLSRGMSP----------DEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLP--DVVTYSVLINGL  579 (766)
Q Consensus       512 ~g~~~~A~~~~~~m~~~~~~p----------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p--~~~~~~~li~~~  579 (766)
                      .|++++|...++++.+.. +.          ....+..+...+...|++++|.+.++++.+.. +.  +..++..+...+
T Consensus       146 ~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~~~  223 (365)
T 4eqf_A          146 TSHQQDACEALKNWIKQN-PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGLGVLF  223 (365)
T ss_dssp             TTCHHHHHHHHHHHHHHC-HHHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhC-ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHHHHHH
Confidence            666666666666665532 11          12233445777888889999999998888763 22  678888888889


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHH
Q 004244          580 NKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYD  658 (766)
Q Consensus       580 ~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~  658 (766)
                      ...|++++|.+.++++++. .+.+...|..+.               ..|...|++++|+..|+++.+.  .| +..+|.
T Consensus       224 ~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~---------------~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~  285 (365)
T 4eqf_A          224 HLSGEFNRAIDAFNAALTV-RPEDYSLWNRLG---------------ATLANGDRSEEAVEAYTRALEI--QPGFIRSRY  285 (365)
T ss_dssp             HHHTCHHHHHHHHHHHHHH-CTTCHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHhc--CCCchHHHH
Confidence            9999999999999988874 223455666666               7888999999999999999874  34 688899


Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHcCC---CC--------CHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 004244          659 IIIHGHSKVGNVQKAYDLYKKMVRSGF---VP--------HTVTIIVLVKALHTAGMNEELSQVIENI  715 (766)
Q Consensus       659 ~l~~~~~~~g~~~~A~~~~~~m~~~~~---~p--------~~~~~~~l~~~~~~~g~~~~A~~~~~~~  715 (766)
                      .++.+|.+.|++++|++.++++++...   .|        +...|..+..++...|+.+.|....++.
T Consensus       286 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  353 (365)
T 4eqf_A          286 NLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLGD  353 (365)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHhh
Confidence            999999999999999999999874310   11        2577889999999999999988877653

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.72  E-value=1.4e-15  Score=153.16  Aligned_cols=256  Identities=10%  Similarity=0.044  Sum_probs=205.6

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh
Q 004244          471 ISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDI  550 (766)
Q Consensus       471 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  550 (766)
                      +.-....|+++.|+..++........+.......+..+|...|++++|...++.   . -+|+..++..+...+...|+.
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcH
Confidence            344567899999999888765432221123556678899999999999987754   2 367788899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhh
Q 004244          551 PQALRLHDEMIQKGFLP-DVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGF  629 (766)
Q Consensus       551 ~~A~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~  629 (766)
                      ++|++.++++...+..| +...+..+...+...|++++|++.+++      ..+...+..+.               ..+
T Consensus        82 ~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~---------------~~~  140 (291)
T 3mkr_A           82 DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTV---------------QIL  140 (291)
T ss_dssp             HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHH---------------HHH
T ss_pred             HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHH---------------HHH
Confidence            99999999999876444 566777788999999999999999987      34555566655               889


Q ss_pred             hhcCCHHHHHHHHHHHHhCCCCCCHHHH---HHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChH
Q 004244          630 CMKGLMNEADRVFELMLQRNHMPNEAVY---DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNE  706 (766)
Q Consensus       630 ~~~g~~~~A~~~~~~~~~~~~~p~~~~~---~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  706 (766)
                      .+.|++++|.+.++++.+..  |+....   ..++..+...|++++|+.+|+++++. .+.+...+..++.++.+.|+++
T Consensus       141 ~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~  217 (291)
T 3mkr_A          141 LKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWE  217 (291)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999853  543211   23344455679999999999999976 3566788999999999999999


Q ss_pred             HHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhH-HHHHHHHHHHCCC
Q 004244          707 ELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDA-VLNVLTEMAKDGL  755 (766)
Q Consensus       707 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~m~~~~~  755 (766)
                      +|...++++++.+ |.++.++..++..+...|+.++ +.++++++.+.+.
T Consensus       218 eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P  266 (291)
T 3mkr_A          218 AAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHR  266 (291)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence            9999999999998 6778889999999999999976 5688888887654

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.71  E-value=1.7e-15  Score=155.87  Aligned_cols=263  Identities=9%  Similarity=-0.054  Sum_probs=167.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004244          435 LIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRR  514 (766)
Q Consensus       435 ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  514 (766)
                      +...+...|++++|..+++.+.+.... +...+..+...+...|++++|...++++.+... .+..++..+...+...|+
T Consensus        27 ~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~~~  104 (327)
T 3cv0_A           27 EGLSMLKLANLAEAALAFEAVCQAAPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTNEHN  104 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-CCHHHHHHHHHHHHHcCC
Confidence            333444444444444444444443221 344444444445555555555555554444321 134444555555555555


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHH--------------HH-HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004244          515 ITEACELFQEMLSRGMSPDEFTYTTL--------------IN-AYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGL  579 (766)
Q Consensus       515 ~~~A~~~~~~m~~~~~~p~~~~~~~l--------------~~-~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~  579 (766)
                      +++|.+.++++.+.. +.+...+..+              .. .+...|++++|.+.++++.+.. +.+...+..+...+
T Consensus       105 ~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~  182 (327)
T 3cv0_A          105 ANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLY  182 (327)
T ss_dssp             HHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            555555555555432 1111122111              22 3667788888888888888752 44677888888888


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 004244          580 NKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDI  659 (766)
Q Consensus       580 ~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~  659 (766)
                      ...|++++|.+.++++.... +.+...+..+.               ..+...|++++|...++++.+.. +.+..++..
T Consensus       183 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~---------------~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~  245 (327)
T 3cv0_A          183 NLSNNYDSAAANLRRAVELR-PDDAQLWNKLG---------------ATLANGNRPQEALDAYNRALDIN-PGYVRVMYN  245 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCcHHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHH
Confidence            88999999999988887742 22344555555               78888999999999999988743 236788889


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCC-----------CHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 004244          660 IIHGHSKVGNVQKAYDLYKKMVRSGFVP-----------HTVTIIVLVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       660 l~~~~~~~g~~~~A~~~~~~m~~~~~~p-----------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      ++.++.+.|++++|.+.++++++.....           +...+..++.++...|+.++|..+++++++.
T Consensus       246 l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  315 (327)
T 3cv0_A          246 MAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVEP  315 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            9999999999999999999988542111           3578888999999999999999988766543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.65  E-value=2.4e-14  Score=141.60  Aligned_cols=225  Identities=13%  Similarity=0.097  Sum_probs=128.9

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCC----HHHH
Q 004244          464 VVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGM--SPD----EFTY  537 (766)
Q Consensus       464 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--~p~----~~~~  537 (766)
                      ...+..+...+...|++++|...|+++.+..  .+...+..+...+...|++++|...++++.+...  .++    ..++
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            3455666666666777777777776666655  4566666666666666777777766666665320  111    3555


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcH-HhHHHHhhhhch
Q 004244          538 TTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSD-VIYNTLIENCTN  616 (766)
Q Consensus       538 ~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~-~~~~~ll~~~~~  616 (766)
                      ..+...+...|++++|.+.+++..+.  .|+.       ..+.+.|++++|.+.++++...  .|+. ..+..+.     
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~-----  146 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYV--NPEKAEEARLEG-----  146 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHH-----
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHc--CcchHHHHHHHH-----
Confidence            66666666666666666666666653  2332       2344455566666666666552  2222 2222222     


Q ss_pred             hhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004244          617 IEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLV  696 (766)
Q Consensus       617 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~  696 (766)
                                ..+...|++++|+..++++.+.. +.+..+|..++.++.+.|++++|++.++++++.. +.+...+..++
T Consensus       147 ----------~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~  214 (258)
T 3uq3_A          147 ----------KEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKA  214 (258)
T ss_dssp             ----------HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ----------HHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHH
Confidence                      55556666666666666665532 1245556666666666666666666666665432 22345555566


Q ss_pred             HHHHhcCChHHHHHHHHHHHHc
Q 004244          697 KALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       697 ~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      ..+...|++++|...++++++.
T Consensus       215 ~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          215 TAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHh
Confidence            6666666666666666666554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.64  E-value=2.6e-14  Score=153.72  Aligned_cols=371  Identities=13%  Similarity=0.011  Sum_probs=170.4

Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcC
Q 004244          332 NGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNL---NRAMEFFDQMHVRELRPNEKTYTTLINGFSQHG  408 (766)
Q Consensus       332 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  408 (766)
                      ..+.+.|++++|.++|++..+.|   +...+..|...|...|+.   ++|.+.|++..+.    +...+..|...+...|
T Consensus        11 ~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~~   83 (452)
T 3e4b_A           11 NEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAKP   83 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHHTC-
T ss_pred             HHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhCC
Confidence            33444555555555555555443   222333344444444544   5555555555432    3333444444333333


Q ss_pred             -----CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 004244          409 -----FLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVE---DAVGVLHGMARKGLAPDVVSYSTIISGFSRSQEL  480 (766)
Q Consensus       409 -----~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~---~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  480 (766)
                           +.++|...|++..+.|...   .+..|...|...+..+   ++.+.+......|   +......+...|...+.+
T Consensus        84 ~~~~~~~~~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~  157 (452)
T 3e4b_A           84 GATEAEHHEAESLLKKAFANGEGN---TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTY  157 (452)
T ss_dssp             -CCHHHHHHHHHHHHHHHHTTCSS---CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCG
T ss_pred             CCCCcCHHHHHHHHHHHHHCCCHH---HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCc
Confidence                 4555555555555544221   3333444444333222   2333333333332   233444445555554433


Q ss_pred             ----HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc----CC
Q 004244          481 ----DKAFDTKREMVEKGVLPDTITYSSLIHGLCEQR---RITEACELFQEMLSRGMSPDEFTYTTLINAYCTE----GD  549 (766)
Q Consensus       481 ----~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~----g~  549 (766)
                          +++..+++.....    ++..+..|...|...|   +.++|++.|++..+.| +++...+..|...|...    ++
T Consensus       158 ~~~~~~a~~~~~~a~~~----~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d  232 (452)
T 3e4b_A          158 DQHLDDVERICKAALNT----TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPD  232 (452)
T ss_dssp             GGGHHHHHHHHHHHTTT----CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCC
T ss_pred             ccCHHHHHHHHHHHHcC----CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCC
Confidence                3333333332221    2225555666666666   6666666666666665 44544444555555443    56


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHH-H--HhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHH
Q 004244          550 IPQALRLHDEMIQKGFLPDVVTYSVLING-L--NKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALL  626 (766)
Q Consensus       550 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~-~--~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~  626 (766)
                      +++|.+.|++.. .|   +...+..+... +  ...+++++|.+.|++..+.|   +...+..+.               
T Consensus       233 ~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg---------------  290 (452)
T 3e4b_A          233 EKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLG---------------  290 (452)
T ss_dssp             HHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHH---------------
T ss_pred             HHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHH---------------
Confidence            666666666665 22   34444445444 2  34666777777777666544   222333332               


Q ss_pred             hhhhhcC-----CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004244          627 KGFCMKG-----LMNEADRVFELMLQRNHMPNEAVYDIIIHGHSK----VGNVQKAYDLYKKMVRSGFVPHTVTIIVLVK  697 (766)
Q Consensus       627 ~~~~~~g-----~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~  697 (766)
                      ..|. .|     ++++|++.|++.. .|   ++..+..+...|..    ..++++|+++|++..+.|.   ......|..
T Consensus       291 ~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~  362 (452)
T 3e4b_A          291 KLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQ  362 (452)
T ss_dssp             HHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHH
T ss_pred             HHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHH
Confidence            3333 33     6777777776665 22   55556666666654    3367777777777765542   223444444


Q ss_pred             HHHh----cCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHH
Q 004244          698 ALHT----AGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMA  751 (766)
Q Consensus       698 ~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  751 (766)
                      .|..    ..+.++|..+++++.+.+ .++.......+......++.++|.++.++-.
T Consensus       363 ~y~~G~g~~~d~~~A~~~~~~A~~~g-~~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~  419 (452)
T 3e4b_A          363 LFSQGKGTKPDPLNAYVFSQLAKAQD-TPEANDLATQLEAPLTPAQRAEGQRLVQQEL  419 (452)
T ss_dssp             HHHSCTTBCCCHHHHHHHHHHHHTTC-CHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHhCCCCCCCHHHHHHHHHHHHHCC-CHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence            4442    346777777777777766 2222222222222233445556666555433

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.64  E-value=2e-14  Score=138.05  Aligned_cols=198  Identities=15%  Similarity=0.014  Sum_probs=137.3

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-HHhHHH
Q 004244          531 SPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPS-DVIYNT  609 (766)
Q Consensus       531 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~  609 (766)
                      +++...+..+...+.+.|++++|...+++.++. -+.+...+..+...+.+.|++++|+..+++.++.  .|+ ...+..
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~   78 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKE-NPQDPEALYWLARTQLKLGLVNPALENGKTLVAR--TPRYLGGYMV   78 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-SSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHH
Confidence            344455556666666666666666666666654 2345556666666666666666666666666553  333 223333


Q ss_pred             HhhhhchhhhhhHHHHHhhhhhc-----------CCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHH
Q 004244          610 LIENCTNIEFQNVAALLKGFCMK-----------GLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLY  677 (766)
Q Consensus       610 ll~~~~~~~~~~~~~l~~~~~~~-----------g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~  677 (766)
                      +.               ..+...           |++++|+..+++.++.  .| +...|..++.++...|++++|++.+
T Consensus        79 lg---------------~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~  141 (217)
T 2pl2_A           79 LS---------------EAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASL  141 (217)
T ss_dssp             HH---------------HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HH---------------HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHH
Confidence            33               445555           9999999999999984  45 6888999999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHH
Q 004244          678 KKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMA  751 (766)
Q Consensus       678 ~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  751 (766)
                      +++++..  .+...+..++.++...|++++|+..++++++.+ |.+...+..++.++.+.|++++|.+.+++..
T Consensus       142 ~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          142 KQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            9999776  677889999999999999999999999999998 6778888999999999999999999988654

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.63  E-value=5.5e-14  Score=138.97  Aligned_cols=226  Identities=10%  Similarity=0.009  Sum_probs=159.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCC--CCCC----HHHH
Q 004244          499 TITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKG--FLPD----VVTY  572 (766)
Q Consensus       499 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g--~~p~----~~~~  572 (766)
                      ...+..+...+...|++++|...++++.+..  .+...+..+...+...|++++|.+.+++..+..  ..++    ...+
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            3456667777777788888888888777765  566777777777778888888888777776531  1112    4667


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC
Q 004244          573 SVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP  652 (766)
Q Consensus       573 ~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  652 (766)
                      ..+...+...|++++|.+.+++....  .|+.                      ..+...|++++|...++++...  .|
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~----------------------~~~~~~~~~~~a~~~~~~~~~~--~~  136 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA----------------------DILTKLRNAEKELKKAEAEAYV--NP  136 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH----------------------HHHHHHHHHHHHHHHHHHHHHC--CH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh----------------------HHHHHHhHHHHHHHHHHHHHHc--Cc
Confidence            77777777788888888888777763  3332                      3445566777788877777764  34


Q ss_pred             -CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHH
Q 004244          653 -NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLV  731 (766)
Q Consensus       653 -~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  731 (766)
                       +...+..++..+...|++++|++.++++++.. +.+...+..++..+...|++++|...++++++.. +.+...+..++
T Consensus       137 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~  214 (258)
T 3uq3_A          137 EKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKA  214 (258)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHH
Confidence             55667777777777888888888888777543 3345667777777777888888888888877776 45567777777


Q ss_pred             HHHhcCCChhHHHHHHHHHHHCC
Q 004244          732 EINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       732 ~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      .++.+.|++++|.+.+++..+..
T Consensus       215 ~~~~~~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          215 TAQIAVKEYASALETLDAARTKD  237 (258)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhC
Confidence            88888888888887777766543

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.60  E-value=2.1e-12  Score=128.99  Aligned_cols=224  Identities=8%  Similarity=-0.051  Sum_probs=153.6

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004244          463 DVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCE----QRRITEACELFQEMLSRGMSPDEFTYT  538 (766)
Q Consensus       463 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~  538 (766)
                      +..++..+...|...|++++|+..|++..+.+   +...+..+...+..    .+++++|...|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            55666677777777777777777777777633   45666667777777    777777777777777765   566667


Q ss_pred             HHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCcHHhHHHH
Q 004244          539 TLINAYCT----EGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNK----QARTMEAKKLLLKLFYDESVPSDVIYNTL  610 (766)
Q Consensus       539 ~l~~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~l~~~~~~~~~~p~~~~~~~l  610 (766)
                      .+...|..    .+++++|++.+++..+.+   +...+..+...|..    .+++++|++.+++..+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            77777777    777777777777777654   56667777777777    777777777777777643   23333333


Q ss_pred             hhhhchhhhhhHHHHHhhhhh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHH
Q 004244          611 IENCTNIEFQNVAALLKGFCM----KGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSK----VGNVQKAYDLYKKMVR  682 (766)
Q Consensus       611 l~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~  682 (766)
                      .               ..|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|++.+++..+
T Consensus       153 g---------------~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~  214 (273)
T 1ouv_A          153 G---------------SLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACE  214 (273)
T ss_dssp             H---------------HHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHH
T ss_pred             H---------------HHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHh
Confidence            3               45555    677777777777777653   45566667777777    7777777777777765


Q ss_pred             cCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcC
Q 004244          683 SGFVPHTVTIIVLVKALHT----AGMNEELSQVIENILRSC  719 (766)
Q Consensus       683 ~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  719 (766)
                      .+  | ...+..+...+..    .++.++|..+++++.+.+
T Consensus       215 ~~--~-~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          215 LE--N-GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             TT--C-HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             CC--C-HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            43  2 4555666666666    677777777777777766

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.59  E-value=2.1e-13  Score=146.52  Aligned_cols=346  Identities=10%  Similarity=0.009  Sum_probs=184.3

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCh---hHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q 004244          225 LIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRI---DDAFKLLRDMGLKGIEPNLISYNVIINGLCK  301 (766)
Q Consensus       225 li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~---~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~  301 (766)
                      +...+.+.|++++|.++|++..+.|   +...+..|...|...|+.   ++|.+.|++..+.    +...+..+...+..
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHh
Confidence            4455556666666666666666654   233344444455555555   6666666666542    33444444443433


Q ss_pred             cC-----ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChH---HHHHHHHHHHHCCCCCChHHHHHHHHHHHhcC
Q 004244          302 EG-----RLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLH---QALVLHAEMVRNGLSPNVVTYTSLINSMCKSG  373 (766)
Q Consensus       302 ~g-----~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~---~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g  373 (766)
                      .+     ++++|...|++..+.|...   .+..|...|...+..+   ++.+.+......|   +......|...|...+
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~  155 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGEGN---TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQG  155 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTCSS---CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHT
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCCHH---HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCC
Confidence            33     5566777777666654322   4444555555444332   2333444443333   3445556666666666


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc----CCHH
Q 004244          374 NLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHG---FLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTG----GRVE  446 (766)
Q Consensus       374 ~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~----g~~~  446 (766)
                      .++++......+.+.-...+...+..|...|...|   +.++|++.|++..+.| .++...+..+...|...    ++.+
T Consensus       156 ~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~  234 (452)
T 3e4b_A          156 TYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEK  234 (452)
T ss_dssp             CGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHH
T ss_pred             CcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHH
Confidence            44433333222222111123336666777777777   6777777777777766 33444444555555443    5777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHH-H--HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-----CHHHH
Q 004244          447 DAVGVLHGMARKGLAPDVVSYSTIISG-F--SRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQR-----RITEA  518 (766)
Q Consensus       447 ~A~~~~~~~~~~~~~~~~~~~~~li~~-~--~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-----~~~~A  518 (766)
                      +|..+|+... .   -+...+..|... |  ...++.++|++.|++..+.|   +...+..|...|. .|     ++++|
T Consensus       235 ~A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A  306 (452)
T 3e4b_A          235 TAQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAA  306 (452)
T ss_dssp             HHHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHH
T ss_pred             HHHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHH
Confidence            7777777766 3   244555555555 3  45677777777777777765   5566666666665 44     77778


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHH
Q 004244          519 CELFQEMLSRGMSPDEFTYTTLINAYCT----EGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNK----QARTMEAKK  590 (766)
Q Consensus       519 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~  590 (766)
                      .+.|++.. .   .+...+..|...|..    ..+.++|.+.|+...+.|.   ......+...|..    ..+.++|..
T Consensus       307 ~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~  379 (452)
T 3e4b_A          307 EAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYV  379 (452)
T ss_dssp             HHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHH
T ss_pred             HHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHH
Confidence            87777776 3   355566666666655    3377788888887777653   3334445555543    457777888


Q ss_pred             HHHHHHhCC
Q 004244          591 LLLKLFYDE  599 (766)
Q Consensus       591 l~~~~~~~~  599 (766)
                      .|+...+.|
T Consensus       380 ~~~~A~~~g  388 (452)
T 3e4b_A          380 FSQLAKAQD  388 (452)
T ss_dssp             HHHHHHTTC
T ss_pred             HHHHHHHCC
Confidence            877777654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.58  E-value=3.1e-13  Score=134.93  Aligned_cols=249  Identities=10%  Similarity=0.012  Sum_probs=178.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHH
Q 004244          466 SYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPD--EFTYTTLINA  543 (766)
Q Consensus       466 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~~~~~l~~~  543 (766)
                      .+......+...|++++|+..+++..+.... +...+..+...+...|++++|+..++++.+.+..++  ...|..+...
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            3445566777888888888888888776432 445677777788888888888888888887431222  2347788888


Q ss_pred             HHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhH
Q 004244          544 YCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNV  622 (766)
Q Consensus       544 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~  622 (766)
                      +...|++++|.+.+++..+.. +.+...|..+...+...|++++|.+.+++.+..  .|+ ...+..+.           
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~-----------  149 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELG-----------  149 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHH-----------
T ss_pred             HHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHH-----------
Confidence            888888888888888888752 445678888888888899999999999888774  343 33333322           


Q ss_pred             HHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCC---hHHHHHHHHHHHHcC-CCCC------HHH
Q 004244          623 AALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGN---VQKAYDLYKKMVRSG-FVPH------TVT  691 (766)
Q Consensus       623 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~---~~~A~~~~~~m~~~~-~~p~------~~~  691 (766)
                          ..+...+++++|++.|+++.+.  .| +...+..++.++...|+   +++|...++++++.. -.|+      ..+
T Consensus       150 ----~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  223 (272)
T 3u4t_A          150 ----QAYYYNKEYVKADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEA  223 (272)
T ss_dssp             ----HHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHH
T ss_pred             ----HHHHHHHHHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHH
Confidence                2444556999999999998874  34 57777888888888888   888999988887431 1233      156


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhc
Q 004244          692 IIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHK  736 (766)
Q Consensus       692 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  736 (766)
                      +..++..+...|++++|..+++++++.+ |.+...+..+......
T Consensus       224 ~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~  267 (272)
T 3u4t_A          224 NEYIAYYYTINRDKVKADAAWKNILALD-PTNKKAIDGLKMKLEH  267 (272)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHC-----
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcC-ccHHHHHHHhhhhhcc
Confidence            7778888899999999999999999988 5666666655554443

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.58  E-value=4.2e-12  Score=126.77  Aligned_cols=224  Identities=13%  Similarity=-0.009  Sum_probs=129.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHH
Q 004244          498 DTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCT----EGDIPQALRLHDEMIQKGFLPDVVTYS  573 (766)
Q Consensus       498 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~  573 (766)
                      +..++..+...+...|++++|...|++..+.+   +...+..+...|..    .|++++|.+.+++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            34455555556666666666666666666522   34455556666666    666666666666666553   455555


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhh----cCCHHHHHHHHHHH
Q 004244          574 VLINGLNK----QARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCM----KGLMNEADRVFELM  645 (766)
Q Consensus       574 ~li~~~~~----~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~  645 (766)
                      .+...|..    .+++++|++.|++..+.+   +...+..+.               ..|..    .|++++|++.|++.
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg---------------~~~~~~~~~~~~~~~A~~~~~~a  140 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLG---------------GIYHDGKVVTRDFKKAVEYFTKA  140 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH---------------HHHHHCSSSCCCHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHH---------------HHHHcCCCcccCHHHHHHHHHHH
Confidence            56666666    666666666666665542   333444433               44555    66666666666666


Q ss_pred             HhCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHH
Q 004244          646 LQRNHMPNEAVYDIIIHGHSK----VGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHT----AGMNEELSQVIENILR  717 (766)
Q Consensus       646 ~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~  717 (766)
                      .+.+   +...+..+...|..    .+++++|++.+++..+.+   +...+..+...+..    .+++++|..+++++++
T Consensus       141 ~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~  214 (273)
T 1ouv_A          141 CDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACE  214 (273)
T ss_dssp             HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHH
T ss_pred             HhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHh
Confidence            6543   44455555555555    566666666666665442   23445555666666    6666666666666666


Q ss_pred             cCCCChHHHHHHHHHHHhc----CCChhHHHHHHHHHHHCC
Q 004244          718 SCRLSDAELAKVLVEINHK----EGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       718 ~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~  754 (766)
                      .++   ...+..++.+|.+    .|++++|.+.+++..+.|
T Consensus       215 ~~~---~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          215 LEN---GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             TTC---HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             CCC---HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            542   4445556666665    666666666666655554

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.57  E-value=1.4e-13  Score=137.54  Aligned_cols=245  Identities=11%  Similarity=-0.050  Sum_probs=150.1

Q ss_pred             ccCCHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHH
Q 004244          476 RSQELDKAFDTKREMVEKGVL---PDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQ  552 (766)
Q Consensus       476 ~~g~~~~A~~~~~~m~~~~~~---p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~  552 (766)
                      ..|++++|+..++++.+....   .+..++..+...+...|++++|...|+++.+.. +.+..++..+...|...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHH
Confidence            345666666666666654221   134556666666777777777777777766653 4456667777777777777777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhc
Q 004244          553 ALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMK  632 (766)
Q Consensus       553 A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~  632 (766)
                      |.+.++++++.. +.+...+..+...+...|++++|.+.++++...  .|+.......+               ..+...
T Consensus        96 A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~---------------~~~~~~  157 (275)
T 1xnf_A           96 AYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWL---------------YLAEQK  157 (275)
T ss_dssp             HHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH---------------HHHHHH
T ss_pred             HHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHH---------------HHHHHh
Confidence            777777776642 334566677777777777777777777777663  34433333333               333455


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHHhcCChHH
Q 004244          633 GLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-----TVTIIVLVKALHTAGMNEE  707 (766)
Q Consensus       633 g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-----~~~~~~l~~~~~~~g~~~~  707 (766)
                      |++++|...+++..... +++...+ .++..+...++.++|++.++++.+.  .|+     ...+..++..+...|++++
T Consensus       158 ~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~la~~~~~~g~~~~  233 (275)
T 1xnf_A          158 LDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATD--NTSLAEHLSETNFYLGKYYLSLGDLDS  233 (275)
T ss_dssp             HCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCS--HHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             cCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcc--cccccccccHHHHHHHHHHHHcCCHHH
Confidence            77777777776666532 2233333 3555666677777777777776532  221     3566677777778888888


Q ss_pred             HHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHH
Q 004244          708 LSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVL  747 (766)
Q Consensus       708 A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  747 (766)
                      |...++++++.++ .+..   ....++...|++++|++.+
T Consensus       234 A~~~~~~al~~~p-~~~~---~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          234 ATALFKLAVANNV-HNFV---EHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHHHTTCC-TTCH---HHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHhCCc-hhHH---HHHHHHHHHHHHHhhHHHH
Confidence            8888888877763 2222   2244566667777776654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.56  E-value=1.9e-13  Score=131.17  Aligned_cols=198  Identities=15%  Similarity=0.070  Sum_probs=143.9

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004244          497 PDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLI  576 (766)
Q Consensus       497 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li  576 (766)
                      ++...+..+...+.+.|++++|...|++.++.. +.+...+..+...+.+.|++++|+..+++.++.. +.+...+..+.
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            355566677777777777777777777777664 5566677777777777788888888777777652 44566777777


Q ss_pred             HHHHhc-----------CCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHH
Q 004244          577 NGLNKQ-----------ARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFEL  644 (766)
Q Consensus       577 ~~~~~~-----------g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  644 (766)
                      ..+...           |++++|+..+++.++.  .|+ ...+..+.               ..+...|++++|+..|++
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg---------------~~~~~~g~~~~A~~~~~~  143 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRG---------------LVYALLGERDKAEASLKQ  143 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH---------------HHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHH---------------HHHHHcCChHHHHHHHHH
Confidence            777777           9999999999999884  454 44444444               789999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 004244          645 MLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENIL  716 (766)
Q Consensus       645 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  716 (766)
                      +++..  .+...+..++.+|...|++++|+..++++++.. +.+...+..++..+...|++++|+..++++.
T Consensus       144 al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          144 ALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            99876  688999999999999999999999999999653 3345788889999999999999999998765

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.55  E-value=8.2e-13  Score=131.82  Aligned_cols=236  Identities=11%  Similarity=0.019  Sum_probs=190.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHH
Q 004244          500 ITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPD--VVTYSVLIN  577 (766)
Q Consensus       500 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~--~~~~~~li~  577 (766)
                      ..+......+...|++++|+..++++.+.. +.+...+..+...|...|++++|++.+++..+..-.++  ...|..+..
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            345567778999999999999999999875 44566888999999999999999999999998432222  345888999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHH
Q 004244          578 GLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAV  656 (766)
Q Consensus       578 ~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~  656 (766)
                      .+...|++++|.+.+++.++.. +.+...+..+.               ..|...|++++|+..++++.+.  .| +...
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~---------------~~~~~~~~~~~A~~~~~~al~~--~~~~~~~  144 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIG---------------SYFYNKGNFPLAIQYMEKQIRP--TTTDPKV  144 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHH---------------HHHHHTTCHHHHHHHHGGGCCS--SCCCHHH
T ss_pred             HHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHH---------------HHHHHccCHHHHHHHHHHHhhc--CCCcHHH
Confidence            9999999999999999998842 22344555555               8899999999999999999875  34 7788


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHcC---CCC----hHHH
Q 004244          657 YDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGM---NEELSQVIENILRSC---RLS----DAEL  726 (766)
Q Consensus       657 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~---~~~----~~~~  726 (766)
                      |..++..+...+++++|++.++++++.. +.+...+..++..+...|+   .++|...++++++..   +.+    ...+
T Consensus       145 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  223 (272)
T 3u4t_A          145 FYELGQAYYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEA  223 (272)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHH
Confidence            8888834445569999999999999653 3335777888888888898   889999999998763   221    1367


Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          727 AKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       727 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      |..++..|...|++++|.+.+++..+...
T Consensus       224 ~~~l~~~~~~~~~~~~A~~~~~~al~~~p  252 (272)
T 3u4t_A          224 NEYIAYYYTINRDKVKADAAWKNILALDP  252 (272)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCc
Confidence            88899999999999999999999987653

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.55  E-value=1.3e-10  Score=129.11  Aligned_cols=445  Identities=9%  Similarity=0.056  Sum_probs=286.4

Q ss_pred             hhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC---hHHHHHH
Q 004244          270 IDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGN---LHQALVL  346 (766)
Q Consensus       270 ~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---~~~A~~~  346 (766)
                      ..+....|++....+ +-|..+|..++..+.+.+.++.+..+|+++... ++.....|...+..-.+.|+   ++.+..+
T Consensus        48 ~~d~i~~lE~~l~~n-p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~l  125 (679)
T 4e6h_A           48 ESDVIGKLNDMIEEQ-PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPV  125 (679)
T ss_dssp             CSCHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHH
Confidence            334444555555544 347888888888888888888888888888875 33456677777777777888   8888888


Q ss_pred             HHHHHHCC-CCCChHHHHHHHHHHHhcCCH--------HHHHHHHHHHHHC-CC-CCC-HhHHHHHHHHHH---------
Q 004244          347 HAEMVRNG-LSPNVVTYTSLINSMCKSGNL--------NRAMEFFDQMHVR-EL-RPN-EKTYTTLINGFS---------  405 (766)
Q Consensus       347 ~~~~~~~g-~~~~~~~~~~li~~~~~~g~~--------~~A~~~~~~m~~~-~~-~~~-~~~~~~li~~~~---------  405 (766)
                      |++.+... .+|++..|...+....+.++.        +...++|+..... |. .++ ...|...+....         
T Consensus       126 feRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~e  205 (679)
T 4e6h_A          126 LARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFE  205 (679)
T ss_dssp             HHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHH
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHH
Confidence            88888753 137778888877766665543        3344667665543 54 443 456666665443         


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 004244          406 QHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFD  485 (766)
Q Consensus       406 ~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  485 (766)
                      ..++++.+..+|++++......-..+|......--..+. ..+..++.+                     ...+++.|..
T Consensus       206 eq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~-~~a~~~~~e---------------------~~~~y~~Ar~  263 (679)
T 4e6h_A          206 EQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQ-LTARRHIGE---------------------LSAQYMNARS  263 (679)
T ss_dssp             HHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCT-TTHHHHHHH---------------------HHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCc-chHHHHHHH---------------------hhHHHHHHHH
Confidence            233466777788777753111112233222111111010 011111111                     0112333444


Q ss_pred             HHHHHHHC--CCC---------------C-----C---HHHHHHHHHHHHhcC-------CHHHHHHHHHHHHHCCCCCC
Q 004244          486 TKREMVEK--GVL---------------P-----D---TITYSSLIHGLCEQR-------RITEACELFQEMLSRGMSPD  533 (766)
Q Consensus       486 ~~~~m~~~--~~~---------------p-----~---~~~~~~li~~~~~~g-------~~~~A~~~~~~m~~~~~~p~  533 (766)
                      .+.++...  ++.               |     +   ...|...+.---..+       ..+.+..+|++.+.. ++-.
T Consensus       264 ~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~  342 (679)
T 4e6h_A          264 LYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFA  342 (679)
T ss_dssp             HHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTC
T ss_pred             HHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCC
Confidence            44332211  110               1     0   134555554322222       134456788888876 3557


Q ss_pred             HHHHHHHHHHHHhcCChHHHH-HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC---------CCCc
Q 004244          534 EFTYTTLINAYCTEGDIPQAL-RLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDE---------SVPS  603 (766)
Q Consensus       534 ~~~~~~l~~~~~~~g~~~~A~-~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~---------~~p~  603 (766)
                      ...|...+..+...|+.++|. +++++.+.. ++.+...|..++....+.|++++|.++|++++...         ..|+
T Consensus       343 ~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~  421 (679)
T 4e6h_A          343 PEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPT  421 (679)
T ss_dssp             HHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCc
Confidence            788888888888899999997 999999875 56677778888888999999999999999988631         0131


Q ss_pred             ------------HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc-CCh
Q 004244          604 ------------DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKV-GNV  670 (766)
Q Consensus       604 ------------~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~  670 (766)
                                  ...|...+               ....+.|..+.|..+|.++.+.-.......|...+..-.+. ++.
T Consensus       422 ~~~~~~~~~~~~~~vWi~y~---------------~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~  486 (679)
T 4e6h_A          422 NESAINQLKSKLTYVYCVYM---------------NTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDT  486 (679)
T ss_dssp             CHHHHHHHHHHHHHHHHHHH---------------HHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCC
T ss_pred             chhhhhhhccchHHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCH
Confidence                        11233333               66667899999999999998751111334444434333444 459


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--ChHHHHHHHHHHHhcCCChhHHHHHHH
Q 004244          671 QKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRL--SDAELAKVLVEINHKEGNMDAVLNVLT  748 (766)
Q Consensus       671 ~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~  748 (766)
                      +.|.++|+..++. ++-+...|..++......|+.+.|..+|++++...++  .....|..+++.-.+.|+.+.+.++.+
T Consensus       487 e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~  565 (679)
T 4e6h_A          487 KTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEK  565 (679)
T ss_dssp             HHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999875 3445567778888888999999999999999998743  346788888888899999999999999


Q ss_pred             HHHHCCCC
Q 004244          749 EMAKDGLL  756 (766)
Q Consensus       749 ~m~~~~~~  756 (766)
                      ++.+.-..
T Consensus       566 R~~~~~P~  573 (679)
T 4e6h_A          566 RFFEKFPE  573 (679)
T ss_dssp             HHHHHSTT
T ss_pred             HHHHhCCC
Confidence            99887654

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.55  E-value=8.5e-13  Score=137.29  Aligned_cols=248  Identities=10%  Similarity=0.051  Sum_probs=184.0

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          464 VVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRR-ITEACELFQEMLSRGMSPDEFTYTTLIN  542 (766)
Q Consensus       464 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~~~~p~~~~~~~l~~  542 (766)
                      ...|..+...+.+.|++++|+..+++++..... +...|..+...+...|+ +++|+..++++++.. +-+...|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            345666677777778888888888887776543 66777778888888886 888888888888764 556777888888


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-cHHhHHHHhhhhchhhhhh
Q 004244          543 AYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVP-SDVIYNTLIENCTNIEFQN  621 (766)
Q Consensus       543 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p-~~~~~~~ll~~~~~~~~~~  621 (766)
                      ++...|++++|+..++++++.. +-+...|..+..++.+.|++++|+..++++++.  .| +...|+.+.          
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg----------  241 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRY----------  241 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHH----------
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHH----------
Confidence            8888888888888888888752 456778888888888888888888888888874  33 344555555          


Q ss_pred             HHHHHhhhhh-cCCHHHH-----HHHHHHHHhCCCCC-CHHHHHHHHHHHhccC--ChHHHHHHHHHHHHcCCCCCHHHH
Q 004244          622 VAALLKGFCM-KGLMNEA-----DRVFELMLQRNHMP-NEAVYDIIIHGHSKVG--NVQKAYDLYKKMVRSGFVPHTVTI  692 (766)
Q Consensus       622 ~~~l~~~~~~-~g~~~~A-----~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g--~~~~A~~~~~~m~~~~~~p~~~~~  692 (766)
                           ..+.. .|..++|     +..++++++.  .| +...|+.+..++.+.|  ++++|++.+.++ + ..+.+...+
T Consensus       242 -----~~l~~l~~~~~eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~-~~p~~~~al  312 (382)
T 2h6f_A          242 -----FVISNTTGYNDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q-PSHSSPYLI  312 (382)
T ss_dssp             -----HHHHHTTCSCSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T-TTCCCHHHH
T ss_pred             -----HHHHHhcCcchHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-c-cCCCCHHHH
Confidence                 55666 5554666     5788888874  45 6788888898898888  689999998887 2 223345777


Q ss_pred             HHHHHHHHhcC--------C-hHHHHHHHHHH-HHcCCCChHHHHHHHHHHHhc
Q 004244          693 IVLVKALHTAG--------M-NEELSQVIENI-LRSCRLSDAELAKVLVEINHK  736 (766)
Q Consensus       693 ~~l~~~~~~~g--------~-~~~A~~~~~~~-~~~~~~~~~~~~~~l~~~~~~  736 (766)
                      ..++..+.+.|        + .++|+.+++++ .+.+ |.....|..++..+..
T Consensus       313 ~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~D-P~r~~~w~~~~~~l~~  365 (382)
T 2h6f_A          313 AFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKD-TIRKEYWRYIGRSLQS  365 (382)
T ss_dssp             HHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHTTC-GGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHH
Confidence            78888888764        2 58999999999 7777 5667778777766553

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.54  E-value=1.6e-12  Score=128.05  Aligned_cols=202  Identities=15%  Similarity=0.043  Sum_probs=138.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004244          499 TITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLING  578 (766)
Q Consensus       499 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~  578 (766)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+...|...|++++|.+.++++.+.. +.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            4566777777777788888888888777653 4456677777777777888888888887777652 3456677777777


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 004244          579 LNKQARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVY  657 (766)
Q Consensus       579 ~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~  657 (766)
                      +...|++++|.+.++++...+..|+ ...+..+.               ..+...|++++|...++++.+.. +.+...+
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la---------------~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~  178 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLG---------------LVSLQMKKPAQAKEYFEKSLRLN-RNQPSVA  178 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHHC-SCCHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHhcC-cccHHHH
Confidence            7777777777777777766323343 23333333               66777777777777777777642 1256667


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          658 DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       658 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      ..++..+...|++++|.+.++++.+.. +.+...+..++..+...|+.++|..+++++++..
T Consensus       179 ~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          179 LEMADLLYKEREYVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            777777777777777777777776432 2344566666777777777777777777777765

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.53  E-value=5.8e-13  Score=130.32  Aligned_cols=213  Identities=11%  Similarity=0.052  Sum_probs=135.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          498 DTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLIN  577 (766)
Q Consensus       498 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~  577 (766)
                      ....|..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            34455566666777777777777777776653 4456667777777777777777777777777652 345667777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 004244          578 GLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVY  657 (766)
Q Consensus       578 ~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~  657 (766)
                      .+...|++++|.+.++++.+.. +.+...+..+.               ..+...|++++|...++++.+.. +.+...+
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a---------------~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  162 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLG---------------TVLVKLEQPKLALPYLQRAVELN-ENDTEAR  162 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHH---------------HHHHHTSCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHH---------------HHHHHhccHHHHHHHHHHHHHhC-CccHHHH
Confidence            7777777888877777776642 22334444444               67778888888888888877642 2267777


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHH
Q 004244          658 DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLV  731 (766)
Q Consensus       658 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  731 (766)
                      ..++..+.+.|++++|++.++++.+.. +.+..++..++..+...|+.++|...++++++.. |.+...+..+.
T Consensus       163 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~  234 (243)
T 2q7f_A          163 FQFGMCLANEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ-PDHMLALHAKK  234 (243)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC-TTCHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC-cchHHHHHHHH
Confidence            888888888888888888888887543 3345677788888888888888888888888877 44455554443

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.53  E-value=3.5e-12  Score=125.61  Aligned_cols=200  Identities=11%  Similarity=0.025  Sum_probs=105.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhh
Q 004244          535 FTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENC  614 (766)
Q Consensus       535 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~  614 (766)
                      ..+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.++++.... +.+...+..+.   
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la---  112 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYG---  112 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH---
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHH---
Confidence            344555555555566666666665555431 3344555555555555666666666665555431 11233333333   


Q ss_pred             chhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHH
Q 004244          615 TNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTII  693 (766)
Q Consensus       615 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  693 (766)
                                  ..|...|++++|.+.++++.+.+..| +...+..++..+...|++++|++.++++++.. +.+...+.
T Consensus       113 ------------~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~  179 (252)
T 2ho1_A          113 ------------GFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVAL  179 (252)
T ss_dssp             ------------HHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHH
T ss_pred             ------------HHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHH
Confidence                        45555566666666665555422223 34455555555555666666666665555432 22344555


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHC
Q 004244          694 VLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKD  753 (766)
Q Consensus       694 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  753 (766)
                      .++..+...|++++|..+++++++.. +.+...+..++..+...|++++|.+.++++.+.
T Consensus       180 ~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          180 EMADLLYKEREYVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            55555556666666666666655554 334445555555555566666666665555544

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.53  E-value=5.7e-13  Score=133.16  Aligned_cols=247  Identities=12%  Similarity=-0.035  Sum_probs=158.3

Q ss_pred             hcCCHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004244          441 TGGRVEDAVGVLHGMARKGLA---PDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITE  517 (766)
Q Consensus       441 ~~g~~~~A~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  517 (766)
                      ..|++++|+..++.+.+....   .+..++..+...|...|++++|...|+++.+.... +..+|..+...+...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccCHHH
Confidence            345666666666666654221   13455666667777777777777777777665432 56677777777777777777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 004244          518 ACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFY  597 (766)
Q Consensus       518 A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~  597 (766)
                      |...++++.+.. +.+..++..+...|.+.|++++|.+.++++.+.  .|+..........+...|++++|...+.+...
T Consensus        96 A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  172 (275)
T 1xnf_A           96 AYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  172 (275)
T ss_dssp             HHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            777777777653 445667777777777788888888888777764  33333333344444566888888888877665


Q ss_pred             CCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCC--C-CHHHHHHHHHHHhccCChHHHH
Q 004244          598 DESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHM--P-NEAVYDIIIHGHSKVGNVQKAY  674 (766)
Q Consensus       598 ~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--p-~~~~~~~l~~~~~~~g~~~~A~  674 (766)
                      . .+++...+. +.               ..+...++.++|...++++.+....  | +..+|..++..|.+.|++++|.
T Consensus       173 ~-~~~~~~~~~-~~---------------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  235 (275)
T 1xnf_A          173 K-SDKEQWGWN-IV---------------EFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSAT  235 (275)
T ss_dssp             H-SCCCSTHHH-HH---------------HHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             c-CCcchHHHH-HH---------------HHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHH
Confidence            4 222322222 33               5566777778888888877653211  1 1467788888888899999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 004244          675 DLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVI  712 (766)
Q Consensus       675 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  712 (766)
                      +.++++++.  .|+.  +.....++...|++++|++.+
T Consensus       236 ~~~~~al~~--~p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          236 ALFKLAVAN--NVHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHTT--CCTT--CHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHhC--Cchh--HHHHHHHHHHHHHHHhhHHHH
Confidence            999988843  4543  222355667778888877765

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.52  E-value=7.1e-12  Score=120.73  Aligned_cols=204  Identities=11%  Similarity=0.015  Sum_probs=135.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          498 DTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLIN  577 (766)
Q Consensus       498 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~  577 (766)
                      +...+..+...+...|++++|.+.++++.+.. +.+...+..+...|...|++++|.+.++++.+. .+.+...+..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-~~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSI-KPDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHh-CCCChHHHHHHHH
Confidence            34556666666777777777777777766653 445666667777777777777777777777654 2345666777777


Q ss_pred             HHHhc-CCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHH
Q 004244          578 GLNKQ-ARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEA  655 (766)
Q Consensus       578 ~~~~~-g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  655 (766)
                      .+... |++++|.+.+++++..+..|+ ...+..+.               ..+...|++++|+..++++.+.. +.+..
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~---------------~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  148 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKG---------------ICSAKQGQFGLAEAYLKRSLAAQ-PQFPP  148 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHHS-TTCHH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHHhC-CCCch
Confidence            77777 777777777777766322333 23333333               66777777777777777777642 12566


Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          656 VYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       656 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      .+..++..+.+.|++++|.+.++++.+.....+...+..+...+...|+.++|..+++.+.+..
T Consensus       149 ~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          149 AFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            7777777777888888888888777754211344556666666777778888877777777665

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.51  E-value=3.2e-12  Score=123.15  Aligned_cols=206  Identities=14%  Similarity=0.022  Sum_probs=173.8

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHH
Q 004244          531 SPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTL  610 (766)
Q Consensus       531 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~l  610 (766)
                      +.+...+..+...+...|++++|.+.++++.+. .+.+...+..+...+...|++++|.+.++++.... +.+...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   82 (225)
T 2vq2_A            5 NQVSNIKTQLAMEYMRGQDYRQATASIEDALKS-DPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh-CccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHH
Confidence            344667888999999999999999999999976 35568899999999999999999999999998752 2344555555


Q ss_pred             hhhhchhhhhhHHHHHhhhhhc-CCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC
Q 004244          611 IENCTNIEFQNVAALLKGFCMK-GLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH  688 (766)
Q Consensus       611 l~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~  688 (766)
                      .               ..+... |++++|...++++.+.+..| +...+..++.++...|++++|++.++++.+.. +.+
T Consensus        83 ~---------------~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~  146 (225)
T 2vq2_A           83 G---------------WFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQF  146 (225)
T ss_dssp             H---------------HHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTC
T ss_pred             H---------------HHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCC
Confidence            5               788999 99999999999999833334 46788999999999999999999999998653 334


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          689 TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       689 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      ...+..++..+...|++++|..+++++++..+..+...+..++..+...|+.++|..+++.+.+..
T Consensus       147 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          147 PPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             chHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            678889999999999999999999999998742667778888899999999999999999987654

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.51  E-value=3.2e-10  Score=125.80  Aligned_cols=441  Identities=10%  Similarity=0.025  Sum_probs=244.0

Q ss_pred             HHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHhcCC---hhhH
Q 004244          162 IDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNVLIRGFCGVGD---LEMG  238 (766)
Q Consensus       162 ~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~---~~~A  238 (766)
                      ..+-+..|+.....+ .-|...|..++..+.+.+.   ++.+..+|+++... +|.+...|...+..-.+.|+   ++.+
T Consensus        48 ~~d~i~~lE~~l~~n-p~d~~~W~~yi~~~~~~~~---~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v  122 (679)
T 4e6h_A           48 ESDVIGKLNDMIEEQ-PTDIFLYVKLLKHHVSLKQ---WKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVI  122 (679)
T ss_dssp             CSCHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHH
T ss_pred             CHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHhcCc---HHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHH
Confidence            445555555554444 2466677777777766552   36777777777765 45666667777776667676   7777


Q ss_pred             HHHHHHHHhCC-CCcCHHHHHHHHHHHHHcCCh----hH----HHHHHHHHhh-CCC-CCC-HHHHHHHHHHHH------
Q 004244          239 LRFFSEMEKNN-CLANVVTYNTLIDGYCKLGRI----DD----AFKLLRDMGL-KGI-EPN-LISYNVIINGLC------  300 (766)
Q Consensus       239 ~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~----~~----A~~l~~~m~~-~g~-~p~-~~~~~~li~~~~------  300 (766)
                      .++|++..... .+|++..|...+....+.++.    ++    ..++|+.... .|. .++ ...|...+....      
T Consensus       123 ~~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~  202 (679)
T 4e6h_A          123 EPVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVN  202 (679)
T ss_dssp             HHHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCS
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccC
Confidence            77777777653 136677777766665555543    22    3355555432 244 333 355665554432      


Q ss_pred             ---HcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHH
Q 004244          301 ---KEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNR  377 (766)
Q Consensus       301 ---~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  377 (766)
                         ..++++.+..+|++........-..+|......--..+. ..+..++.+                     ...+++.
T Consensus       203 ~~eeq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~-~~a~~~~~e---------------------~~~~y~~  260 (679)
T 4e6h_A          203 KFEEQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQ-LTARRHIGE---------------------LSAQYMN  260 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCT-TTHHHHHHH---------------------HHHHHHH
T ss_pred             cHHHHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCc-chHHHHHHH---------------------hhHHHHH
Confidence               223455666666666642111111222211111000010 011111111                     0112333


Q ss_pred             HHHHHHHHHHC--CC----C-----------C--C------HhHHHHHHHHHHhcC-------CHHHHHHHHHHHHHCCC
Q 004244          378 AMEFFDQMHVR--EL----R-----------P--N------EKTYTTLINGFSQHG-------FLDEAYRLLNEMTKNGF  425 (766)
Q Consensus       378 A~~~~~~m~~~--~~----~-----------~--~------~~~~~~li~~~~~~g-------~~~~A~~l~~~m~~~g~  425 (766)
                      |...+.++...  ++    +           |  +      ...|...+.---..+       ..+.+..+|++.... +
T Consensus       261 Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~  339 (679)
T 4e6h_A          261 ARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-V  339 (679)
T ss_dssp             HHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-T
T ss_pred             HHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-c
Confidence            44444433211  11    0           0  0      123444443322222       123345667776664 2


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHH-HHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC---------C
Q 004244          426 MPSIVTYNALIKGHCTGGRVEDAV-GVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKG---------V  495 (766)
Q Consensus       426 ~~~~~~~~~ll~~~~~~g~~~~A~-~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~---------~  495 (766)
                      +-+...|...+..+...|+.++|. .+|+..... ++.+...|-..+....+.|++++|.++|+++....         .
T Consensus       340 p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~  418 (679)
T 4e6h_A          340 CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMED  418 (679)
T ss_dssp             TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhc
Confidence            446667777777777778877885 888887764 34466667777777778888888888888776531         0


Q ss_pred             CC------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhc-CChHHHHHHHHHHH
Q 004244          496 LP------------DTITYSSLIHGLCEQRRITEACELFQEMLSR-GMSPDEFTYTTLINAYCTE-GDIPQALRLHDEMI  561 (766)
Q Consensus       496 ~p------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~  561 (766)
                      .|            ....|...+....+.|..+.|..+|.++.+. + ......|...+..-.+. ++.+.|.++|+..+
T Consensus       419 ~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~L  497 (679)
T 4e6h_A          419 DPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHISKDTKTACKVLELGL  497 (679)
T ss_dssp             STTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHH
T ss_pred             cCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            12            1235666666666777788888888887765 2 22233333333322333 44788888888777


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--cHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHH
Q 004244          562 QKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVP--SDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEAD  639 (766)
Q Consensus       562 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p--~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~  639 (766)
                      +. ++.+...|...++.....|+.+.|..+|++.+.....+  ....|...+               ..-...|+.+.+.
T Consensus       498 k~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~---------------~fE~~~G~~~~~~  561 (679)
T 4e6h_A          498 KY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVI---------------FFESKVGSLNSVR  561 (679)
T ss_dssp             HH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHH---------------HHHHHTCCSHHHH
T ss_pred             HH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHH---------------HHHHHcCCHHHHH
Confidence            65 45566666677777777788888888888877642211  223444444               5556678888888


Q ss_pred             HHHHHHHhC
Q 004244          640 RVFELMLQR  648 (766)
Q Consensus       640 ~~~~~~~~~  648 (766)
                      ++.+++.+.
T Consensus       562 ~v~~R~~~~  570 (679)
T 4e6h_A          562 TLEKRFFEK  570 (679)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            888887764

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.50  E-value=1.2e-12  Score=136.23  Aligned_cols=231  Identities=12%  Similarity=0.088  Sum_probs=195.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-hHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          499 TITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGD-IPQALRLHDEMIQKGFLPDVVTYSVLIN  577 (766)
Q Consensus       499 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~~g~~p~~~~~~~li~  577 (766)
                      ...|..+...+.+.|++++|+..++++++.. +-+...|..+...+...|+ +++|+..++++++.. +.+...|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            4567788888999999999999999999875 5678889999999999997 999999999999863 557889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCC-cHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHH
Q 004244          578 GLNKQARTMEAKKLLLKLFYDESVP-SDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEA  655 (766)
Q Consensus       578 ~~~~~g~~~~A~~l~~~~~~~~~~p-~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~  655 (766)
                      ++...|++++|+..|++++..  .| +...|..+.               .++...|++++|+..++++++.  .| +..
T Consensus       175 ~~~~~g~~~eAl~~~~kal~l--dP~~~~a~~~lg---------------~~~~~~g~~~eAl~~~~~al~l--~P~~~~  235 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQ---------------WVIQEFKLWDNELQYVDQLLKE--DVRNNS  235 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHH---------------HHHHHHTCCTTHHHHHHHHHHH--CTTCHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh--CccCHHHHHHHH---------------HHHHHcCChHHHHHHHHHHHHh--CCCCHH
Confidence            999999999999999999984  44 455566655               7888999999999999999985  35 789


Q ss_pred             HHHHHHHHHhc-cCChHHH-----HHHHHHHHHcCCCCC-HHHHHHHHHHHHhcC--ChHHHHHHHHHHHHcCCCChHHH
Q 004244          656 VYDIIIHGHSK-VGNVQKA-----YDLYKKMVRSGFVPH-TVTIIVLVKALHTAG--MNEELSQVIENILRSCRLSDAEL  726 (766)
Q Consensus       656 ~~~~l~~~~~~-~g~~~~A-----~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~  726 (766)
                      .|+.++.++.+ .|..++|     ++.++++++.  .|+ ...|..+...+...|  ++++|...++++ +.+ +.+..+
T Consensus       236 a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~a  311 (382)
T 2h6f_A          236 VWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYL  311 (382)
T ss_dssp             HHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHH
T ss_pred             HHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHH
Confidence            99999999999 6666888     5889998864  454 478888888888888  689999999998 555 667888


Q ss_pred             HHHHHHHHhcCC---------ChhHHHHHHHHH-HHCC
Q 004244          727 AKVLVEINHKEG---------NMDAVLNVLTEM-AKDG  754 (766)
Q Consensus       727 ~~~l~~~~~~~g---------~~~~A~~~~~~m-~~~~  754 (766)
                      +..++++|.+.|         ..++|.++++++ .+.+
T Consensus       312 l~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~D  349 (382)
T 2h6f_A          312 IAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKD  349 (382)
T ss_dssp             HHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHhC
Confidence            899999999875         358999999998 5554

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.50  E-value=5.6e-13  Score=142.07  Aligned_cols=269  Identities=12%  Similarity=0.035  Sum_probs=174.3

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CCCHHHHHH
Q 004244          469 TIISGFSRSQELDKAFDTKREMVEKGVLPDT----ITYSSLIHGLCEQRRITEACELFQEMLSR----GM-SPDEFTYTT  539 (766)
Q Consensus       469 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~-~p~~~~~~~  539 (766)
                      .+...+...|++++|+..|+++.+.+.. +.    ..+..+...+...|++++|...+++..+.    +- +....++..
T Consensus        53 ~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  131 (411)
T 4a1s_A           53 LEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGN  131 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHH
Confidence            3344455555555555555555554222 22    24555555555666666666666555432    10 112345556


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHC----CC-CCCHHHHHHHHHHHHhcCC-----------------HHHHHHHHHHHHh
Q 004244          540 LINAYCTEGDIPQALRLHDEMIQK----GF-LPDVVTYSVLINGLNKQAR-----------------TMEAKKLLLKLFY  597 (766)
Q Consensus       540 l~~~~~~~g~~~~A~~~~~~~~~~----g~-~p~~~~~~~li~~~~~~g~-----------------~~~A~~l~~~~~~  597 (766)
                      +...|...|++++|...+++..+.    +- +....++..+...+...|+                 +++|.+.+++.+.
T Consensus       132 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~  211 (411)
T 4a1s_A          132 LGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLK  211 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHH
Confidence            666666677777777766665532    10 1123456666777777777                 7777777776643


Q ss_pred             C----CCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHhcc
Q 004244          598 D----ESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHM-PN----EAVYDIIIHGHSKV  667 (766)
Q Consensus       598 ~----~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-p~----~~~~~~l~~~~~~~  667 (766)
                      .    +..+. ...+..+.               ..|...|++++|+..+++..+.... ++    ..++..++..|...
T Consensus       212 ~~~~~~~~~~~~~~~~~la---------------~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  276 (411)
T 4a1s_A          212 LMRDLGDRGAQGRACGNLG---------------NTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFL  276 (411)
T ss_dssp             HHHHHTCHHHHHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHcCCHHHHHHHHHHHH---------------HHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHC
Confidence            2    11111 11223333               7899999999999999998752110 12    33788899999999


Q ss_pred             CChHHHHHHHHHHHHcC----CC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-----CCChHHHHHHHHHHHhcC
Q 004244          668 GNVQKAYDLYKKMVRSG----FV-PHTVTIIVLVKALHTAGMNEELSQVIENILRSC-----RLSDAELAKVLVEINHKE  737 (766)
Q Consensus       668 g~~~~A~~~~~~m~~~~----~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~  737 (766)
                      |++++|++.++++++..    .. ....++..++..+...|++++|..+++++++..     .......+..++.+|.+.
T Consensus       277 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  356 (411)
T 4a1s_A          277 GQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAI  356 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHT
T ss_pred             cCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHh
Confidence            99999999999987421    11 113677789999999999999999999998762     122356788899999999


Q ss_pred             CChhHHHHHHHHHHHC
Q 004244          738 GNMDAVLNVLTEMAKD  753 (766)
Q Consensus       738 g~~~~A~~~~~~m~~~  753 (766)
                      |++++|.+.+++..+.
T Consensus       357 g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          357 GGHERALKYAEQHLQL  372 (411)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHH
Confidence            9999999999987654

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.50  E-value=1.3e-12  Score=127.90  Aligned_cols=204  Identities=16%  Similarity=0.098  Sum_probs=158.0

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHh
Q 004244          532 PDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLI  611 (766)
Q Consensus       532 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll  611 (766)
                      .....|..+...+...|++++|...++++.+. .+.+...+..+...+...|++++|.+.+++++... +.+...+..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEE-NKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHH
Confidence            34556778888899999999999999999986 35578899999999999999999999999998752 23445555555


Q ss_pred             hhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHH
Q 004244          612 ENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVT  691 (766)
Q Consensus       612 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  691 (766)
                                     ..+...|++++|.+.++++.+.. +.+...+..++..+...|++++|++.++++.+.. +.+...
T Consensus        99 ---------------~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  161 (243)
T 2q7f_A           99 ---------------NVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEA  161 (243)
T ss_dssp             ---------------HHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             ---------------HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHH
Confidence                           78999999999999999999753 2378889999999999999999999999998653 345678


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          692 IIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       692 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      +..++..+...|++++|...++++++.. +.+...+..++.++...|++++|.+.++++.+...
T Consensus       162 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p  224 (243)
T 2q7f_A          162 RFQFGMCLANEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQP  224 (243)
T ss_dssp             HHHHHHHHHHHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCc
Confidence            8899999999999999999999999987 56688899999999999999999999999887653

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.48  E-value=5.6e-13  Score=141.60  Aligned_cols=260  Identities=15%  Similarity=0.071  Sum_probs=160.7

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHH
Q 004244          467 YSTIISGFSRSQELDKAFDTKREMVEK----GVLP-DTITYSSLIHGLCEQRRITEACELFQEMLSRGM-SPD----EFT  536 (766)
Q Consensus       467 ~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~----~~~  536 (766)
                      +..+...|...|++++|...+++....    +..| ...++..+...+...|++++|...+++..+... .++    ..+
T Consensus        50 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  129 (406)
T 3sf4_A           50 YSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARA  129 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHH
Confidence            444444444444444444444443221    1011 123444555555566666666666555543200 011    235


Q ss_pred             HHHHHHHHHhcCC--------------------hHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHH
Q 004244          537 YTTLINAYCTEGD--------------------IPQALRLHDEMIQK----GFLP-DVVTYSVLINGLNKQARTMEAKKL  591 (766)
Q Consensus       537 ~~~l~~~~~~~g~--------------------~~~A~~~~~~~~~~----g~~p-~~~~~~~li~~~~~~g~~~~A~~l  591 (766)
                      +..+...|...|+                    +++|.+.+++..+.    +..+ ...++..+...+...|++++|.+.
T Consensus       130 ~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  209 (406)
T 3sf4_A          130 LYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIA  209 (406)
T ss_dssp             HHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHH
T ss_pred             HHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            5666666677777                    77777777665432    1111 134667777778888888888888


Q ss_pred             HHHHHhCC-CCCcH----HhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHH
Q 004244          592 LLKLFYDE-SVPSD----VIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQR----NHMP-NEAVYDIII  661 (766)
Q Consensus       592 ~~~~~~~~-~~p~~----~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p-~~~~~~~l~  661 (766)
                      +++.+... ..++.    ..+..+.               ..|...|++++|...+++..+.    +..+ ...++..++
T Consensus       210 ~~~al~~~~~~~~~~~~~~~~~~la---------------~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  274 (406)
T 3sf4_A          210 HEQRLLIAKEFGDKAAERRAYSNLG---------------NAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLG  274 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHH---------------HHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHH
Confidence            88876431 01111    1233333               7788999999999999887742    1111 156788899


Q ss_pred             HHHhccCChHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-----CCChHHHHHHHH
Q 004244          662 HGHSKVGNVQKAYDLYKKMVRS----GFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSC-----RLSDAELAKVLV  731 (766)
Q Consensus       662 ~~~~~~g~~~~A~~~~~~m~~~----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~~~~~l~  731 (766)
                      ..|...|++++|.+.++++.+.    +..+. ..++..++..+...|++++|..+++++++..     .+....++..++
T Consensus       275 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~  354 (406)
T 3sf4_A          275 NTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLS  354 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHH
Confidence            9999999999999999998742    11111 3567788999999999999999999988762     122356777888


Q ss_pred             HHHhcCCChh
Q 004244          732 EINHKEGNMD  741 (766)
Q Consensus       732 ~~~~~~g~~~  741 (766)
                      ..+...|+..
T Consensus       355 ~~~~~~g~~~  364 (406)
T 3sf4_A          355 DLQMVLGLSY  364 (406)
T ss_dssp             HHHHHHHTTS
T ss_pred             HHHHHhhHhH
Confidence            8888888663

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.45  E-value=1.8e-12  Score=133.55  Aligned_cols=268  Identities=15%  Similarity=0.075  Sum_probs=170.8

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHH
Q 004244          471 ISGFSRSQELDKAFDTKREMVEKGVLPD----TITYSSLIHGLCEQRRITEACELFQEMLSR----GMS-PDEFTYTTLI  541 (766)
Q Consensus       471 i~~~~~~g~~~~A~~~~~~m~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~-p~~~~~~~l~  541 (766)
                      ...+...|++++|...++++.+.... +    ...+..+...+...|++++|...+++..+.    +.. ....++..+.
T Consensus        12 g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~   90 (338)
T 3ro2_A           12 GERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLG   90 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHH
Confidence            34455555555555555555544221 2    234445555555566666666655554432    101 1133455666


Q ss_pred             HHHHhcCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCC--------------------HHHHHHHHHHHH
Q 004244          542 NAYCTEGDIPQALRLHDEMIQKGF-LPD----VVTYSVLINGLNKQAR--------------------TMEAKKLLLKLF  596 (766)
Q Consensus       542 ~~~~~~g~~~~A~~~~~~~~~~g~-~p~----~~~~~~li~~~~~~g~--------------------~~~A~~l~~~~~  596 (766)
                      ..+...|++++|...+++..+..- .++    ..++..+...+...|+                    +++|.+.+++.+
T Consensus        91 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~  170 (338)
T 3ro2_A           91 NTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENL  170 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHH
Confidence            666667777777766666553200 111    2356666666777777                    777777776654


Q ss_pred             hC----CCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCC----CCC-CHHHHHHHHHHHhc
Q 004244          597 YD----ESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRN----HMP-NEAVYDIIIHGHSK  666 (766)
Q Consensus       597 ~~----~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~~p-~~~~~~~l~~~~~~  666 (766)
                      ..    +..+. ...+..+.               ..+...|++++|...+++..+..    ..+ ...++..++..+..
T Consensus       171 ~~~~~~~~~~~~~~~~~~l~---------------~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~  235 (338)
T 3ro2_A          171 SLVTALGDRAAQGRAFGNLG---------------NTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIF  235 (338)
T ss_dssp             HHHHHHTCHHHHHHHHHHHH---------------HHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHH---------------HHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHH
Confidence            32    11111 11222222               78889999999999999887421    111 23478889999999


Q ss_pred             cCChHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-----CCChHHHHHHHHHHHhc
Q 004244          667 VGNVQKAYDLYKKMVRS----GFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSC-----RLSDAELAKVLVEINHK  736 (766)
Q Consensus       667 ~g~~~~A~~~~~~m~~~----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~  736 (766)
                      .|++++|.+.+++.++.    +..+. ..++..++..+...|++++|..+++++++..     ......++..++.+|.+
T Consensus       236 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~  315 (338)
T 3ro2_A          236 LGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTA  315 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHH
Confidence            99999999999998742    11111 3567788999999999999999999998762     11225578889999999


Q ss_pred             CCChhHHHHHHHHHHHCC
Q 004244          737 EGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       737 ~g~~~~A~~~~~~m~~~~  754 (766)
                      .|++++|.+.+++..+..
T Consensus       316 ~g~~~~A~~~~~~a~~~~  333 (338)
T 3ro2_A          316 LGNHDQAMHFAEKHLEIS  333 (338)
T ss_dssp             HTCHHHHHHHHHHHHHC-
T ss_pred             cCChHHHHHHHHHHHHHH
Confidence            999999999999987754

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.45  E-value=3.2e-12  Score=136.16  Aligned_cols=205  Identities=14%  Similarity=0.044  Sum_probs=134.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC----C-CCCCHHHHHHHHHHHHhcCC-----------------hHHHHHHH
Q 004244          500 ITYSSLIHGLCEQRRITEACELFQEMLSR----G-MSPDEFTYTTLINAYCTEGD-----------------IPQALRLH  557 (766)
Q Consensus       500 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~-~~p~~~~~~~l~~~~~~~g~-----------------~~~A~~~~  557 (766)
                      .++..+...|...|++++|...+++..+.    + .+....++..+...|...|+                 +++|.+.+
T Consensus       127 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~  206 (411)
T 4a1s_A          127 KSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFY  206 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHH
Confidence            34445555555556666665555555432    1 01123355666666667777                 77777766


Q ss_pred             HHHHHC----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCcH----HhHHHHhhhhchhhhhhHHHHHh
Q 004244          558 DEMIQK----GF-LPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDES-VPSD----VIYNTLIENCTNIEFQNVAALLK  627 (766)
Q Consensus       558 ~~~~~~----g~-~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~-~p~~----~~~~~ll~~~~~~~~~~~~~l~~  627 (766)
                      ++..+.    +. .....++..+...+...|++++|.+.+++.+.... .++.    ..+..+.               .
T Consensus       207 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la---------------~  271 (411)
T 4a1s_A          207 QENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLG---------------N  271 (411)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH---------------H
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHH---------------H
Confidence            665432    11 11234666777778888888888888888765310 0111    1223333               7


Q ss_pred             hhhhcCCHHHHHHHHHHHHhCC----CCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHc----CCCCC-HHHHHHHHH
Q 004244          628 GFCMKGLMNEADRVFELMLQRN----HMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRS----GFVPH-TVTIIVLVK  697 (766)
Q Consensus       628 ~~~~~g~~~~A~~~~~~~~~~~----~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~----~~~p~-~~~~~~l~~  697 (766)
                      .|...|++++|...+++..+..    ..+ ...++..++..|...|++++|.+.++++++.    +..+. ..++..++.
T Consensus       272 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  351 (411)
T 4a1s_A          272 SHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGN  351 (411)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence            8889999999999998887521    111 2567888999999999999999999998742    11111 257778899


Q ss_pred             HHHhcCChHHHHHHHHHHHHcC
Q 004244          698 ALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       698 ~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      .+...|++++|..+++++++..
T Consensus       352 ~~~~~g~~~~A~~~~~~al~~~  373 (411)
T 4a1s_A          352 AHSAIGGHERALKYAEQHLQLA  373 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhccHHHHHHHHHHHHHHH
Confidence            9999999999999999999875

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.44  E-value=3.4e-12  Score=135.56  Aligned_cols=276  Identities=14%  Similarity=0.069  Sum_probs=208.3

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-
Q 004244          462 PDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPD----TITYSSLIHGLCEQRRITEACELFQEMLSR----GMSP-  532 (766)
Q Consensus       462 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-  532 (766)
                      .....+......+...|++++|...|+++.+.+.. +    ...+..+...+...|++++|...+++....    +-.| 
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~   85 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG   85 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHH
Confidence            45566677778888999999999999998886432 3    356888889999999999999999987653    2122 


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCC--------------------HHH
Q 004244          533 DEFTYTTLINAYCTEGDIPQALRLHDEMIQKGF-LPD----VVTYSVLINGLNKQAR--------------------TME  587 (766)
Q Consensus       533 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~-~p~----~~~~~~li~~~~~~g~--------------------~~~  587 (766)
                      ...++..+...|...|++++|...+++..+..- .++    ..++..+...+...|+                    +++
T Consensus        86 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~  165 (406)
T 3sf4_A           86 EAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQA  165 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHH
Confidence            245778888999999999999999998875310 012    4478888888999999                    999


Q ss_pred             HHHHHHHHHhC----CCCCcH-HhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCC-CCC----HHHH
Q 004244          588 AKKLLLKLFYD----ESVPSD-VIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNH-MPN----EAVY  657 (766)
Q Consensus       588 A~~l~~~~~~~----~~~p~~-~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p~----~~~~  657 (766)
                      |.+.+++.+..    +..|.. ..+..+.               ..|...|++++|+..+++..+... .++    ..++
T Consensus       166 A~~~~~~al~~~~~~~~~~~~~~~~~~la---------------~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  230 (406)
T 3sf4_A          166 AVDFYEENLSLVTALGDRAAQGRAFGNLG---------------NTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAY  230 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHH---------------HHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCcHHHHHHHHHHH---------------HHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHH
Confidence            99999887642    111111 1223333               788999999999999998874210 112    3478


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-----CChHHHH
Q 004244          658 DIIIHGHSKVGNVQKAYDLYKKMVRS----GFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSCR-----LSDAELA  727 (766)
Q Consensus       658 ~~l~~~~~~~g~~~~A~~~~~~m~~~----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----~~~~~~~  727 (766)
                      ..++..|...|++++|++.++++++.    +..+. ..++..++..+...|++++|..+++++++...     +....++
T Consensus       231 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  310 (406)
T 3sf4_A          231 SNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRAC  310 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHH
Confidence            88999999999999999999998742    11111 35777889999999999999999999987621     1125678


Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHHC
Q 004244          728 KVLVEINHKEGNMDAVLNVLTEMAKD  753 (766)
Q Consensus       728 ~~l~~~~~~~g~~~~A~~~~~~m~~~  753 (766)
                      ..++.+|...|++++|.+.+++..+.
T Consensus       311 ~~la~~~~~~g~~~~A~~~~~~al~~  336 (406)
T 3sf4_A          311 WSLGNAYTALGNHDQAMHFAEKHLEI  336 (406)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            89999999999999999999886543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.44  E-value=2.6e-12  Score=138.99  Aligned_cols=211  Identities=11%  Similarity=-0.004  Sum_probs=177.6

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 004244          514 RITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDI-PQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLL  592 (766)
Q Consensus       514 ~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~  592 (766)
                      +++++...+++..... +.+...+..+...+...|++ ++|++.+++.++.. +.+...|..+...|...|++++|.+.|
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3566777777766553 45777888888889999999 99999999988762 445788999999999999999999999


Q ss_pred             HHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhc---------CCHHHHHHHHHHHHhCCCCC-CHHHHHHHHH
Q 004244          593 LKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMK---------GLMNEADRVFELMLQRNHMP-NEAVYDIIIH  662 (766)
Q Consensus       593 ~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~  662 (766)
                      ++.++.  .|+...+..+.               ..+...         |++++|+..++++.+.  .| +...|..++.
T Consensus       161 ~~al~~--~p~~~~~~~lg---------------~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~  221 (474)
T 4abn_A          161 SGALTH--CKNKVSLQNLS---------------MVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGN  221 (474)
T ss_dssp             HHHHTT--CCCHHHHHHHH---------------HHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHhh--CCCHHHHHHHH---------------HHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            999884  56655555555               777888         9999999999999985  35 7889999999


Q ss_pred             HHhcc--------CChHHHHHHHHHHHHcCCCC----CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHH
Q 004244          663 GHSKV--------GNVQKAYDLYKKMVRSGFVP----HTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVL  730 (766)
Q Consensus       663 ~~~~~--------g~~~~A~~~~~~m~~~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  730 (766)
                      +|...        |++++|++.|+++++.  .|    +...|..++..+...|++++|...++++++.+ |.+...+..+
T Consensus       222 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l  298 (474)
T 4abn_A          222 AYLSLYFNTGQNPKISQQALSAYAQAEKV--DRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQRE  298 (474)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHHHH--CGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            99998        9999999999999965  35    66889999999999999999999999999998 6678888999


Q ss_pred             HHHHhcCCChhHHHHHHH
Q 004244          731 VEINHKEGNMDAVLNVLT  748 (766)
Q Consensus       731 ~~~~~~~g~~~~A~~~~~  748 (766)
                      +.++...|++++|.+.+.
T Consensus       299 ~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          299 QQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHhc
Confidence            999999999999986543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.42  E-value=1.9e-11  Score=128.81  Aligned_cols=232  Identities=11%  Similarity=0.020  Sum_probs=170.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CCC----CCHHHHH
Q 004244          505 LIHGLCEQRRITEACELFQEMLSR----GMSP-DEFTYTTLINAYCTEGDIPQALRLHDEMIQK--GFL----PDVVTYS  573 (766)
Q Consensus       505 li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--g~~----p~~~~~~  573 (766)
                      ....+...|++++|...+++..+.    +-.+ ...++..+...|...|++++|...+++..+.  ...    ....++.
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            455677888999999998888764    1111 2356788888888999999999998887753  111    1235677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCC-CCcH----HhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhC
Q 004244          574 VLINGLNKQARTMEAKKLLLKLFYDES-VPSD----VIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQR  648 (766)
Q Consensus       574 ~li~~~~~~g~~~~A~~l~~~~~~~~~-~p~~----~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (766)
                      .+...|...|++++|.+.+++.+.... .++.    .++..+.               ..|...|++++|++.+++..+.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg---------------~~y~~~g~~~~A~~~~~~al~~  253 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIG---------------LCKNSQSQYEDAIPYFKRAIAV  253 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHH---------------HHHHHCCCHHHHHHHHHHHHHH
Confidence            888889999999999999988875310 1111    1333333               7899999999999999998861


Q ss_pred             ----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCC---CCC-HHHHHHHHHHHHhcCC---hHHHHHHHHHHH
Q 004244          649 ----NHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGF---VPH-TVTIIVLVKALHTAGM---NEELSQVIENIL  716 (766)
Q Consensus       649 ----~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~---~p~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~  716 (766)
                          +..| ...++..++..|.+.|++++|.+.+++.++...   .|. ...+..+...+...|+   .++|..++++. 
T Consensus       254 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~-  332 (383)
T 3ulq_A          254 FEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK-  332 (383)
T ss_dssp             HHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT-
T ss_pred             HHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC-
Confidence                2323 567789999999999999999999999874210   122 2335667788888898   78888888776 


Q ss_pred             HcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHC
Q 004244          717 RSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKD  753 (766)
Q Consensus       717 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  753 (766)
                       ...+.....+..++..|...|++++|.+.+++..+.
T Consensus       333 -~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          333 -MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             -TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             -cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence             222344667889999999999999999999987654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.41  E-value=8.9e-11  Score=119.35  Aligned_cols=238  Identities=11%  Similarity=0.070  Sum_probs=170.3

Q ss_pred             CHHHHHHHHHHHHcc----CCH----HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-------cCCH-------HHHHH
Q 004244          463 DVVSYSTIISGFSRS----QEL----DKAFDTKREMVEKGVLPDTITYSSLIHGLCE-------QRRI-------TEACE  520 (766)
Q Consensus       463 ~~~~~~~li~~~~~~----g~~----~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~-------~g~~-------~~A~~  520 (766)
                      +...|...+..-.+.    ++.    ++|...|++.+.... -+...|..++..+..       .|++       ++|..
T Consensus         7 ~~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~p-~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~   85 (308)
T 2ond_A            7 QVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLG-HHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAAN   85 (308)
T ss_dssp             HHHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHH
Confidence            345666666654443    233    678888888887643 367778777777653       4775       88888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC-HH-HHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 004244          521 LFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPD-VV-TYSVLINGLNKQARTMEAKKLLLKLFYD  598 (766)
Q Consensus       521 ~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~-~~~~li~~~~~~g~~~~A~~l~~~~~~~  598 (766)
                      +|++.++.-.+.+...|..++..+.+.|++++|.++|+++++.  .|+ .. .|..++..+.+.|++++|..+|++.++.
T Consensus        86 ~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  163 (308)
T 2ond_A           86 IYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED  163 (308)
T ss_dssp             HHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            8888887311445667888888888888999999999888874  343 33 7888888888888889998888888875


Q ss_pred             CCCCcHHhHHHHhhhhchhhhhhHHHHHhh-hhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHH
Q 004244          599 ESVPSDVIYNTLIENCTNIEFQNVAALLKG-FCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLY  677 (766)
Q Consensus       599 ~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  677 (766)
                      .. ++...|....               .. +...|+.++|..+|++.++.. +.+...|..++..+.+.|++++|+.+|
T Consensus       164 ~p-~~~~~~~~~a---------------~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~  226 (308)
T 2ond_A          164 AR-TRHHVYVTAA---------------LMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLF  226 (308)
T ss_dssp             TT-CCTHHHHHHH---------------HHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             CC-CCHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            22 2233332221               12 223688888888888888642 226778888888888888888888888


Q ss_pred             HHHHHcC-CCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 004244          678 KKMVRSG-FVPH--TVTIIVLVKALHTAGMNEELSQVIENILRSCR  720 (766)
Q Consensus       678 ~~m~~~~-~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  720 (766)
                      +++++.. +.|+  ...|..++..+...|+.++|..+++++++..|
T Consensus       227 ~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~~p  272 (308)
T 2ond_A          227 ERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFR  272 (308)
T ss_dssp             HHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTT
T ss_pred             HHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcc
Confidence            8888752 3553  46777788888888888888888888888764

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.41  E-value=2.3e-12  Score=131.25  Aligned_cols=239  Identities=15%  Similarity=0.077  Sum_probs=152.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC------CC
Q 004244          499 TITYSSLIHGLCEQRRITEACELFQEMLSR-------GMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQK------GF  565 (766)
Q Consensus       499 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-------~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------g~  565 (766)
                      ..++..+...+...|++++|..+++++.+.       ..+....++..+...|...|++++|...+++..+.      +.
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            345556666666666666666666666552       11223445666677777777777777777766643      11


Q ss_pred             -CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCCcH-HhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHH
Q 004244          566 -LPDVVTYSVLINGLNKQARTMEAKKLLLKLFYD------ESVPSD-VIYNTLIENCTNIEFQNVAALLKGFCMKGLMNE  637 (766)
Q Consensus       566 -~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~------~~~p~~-~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~  637 (766)
                       +.....+..+...+...|++++|.+.+++++..      +..|+. ..+..+.               ..+...|++++
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la---------------~~~~~~~~~~~  171 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLA---------------LLCQNQGKYEE  171 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH---------------HHHHTTTCHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHH---------------HHHHHcCCHHH
Confidence             223456777777888888888888888887653      122222 2233333               78999999999


Q ss_pred             HHHHHHHHHhC------CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHc-------CCCCCH-------HHHHHHH
Q 004244          638 ADRVFELMLQR------NHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRS-------GFVPHT-------VTIIVLV  696 (766)
Q Consensus       638 A~~~~~~~~~~------~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~-------~~~p~~-------~~~~~l~  696 (766)
                      |++.++++.+.      +..| ...++..++.+|...|++++|.+.++++++.       ...+..       ..+....
T Consensus       172 A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (311)
T 3nf1_A          172 VEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECK  251 (311)
T ss_dssp             HHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhc
Confidence            99999998863      2233 4567889999999999999999999998853       111221       2222333


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHC
Q 004244          697 KALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKD  753 (766)
Q Consensus       697 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  753 (766)
                      ..+...+.+.+|...++++.... +....++..++.+|.+.|++++|.+++++..+.
T Consensus       252 ~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          252 GKQKDGTSFGEYGGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             ------CCSCCCC---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CchhhHHHHHHHHHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            44445677777888888888765 567888999999999999999999999987754

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.40  E-value=2.1e-10  Score=116.50  Aligned_cols=216  Identities=8%  Similarity=0.004  Sum_probs=113.8

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc-------cCCH-------HHHHHHHHHHHHC-CCCCCHHHHHHHHHHHH
Q 004244          446 EDAVGVLHGMARKGLAPDVVSYSTIISGFSR-------SQEL-------DKAFDTKREMVEK-GVLPDTITYSSLIHGLC  510 (766)
Q Consensus       446 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~g~~-------~~A~~~~~~m~~~-~~~p~~~~~~~li~~~~  510 (766)
                      ++|..+|+++....+ .+...|..++..+..       .|++       ++|..+|++.++. .. -+...|..++..+.
T Consensus        33 ~~a~~~~~~al~~~p-~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p-~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVLG-HHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLK-KNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHH
Confidence            455566666655422 255555555555442       3553       5666666666552 21 14445666666666


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCC-HH-HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-hcCCHHH
Q 004244          511 EQRRITEACELFQEMLSRGMSPD-EF-TYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLN-KQARTME  587 (766)
Q Consensus       511 ~~g~~~~A~~~~~~m~~~~~~p~-~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~-~~g~~~~  587 (766)
                      ..|++++|..+|+++++.  .|+ .. .|..++..+.+.|++++|..+|++.++.. +++...|...+.... ..|++++
T Consensus       111 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             hcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHH
Confidence            666666666666666653  222 22 55566666666666666666666666542 223333332222211 2466666


Q ss_pred             HHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCC-CCC--CHHHHHHHHHHH
Q 004244          588 AKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRN-HMP--NEAVYDIIIHGH  664 (766)
Q Consensus       588 A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~p--~~~~~~~l~~~~  664 (766)
                      |..+|++.++. .+.+...|..++               ..+.+.|++++|..+|+++.+.. ++|  ....|..++..+
T Consensus       188 A~~~~~~al~~-~p~~~~~~~~~~---------------~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~  251 (308)
T 2ond_A          188 AFKIFELGLKK-YGDIPEYVLAYI---------------DYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFE  251 (308)
T ss_dssp             HHHHHHHHHHH-HTTCHHHHHHHH---------------HHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh-CCCcHHHHHHHH---------------HHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHH
Confidence            66666666553 111233343333               55555666666666666666542 233  344555566666


Q ss_pred             hccCChHHHHHHHHHHHH
Q 004244          665 SKVGNVQKAYDLYKKMVR  682 (766)
Q Consensus       665 ~~~g~~~~A~~~~~~m~~  682 (766)
                      .+.|+.++|..+++++.+
T Consensus       252 ~~~g~~~~a~~~~~~a~~  269 (308)
T 2ond_A          252 SNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHSCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            666666666666666654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.39  E-value=6.9e-12  Score=129.07  Aligned_cols=239  Identities=15%  Similarity=0.076  Sum_probs=147.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HH
Q 004244          466 SYSTIISGFSRSQELDKAFDTKREMVEK----GVL-PDTITYSSLIHGLCEQRRITEACELFQEMLSRGM-SPD----EF  535 (766)
Q Consensus       466 ~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~----~~  535 (766)
                      .+..+...|...|++++|.+.+++..+.    +.. ....++..+...+...|++++|...+++..+... .++    ..
T Consensus        45 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  124 (338)
T 3ro2_A           45 IYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEAR  124 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHH
Confidence            3444444444444444444444443321    101 1133455555566666666666666665543210 011    22


Q ss_pred             HHHHHHHHHHhcCC--------------------hHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHhcCCHHHHHH
Q 004244          536 TYTTLINAYCTEGD--------------------IPQALRLHDEMIQK----GFL-PDVVTYSVLINGLNKQARTMEAKK  590 (766)
Q Consensus       536 ~~~~l~~~~~~~g~--------------------~~~A~~~~~~~~~~----g~~-p~~~~~~~li~~~~~~g~~~~A~~  590 (766)
                      ++..+...+...|+                    +++|.+.+++..+.    +.. .....+..+...+...|++++|.+
T Consensus       125 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  204 (338)
T 3ro2_A          125 ALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVI  204 (338)
T ss_dssp             HHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence            55566666667777                    77777777665432    111 123466677777888888888888


Q ss_pred             HHHHHHhCCC-CCc----HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHH
Q 004244          591 LLLKLFYDES-VPS----DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQR----NHMP-NEAVYDII  660 (766)
Q Consensus       591 l~~~~~~~~~-~p~----~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p-~~~~~~~l  660 (766)
                      .+++...... .++    ...+..+.               ..+...|++++|...+++..+.    +..+ ...++..+
T Consensus       205 ~~~~a~~~~~~~~~~~~~~~~~~~l~---------------~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  269 (338)
T 3ro2_A          205 AHEQRLLIAKEFGDKAAERRAYSNLG---------------NAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSL  269 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHH---------------HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHH
Confidence            8888764210 011    11222322               7888999999999999988742    1111 15677889


Q ss_pred             HHHHhccCChHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          661 IHGHSKVGNVQKAYDLYKKMVRS----GFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       661 ~~~~~~~g~~~~A~~~~~~m~~~----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      +..+...|++++|.+.++++++.    +..+. ..++..++..+...|++++|..+++++++..
T Consensus       270 a~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  333 (338)
T 3ro2_A          270 GNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  333 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC-
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence            99999999999999999998742    11111 2567789999999999999999999999874

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.39  E-value=4.8e-11  Score=111.01  Aligned_cols=168  Identities=17%  Similarity=0.108  Sum_probs=96.7

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhh
Q 004244          533 DEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIE  612 (766)
Q Consensus       533 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~  612 (766)
                      +...|..+...|.+.|++++|++.|++.++.. +-+...+..+...+.+.|++++|...+.+..... +.+...+..+. 
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~-   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILG-   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHH-
Confidence            45556666666666666666666666666542 3355566666666666666666666666665531 11222222222 


Q ss_pred             hhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHH
Q 004244          613 NCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTI  692 (766)
Q Consensus       613 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  692 (766)
                                    ..+...++++.|...+.+..+.. +.+...+..++.+|.+.|++++|++.|+++++.. +.+..+|
T Consensus        81 --------------~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~  144 (184)
T 3vtx_A           81 --------------SANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAY  144 (184)
T ss_dssp             --------------HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             --------------HHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHH
Confidence                          45556666666666666665532 1145556666666666666666666666665432 2233555


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          693 IVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       693 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      ..++.++.+.|++++|+..++++++.+
T Consensus       145 ~~lg~~~~~~g~~~~A~~~~~~al~~~  171 (184)
T 3vtx_A          145 QSIGLAYEGKGLRDEAVKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhCC
Confidence            566666666666666666666666654

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.36  E-value=6.6e-11  Score=124.60  Aligned_cols=163  Identities=10%  Similarity=-0.022  Sum_probs=115.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC--C----CCCHHHHH
Q 004244          435 LIKGHCTGGRVEDAVGVLHGMARK----GLAP-DVVSYSTIISGFSRSQELDKAFDTKREMVEKG--V----LPDTITYS  503 (766)
Q Consensus       435 ll~~~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--~----~p~~~~~~  503 (766)
                      ....+...|++++|...++...+.    +..+ ...++..+...|...|++++|...+++..+.-  .    .....++.
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            344556677777777777776653    1111 23566777777777888888877777766431  1    11234677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CC-CCCHHHHH
Q 004244          504 SLIHGLCEQRRITEACELFQEMLSRGM-SPD----EFTYTTLINAYCTEGDIPQALRLHDEMIQK----GF-LPDVVTYS  573 (766)
Q Consensus       504 ~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g~-~p~~~~~~  573 (766)
                      .+...|...|++++|...+++..+... .++    ..++..+...|...|++++|.+.+++..+.    +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            788888889999999998888775310 111    246788889999999999999999988862    23 33456788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHh
Q 004244          574 VLINGLNKQARTMEAKKLLLKLFY  597 (766)
Q Consensus       574 ~li~~~~~~g~~~~A~~l~~~~~~  597 (766)
                      .+...+.+.|++++|.+.+++.+.
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~  292 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMA  292 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            889999999999999999988765

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.34  E-value=2e-10  Score=106.70  Aligned_cols=172  Identities=13%  Similarity=0.081  Sum_probs=118.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          428 SIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIH  507 (766)
Q Consensus       428 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~  507 (766)
                      +..+|..+...|...|++++|+..|++..+..+. +..++..+...|.+.|++++|...+......... +...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHH
Confidence            4556666677777777777777777776665433 5666777777777777777777777776665433 5556666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004244          508 GLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTME  587 (766)
Q Consensus       508 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~  587 (766)
                      .+...++++.|...+.+..... +.+...+..+...|.+.|++++|++.+++.++.. +.+..+|..+..+|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            7777777777777777776653 4456667777777777777777777777777652 4456677777777777788888


Q ss_pred             HHHHHHHHHhCCCCCcHH
Q 004244          588 AKKLLLKLFYDESVPSDV  605 (766)
Q Consensus       588 A~~l~~~~~~~~~~p~~~  605 (766)
                      |++.|++.++  ..|+..
T Consensus       160 A~~~~~~al~--~~p~~a  175 (184)
T 3vtx_A          160 AVKYFKKALE--KEEKKA  175 (184)
T ss_dssp             HHHHHHHHHH--TTHHHH
T ss_pred             HHHHHHHHHh--CCccCH
Confidence            8887777776  345543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.32  E-value=5.5e-11  Score=128.54  Aligned_cols=214  Identities=10%  Similarity=0.006  Sum_probs=167.3

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 004244          480 LDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRI-TEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHD  558 (766)
Q Consensus       480 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  558 (766)
                      +++++..+++..... ..+...+..+...+...|++ ++|++.|++.++.. +.+...|..+...|.+.|++++|.+.++
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            455666666555432 23677777788888888888 88888888887764 4457788888888888888888888888


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhc---------CCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhh
Q 004244          559 EMIQKGFLPDVVTYSVLINGLNKQ---------ARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKG  628 (766)
Q Consensus       559 ~~~~~g~~p~~~~~~~li~~~~~~---------g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~  628 (766)
                      +.++.  .|+...+..+...+...         |++++|++.+++.++.  .|+ ...|..+.               ..
T Consensus       162 ~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg---------------~~  222 (474)
T 4abn_A          162 GALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILG---------------NA  222 (474)
T ss_dssp             HHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH---------------HH
T ss_pred             HHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHH---------------HH
Confidence            88875  46778888888888888         9999999999998874  343 45555555               66


Q ss_pred             hhhc--------CCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004244          629 FCMK--------GLMNEADRVFELMLQRNHM--PNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKA  698 (766)
Q Consensus       629 ~~~~--------g~~~~A~~~~~~~~~~~~~--p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~  698 (766)
                      |...        |++++|+..|+++.+....  .+...|..++.+|...|++++|++.|+++++.. +.+...+..+...
T Consensus       223 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~  301 (474)
T 4abn_A          223 YLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQL  301 (474)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            7777        8899999999999985320  278899999999999999999999999998653 2344678889999


Q ss_pred             HHhcCChHHHHHHHHHH
Q 004244          699 LHTAGMNEELSQVIENI  715 (766)
Q Consensus       699 ~~~~g~~~~A~~~~~~~  715 (766)
                      +...|+.++|+..++++
T Consensus       302 ~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          302 LEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHHhccc
Confidence            99999999998766544

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.31  E-value=1.7e-11  Score=124.65  Aligned_cols=239  Identities=14%  Similarity=0.103  Sum_probs=148.3

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------CC
Q 004244          464 VVSYSTIISGFSRSQELDKAFDTKREMVEK-------GVLPDTITYSSLIHGLCEQRRITEACELFQEMLSR------GM  530 (766)
Q Consensus       464 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-------~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------~~  530 (766)
                      ..++..+...|...|++++|...++++.+.       .......++..+...+...|++++|...++++...      +-
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            345555666666666666666666665542       12223445666666777777777777777766643      11


Q ss_pred             -CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC------CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----
Q 004244          531 -SPDEFTYTTLINAYCTEGDIPQALRLHDEMIQK------GF-LPDVVTYSVLINGLNKQARTMEAKKLLLKLFYD----  598 (766)
Q Consensus       531 -~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------g~-~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~----  598 (766)
                       +....++..+...|...|++++|.+.++++.+.      +. +.....+..+...+...|++++|.+.+++++..    
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  186 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTK  186 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence             223456777777888888888888888877753      11 223456777888888999999999999888763    


Q ss_pred             --CCCCcHH-hHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhC-------CCCCC-------HHHHHHHH
Q 004244          599 --ESVPSDV-IYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQR-------NHMPN-------EAVYDIII  661 (766)
Q Consensus       599 --~~~p~~~-~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~p~-------~~~~~~l~  661 (766)
                        +..|... .+..+.               ..|...|++++|.+.++++.+.       ...+.       ...+..+.
T Consensus       187 ~~~~~~~~~~~~~~la---------------~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (311)
T 3nf1_A          187 LGPDDPNVAKTKNNLA---------------SCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECK  251 (311)
T ss_dssp             SCTTCHHHHHHHHHHH---------------HHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-
T ss_pred             hCCCCHHHHHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhc
Confidence              1133322 233333               8899999999999999998852       11121       11223333


Q ss_pred             HHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          662 HGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       662 ~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      ..+...+.+.+|...+++....  .|+ ..++..++..+...|++++|..+++++++..
T Consensus       252 ~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~  308 (311)
T 3nf1_A          252 GKQKDGTSFGEYGGWYKACKVD--SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSR  308 (311)
T ss_dssp             ------CCSCCCC-----------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             CchhhHHHHHHHHHHHhhcCCC--CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh
Confidence            4445566677777788777642  333 4778899999999999999999999998764

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.30  E-value=3.7e-10  Score=118.54  Aligned_cols=230  Identities=11%  Similarity=-0.005  Sum_probs=151.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHC--CC---CC-CHHHHH
Q 004244          505 LIHGLCEQRRITEACELFQEMLSRGM-SPD----EFTYTTLINAYCTEGDIPQALRLHDEMIQK--GF---LP-DVVTYS  573 (766)
Q Consensus       505 li~~~~~~g~~~~A~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--g~---~p-~~~~~~  573 (766)
                      ....+...|++++|...+++..+... .++    ..++..+...|...|+++.|...+++..+.  ..   .+ ...++.
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            34455677888888888887765310 122    345677777788888888888888777642  11   11 234666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCC-CCcH----HhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHh-
Q 004244          574 VLINGLNKQARTMEAKKLLLKLFYDES-VPSD----VIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQ-  647 (766)
Q Consensus       574 ~li~~~~~~g~~~~A~~l~~~~~~~~~-~p~~----~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  647 (766)
                      .+...+...|++++|.+.+++.+.... .++.    .++..+.               ..|...|++++|+..+++..+ 
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg---------------~~y~~~~~~~~A~~~~~~al~~  251 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIA---------------NSYDRSGDDQMAVEHFQKAAKV  251 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH---------------HHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH---------------HHHHHCCCHHHHHHHHHHHHHH
Confidence            777788888888888888887765210 0111    1222233               778888888888888888776 


Q ss_pred             ----CCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCC---CCCH-HHHHHHHHHHHhcCC---hHHHHHHHHHHH
Q 004244          648 ----RNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGF---VPHT-VTIIVLVKALHTAGM---NEELSQVIENIL  716 (766)
Q Consensus       648 ----~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~---~p~~-~~~~~l~~~~~~~g~---~~~A~~~~~~~~  716 (766)
                          .. +....++..++..+.+.|++++|.+.+++.++...   .|.. ..+..+...+...|+   .++|+.++++. 
T Consensus       252 ~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-  329 (378)
T 3q15_A          252 SREKVP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-  329 (378)
T ss_dssp             HHHHCG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-
T ss_pred             HHhhCC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-
Confidence                32 22366778888888899999999999988875321   1222 344455555666777   77777777762 


Q ss_pred             HcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          717 RSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       717 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                       ...+.....+..++..|.+.|++++|.+.+++..+
T Consensus       330 -~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          330 -NLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             -TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             12233455677888899999999999888887654

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.27  E-value=1.2e-10  Score=131.05  Aligned_cols=162  Identities=15%  Similarity=0.085  Sum_probs=95.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHh
Q 004244          569 VVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQ  647 (766)
Q Consensus       569 ~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (766)
                      ..+|+.+...+.+.|++++|++.|++.++.  .|+ ...+..+.               ..|.+.|++++|++.|+++++
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg---------------~~l~~~g~~~eA~~~~~~Al~   71 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLA---------------SVLQQQGKLQEALMHYKEAIR   71 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHH
Confidence            345555566666666666666666665552  333 23333333               556666666666666666665


Q ss_pred             CCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHH
Q 004244          648 RNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAE  725 (766)
Q Consensus       648 ~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  725 (766)
                      .  .| +..+|..++.+|.+.|++++|++.|+++++.  .|+ ...|..++.++...|++++|+..++++++.+ |.+..
T Consensus        72 l--~P~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~  146 (723)
T 4gyw_A           72 I--SPTFADAYSNMGNTLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPD  146 (723)
T ss_dssp             H--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHH
T ss_pred             h--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChH
Confidence            3  24 4556666666666666666666666666643  233 3556666666666666666666666666665 45556


Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          726 LAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       726 ~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      .+..++.+|...|++++|.+.++++.+
T Consensus       147 a~~~L~~~l~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          147 AYCNLAHCLQIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHHHTTCCTTHHHHHHHHHH
T ss_pred             HHhhhhhHHHhcccHHHHHHHHHHHHH
Confidence            666666666666666666666655443

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.25  E-value=4.7e-10  Score=103.98  Aligned_cols=166  Identities=15%  Similarity=0.075  Sum_probs=113.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCC
Q 004244          570 VTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRN  649 (766)
Q Consensus       570 ~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (766)
                      ..+..+...+...|++++|.+.++++.... +.+...+..+.               ..+...|++++|...++++.+..
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~---------------~~~~~~~~~~~A~~~~~~~~~~~   72 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLG---------------IAYVKTGAVDRGTELLERSLADA   72 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHhcC
Confidence            345555666667777777777777665531 22333444444               66677777777777777777642


Q ss_pred             CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHH
Q 004244          650 HMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKV  729 (766)
Q Consensus       650 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  729 (766)
                       +.+...+..++..+...|++++|.+.++++.+.. +.+...+..++..+...|++++|..+++++++.. +.+...+..
T Consensus        73 -~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  149 (186)
T 3as5_A           73 -PDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRA  149 (186)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHH
Confidence             2256677777777777888888888887777542 3445667777777788888888888888887776 455677777


Q ss_pred             HHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          730 LVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       730 l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      ++.++...|++++|.+.++++.+..
T Consensus       150 la~~~~~~~~~~~A~~~~~~~~~~~  174 (186)
T 3as5_A          150 IAFSYEQMGRHEEALPHFKKANELD  174 (186)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            8888888888888888887776654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.25  E-value=1.9e-09  Score=112.83  Aligned_cols=271  Identities=11%  Similarity=0.033  Sum_probs=173.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHH
Q 004244          438 GHCTGGRVEDAVGVLHGMARKGLAPDV----VSYSTIISGFSRSQELDKAFDTKREMVEKGV-LPD----TITYSSLIHG  508 (766)
Q Consensus       438 ~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~----~~~~~~li~~  508 (766)
                      .+...|++++|...+++........+.    .+++.+...+...|++++|...+++...... ..+    ..++..+...
T Consensus        23 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  102 (373)
T 1hz4_A           23 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  102 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            344556666666666655554322222    1344555566666777777766666554210 011    1234556667


Q ss_pred             HHhcCCHHHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC----CCCHHHHHHHHH
Q 004244          509 LCEQRRITEACELFQEMLSR----GMS--P-DEFTYTTLINAYCTEGDIPQALRLHDEMIQKGF----LPDVVTYSVLIN  577 (766)
Q Consensus       509 ~~~~g~~~~A~~~~~~m~~~----~~~--p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~----~p~~~~~~~li~  577 (766)
                      +...|++++|...+++..+.    +..  | ....+..+...+...|++++|...+++.....-    .....++..+..
T Consensus       103 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  182 (373)
T 1hz4_A          103 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQ  182 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHH
Confidence            77888888888888877652    211  2 234556677788888999999988888775311    112356777788


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC---C
Q 004244          578 GLNKQARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP---N  653 (766)
Q Consensus       578 ~~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p---~  653 (766)
                      .+...|++++|...+++.......++ ...+.....          ...+..+...|++++|...+++.......+   .
T Consensus       183 ~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~  252 (373)
T 1hz4_A          183 CSLARGDLDNARSQLNRLENLLGNGKYHSDWISNAN----------KVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFL  252 (373)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHH----------HHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGG
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHH----------HHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhh
Confidence            88899999999999988765311111 111211100          011144778999999999999987643221   1


Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHc----CCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 004244          654 EAVYDIIIHGHSKVGNVQKAYDLYKKMVRS----GFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       654 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~----~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      ...+..+...+...|++++|.+.++++.+.    |..++. ..+..+..++...|+.++|...+++++..
T Consensus       253 ~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~  322 (373)
T 1hz4_A          253 QGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  322 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            335677888999999999999999988632    222233 36667788899999999999999998865

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.24  E-value=1.5e-09  Score=113.77  Aligned_cols=270  Identities=15%  Similarity=0.045  Sum_probs=192.8

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHH----HHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCH----HHHH
Q 004244          468 STIISGFSRSQELDKAFDTKREMVEKGVLPDTI----TYSSLIHGLCEQRRITEACELFQEMLSRGM-SPDE----FTYT  538 (766)
Q Consensus       468 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~----~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~----~~~~  538 (766)
                      ......+...|++++|...+++........+..    ++..+...+...|++++|...+++...... .++.    .++.
T Consensus        18 ~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   97 (373)
T 1hz4_A           18 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   97 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            344456778999999999999988764333332    456677788899999999999998875310 1122    2356


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--Cc--HHhH
Q 004244          539 TLINAYCTEGDIPQALRLHDEMIQK----GFL--P-DVVTYSVLINGLNKQARTMEAKKLLLKLFYDESV--PS--DVIY  607 (766)
Q Consensus       539 ~l~~~~~~~g~~~~A~~~~~~~~~~----g~~--p-~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~--p~--~~~~  607 (766)
                      .+...+...|++++|...+++..+.    +..  | ....+..+...+...|++++|...+++.+.....  +.  ...+
T Consensus        98 ~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  177 (373)
T 1hz4_A           98 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  177 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHH
Confidence            7788899999999999999988753    222  2 2345667888899999999999999998764221  11  1223


Q ss_pred             HHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHH-----HHHHHHhccCChHHHHHHHHHHH
Q 004244          608 NTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYD-----IIIHGHSKVGNVQKAYDLYKKMV  681 (766)
Q Consensus       608 ~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~-----~l~~~~~~~g~~~~A~~~~~~m~  681 (766)
                      ..+.               ..+...|++++|...+++.......+ ....+.     ..+..+...|++++|...+++..
T Consensus       178 ~~la---------------~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~  242 (373)
T 1hz4_A          178 AMLI---------------QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTA  242 (373)
T ss_dssp             HHHH---------------HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHH---------------HHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCC
Confidence            3333               77889999999999999887531111 111221     23345779999999999999987


Q ss_pred             HcCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC----CCh-HHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          682 RSGFVPH---TVTIIVLVKALHTAGMNEELSQVIENILRSCR----LSD-AELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       682 ~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      .....+.   ...+..++..+...|++++|...+++++....    +.+ ...+..++.++...|+.++|...+++...
T Consensus       243 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          243 KPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             CCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4321111   23466788899999999999999999876521    112 34677888999999999999999988654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.24  E-value=1.2e-09  Score=114.50  Aligned_cols=90  Identities=8%  Similarity=-0.045  Sum_probs=44.6

Q ss_pred             HHHhcCChHHHHHHHHHHHHCCC-CC----ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--C---C-CCHhHHHHHH
Q 004244          333 GYCKEGNLHQALVLHAEMVRNGL-SP----NVVTYTSLINSMCKSGNLNRAMEFFDQMHVRE--L---R-PNEKTYTTLI  401 (766)
Q Consensus       333 ~~~~~g~~~~A~~~~~~~~~~g~-~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--~---~-~~~~~~~~li  401 (766)
                      .+...|++++|...+++..+... .+    ...++..+...|...|++++|...+++..+..  .   . ....+++.+.
T Consensus       110 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  189 (378)
T 3q15_A          110 YEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIA  189 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHH
Confidence            34456666666666666554210 01    13345555556666666666666555544320  0   0 0133444555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 004244          402 NGFSQHGFLDEAYRLLNEMTK  422 (766)
Q Consensus       402 ~~~~~~g~~~~A~~l~~~m~~  422 (766)
                      ..|...|++++|.+.+++..+
T Consensus       190 ~~y~~~~~~~~A~~~~~~al~  210 (378)
T 3q15_A          190 GNYDDFKHYDKALPHLEAALE  210 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHH
Confidence            555555555555555555443

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.22  E-value=1.5e-09  Score=104.75  Aligned_cols=216  Identities=11%  Similarity=0.017  Sum_probs=144.4

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004244          497 PDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLI  576 (766)
Q Consensus       497 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li  576 (766)
                      .|+..+......+...|++++|+..|++.++...+++...+..+..++...|++++|++.+++..+.. +.+...|..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            35677777888888888888888888888876533677777778888888888888888888888752 33556777888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCC---
Q 004244          577 NGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPN---  653 (766)
Q Consensus       577 ~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---  653 (766)
                      ..+...|++++|.+.+++.++.  .|+...+...+       ...+..+-..+...|++++|++.|+++++.  .|+   
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~-------~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~  152 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKA--VPGNATIEKLY-------AIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWK  152 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHH-------HHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHH-------HHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCccc
Confidence            8888888888888888888773  44433222211       012234445667788888888888888774  354   


Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHH
Q 004244          654 EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEI  733 (766)
Q Consensus       654 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  733 (766)
                      ...|..++.+|...|     ...++++...+ ..+...+...  .....+.+++|+.+++++++.. |.+..+...+..+
T Consensus       153 ~~~~~~l~~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~--~~~~~~~~~~A~~~~~~a~~l~-p~~~~~~~~l~~i  223 (228)
T 4i17_A          153 TDALYSLGVLFYNNG-----ADVLRKATPLA-SSNKEKYASE--KAKADAAFKKAVDYLGEAVTLS-PNRTEIKQMQDQV  223 (228)
T ss_dssp             HHHHHHHHHHHHHHH-----HHHHHHHGGGT-TTCHHHHHHH--HHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH-----HHHHHHHHhcc-cCCHHHHHHH--HHHHHHHHHHHHHHHHHHhhcC-CCCHHHHHHHHHH
Confidence            456667777775443     34445554332 2233333322  2334566799999999999987 4555555545443

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.20  E-value=7.2e-10  Score=107.02  Aligned_cols=195  Identities=14%  Similarity=0.028  Sum_probs=142.2

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcH-HhHHHH
Q 004244          532 PDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSD-VIYNTL  610 (766)
Q Consensus       532 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~-~~~~~l  610 (766)
                      .|+..+......+...|++++|...|++.++..-+++...+..+..++...|++++|++.+++.++.  .|+. ..+..+
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l   82 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK--NYNLANAYIGK   82 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCSHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh--CcchHHHHHHH
Confidence            4567788888888999999999999999887643367777777888888999999999999998874  4543 344444


Q ss_pred             hhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CH-------HHHHHHHHHHhccCChHHHHHHHHHHHH
Q 004244          611 IENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NE-------AVYDIIIHGHSKVGNVQKAYDLYKKMVR  682 (766)
Q Consensus       611 l~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~-------~~~~~l~~~~~~~g~~~~A~~~~~~m~~  682 (766)
                      .               ..|...|++++|+..+++..+.  .| +.       ..|..++..+...|++++|++.++++++
T Consensus        83 ~---------------~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~  145 (228)
T 4i17_A           83 S---------------AAYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD  145 (228)
T ss_dssp             H---------------HHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT
T ss_pred             H---------------HHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh
Confidence            4               7888899999999999998874  34 45       4577888888889999999999999884


Q ss_pred             cCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          683 SGFVPH---TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       683 ~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                        ..|+   ...+..++..+...|     ...++++..... .+...+...  .....|.+++|...+++..+...
T Consensus       146 --~~p~~~~~~~~~~l~~~~~~~~-----~~~~~~a~~~~~-~~~~~~~~~--~~~~~~~~~~A~~~~~~a~~l~p  211 (228)
T 4i17_A          146 --VTSKKWKTDALYSLGVLFYNNG-----ADVLRKATPLAS-SNKEKYASE--KAKADAAFKKAVDYLGEAVTLSP  211 (228)
T ss_dssp             --SSCHHHHHHHHHHHHHHHHHHH-----HHHHHHHGGGTT-TCHHHHHHH--HHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             --cCCCcccHHHHHHHHHHHHHHH-----HHHHHHHHhccc-CCHHHHHHH--HHHHHHHHHHHHHHHHHHhhcCC
Confidence              3565   366667777775543     445566665542 223333222  23345668999999999887653

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.20  E-value=5e-10  Score=111.85  Aligned_cols=194  Identities=14%  Similarity=0.133  Sum_probs=144.6

Q ss_pred             HhcCChHHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCCc-HHhHHHH
Q 004244          545 CTEGDIPQALRLHDEMIQK-------GFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYD------ESVPS-DVIYNTL  610 (766)
Q Consensus       545 ~~~g~~~~A~~~~~~~~~~-------g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~------~~~p~-~~~~~~l  610 (766)
                      ...|++++|+.++++.++.       ..+....++..+...+...|++++|...+++++..      +..|. ...+..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            3456666666666655542       11223567777888888888888888888887753      12222 2233333


Q ss_pred             hhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHc
Q 004244          611 IENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQR------NHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRS  683 (766)
Q Consensus       611 l~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  683 (766)
                      .               ..|...|++++|++.++++.+.      ...| ...++..++..|...|++++|++.++++++.
T Consensus        92 ~---------------~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  156 (283)
T 3edt_B           92 A---------------VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEI  156 (283)
T ss_dssp             H---------------HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             H---------------HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3               8899999999999999998863      1123 4677889999999999999999999998854


Q ss_pred             ------CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHc--------------------------------------
Q 004244          684 ------GFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRS--------------------------------------  718 (766)
Q Consensus       684 ------~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------------------------------------  718 (766)
                            +..|+ ..++..++..+...|++++|..+++++++.                                      
T Consensus       157 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  236 (283)
T 3edt_B          157 YATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGE  236 (283)
T ss_dssp             HHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------
T ss_pred             HHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHH
Confidence                  11333 367888999999999999999999999875                                      


Q ss_pred             ----------CCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHC
Q 004244          719 ----------CRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKD  753 (766)
Q Consensus       719 ----------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  753 (766)
                                ..+.....+..++.+|...|++++|.+++++..+.
T Consensus       237 ~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          237 YGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             ------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                      22334667889999999999999999999988764

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.16  E-value=1.4e-09  Score=100.66  Aligned_cols=165  Identities=15%  Similarity=0.006  Sum_probs=93.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhc
Q 004244          536 TYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCT  615 (766)
Q Consensus       536 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~  615 (766)
                      .+..+...+...|++++|...++++.+. .+.+...+..+...+...|++++|.+.++++.... +.+...+..+.    
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a----   83 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDA-DAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLG----   83 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCT-TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH----
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh-CccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHH----
Confidence            3444445555555555555555555433 12344555555555555666666666655555431 12233333333    


Q ss_pred             hhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 004244          616 NIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVL  695 (766)
Q Consensus       616 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  695 (766)
                                 ..+...|++++|.+.++++.+.. +.+...+..++..+...|++++|.+.++++.+.. +.+...+..+
T Consensus        84 -----------~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l  150 (186)
T 3as5_A           84 -----------LTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAI  150 (186)
T ss_dssp             -----------HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             -----------HHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHH
Confidence                       55566666666666666666532 2255666666666777777777777777766542 2334566666


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcC
Q 004244          696 VKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       696 ~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      +..+...|++++|..+++++++..
T Consensus       151 a~~~~~~~~~~~A~~~~~~~~~~~  174 (186)
T 3as5_A          151 AFSYEQMGRHEEALPHFKKANELD  174 (186)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcC
Confidence            667777777777777777766654

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.13  E-value=1.7e-09  Score=121.55  Aligned_cols=163  Identities=16%  Similarity=0.138  Sum_probs=96.3

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhh
Q 004244          534 EFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPS-DVIYNTLIE  612 (766)
Q Consensus       534 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~  612 (766)
                      ..+|+.|...|.+.|++++|++.|++.++.. +-+..+|..+..+|.+.|++++|++.|++.++.  .|+ ...|..+. 
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg-   84 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMG-   84 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHH-
Confidence            3455556666666666666666666665541 233455566666666666666666666666552  333 33334333 


Q ss_pred             hhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HH
Q 004244          613 NCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TV  690 (766)
Q Consensus       613 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~  690 (766)
                                    ..|...|++++|++.|++.++.  .| +..+|+.++.+|.+.|++++|++.|+++++.  .|+ ..
T Consensus        85 --------------~~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~  146 (723)
T 4gyw_A           85 --------------NTLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPD  146 (723)
T ss_dssp             --------------HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHH
T ss_pred             --------------HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChH
Confidence                          5566666666666666666653  34 4566666666666666677776666666643  343 35


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 004244          691 TIIVLVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       691 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      .+..++..+...|++++|.+.++++++.
T Consensus       147 a~~~L~~~l~~~g~~~~A~~~~~kal~l  174 (723)
T 4gyw_A          147 AYCNLAHCLQIVCDWTDYDERMKKLVSI  174 (723)
T ss_dssp             HHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHhhhhhHHHhcccHHHHHHHHHHHHHh
Confidence            5666666666667766666666666554

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.09  E-value=1.8e-09  Score=107.83  Aligned_cols=170  Identities=18%  Similarity=0.118  Sum_probs=124.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHC------CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------CC
Q 004244          534 EFTYTTLINAYCTEGDIPQALRLHDEMIQK------GF-LPDVVTYSVLINGLNKQARTMEAKKLLLKLFYD------ES  600 (766)
Q Consensus       534 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------g~-~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~------~~  600 (766)
                      ..++..+...|...|++++|...++++.+.      +. +....++..+...+...|++++|.+.+++.+..      ..
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  122 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKF  122 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCC
Confidence            456667777777777887777777777643      11 223456777788888888888888888887653      11


Q ss_pred             CCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHhccCChHH
Q 004244          601 VPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQR------NHMP-NEAVYDIIIHGHSKVGNVQK  672 (766)
Q Consensus       601 ~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~~p-~~~~~~~l~~~~~~~g~~~~  672 (766)
                      .|+ ...+..+.               ..|...|++++|...++++.+.      +..| ...++..++.+|...|++++
T Consensus       123 ~~~~~~~~~~la---------------~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  187 (283)
T 3edt_B          123 HPDVAKQLNNLA---------------LLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQD  187 (283)
T ss_dssp             CHHHHHHHHHHH---------------HHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             ChHHHHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHH
Confidence            222 22333333               7899999999999999998863      1133 45678899999999999999


Q ss_pred             HHHHHHHHHHcC-----------------------------------------------CCCC-HHHHHHHHHHHHhcCC
Q 004244          673 AYDLYKKMVRSG-----------------------------------------------FVPH-TVTIIVLVKALHTAGM  704 (766)
Q Consensus       673 A~~~~~~m~~~~-----------------------------------------------~~p~-~~~~~~l~~~~~~~g~  704 (766)
                      |++.++++++..                                               ..|+ ..++..++..+...|+
T Consensus       188 A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~  267 (283)
T 3edt_B          188 AETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGK  267 (283)
T ss_dssp             HHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCC
Confidence            999999987530                                               1122 2567789999999999


Q ss_pred             hHHHHHHHHHHHHc
Q 004244          705 NEELSQVIENILRS  718 (766)
Q Consensus       705 ~~~A~~~~~~~~~~  718 (766)
                      +++|..+++++++.
T Consensus       268 ~~~A~~~~~~al~~  281 (283)
T 3edt_B          268 LEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999999864

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.06  E-value=2.5e-09  Score=107.50  Aligned_cols=195  Identities=10%  Similarity=-0.010  Sum_probs=125.0

Q ss_pred             HHHhcCChHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---CCc--HHhHHHHhh
Q 004244          543 AYCTEGDIPQALRLHDEMIQK----GFLPD-VVTYSVLINGLNKQARTMEAKKLLLKLFYDES---VPS--DVIYNTLIE  612 (766)
Q Consensus       543 ~~~~~g~~~~A~~~~~~~~~~----g~~p~-~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~---~p~--~~~~~~ll~  612 (766)
                      .|...|++++|...+.+..+.    |.+++ ..+|..+...|.+.|++++|+..+++.+....   .+.  ..++..+. 
T Consensus        46 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg-  124 (292)
T 1qqe_A           46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG-  124 (292)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH-
Confidence            344556666666655555432    21111 34556666666666666666666666554200   000  12233333 


Q ss_pred             hhchhhhhhHHHHHhhhhhc-CCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCC
Q 004244          613 NCTNIEFQNVAALLKGFCMK-GLMNEADRVFELMLQRNHM-PN----EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFV  686 (766)
Q Consensus       613 ~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~-p~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  686 (766)
                                    ..|... |++++|+..|++.++.... .+    ..++..++..+.+.|++++|++.++++.+....
T Consensus       125 --------------~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~  190 (292)
T 1qqe_A          125 --------------EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMG  190 (292)
T ss_dssp             --------------HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSS
T ss_pred             --------------HHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhc
Confidence                          778886 9999999999998863110 01    456889999999999999999999999965322


Q ss_pred             CCH------HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCh----HHHHHHHHHHHh--cCCChhHHHHHHHHHHH
Q 004244          687 PHT------VTIIVLVKALHTAGMNEELSQVIENILRSCRLSD----AELAKVLVEINH--KEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       687 p~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~l~~~~~--~~g~~~~A~~~~~~m~~  752 (766)
                      ...      ..+..++.++...|++++|+..++++++..+...    ...+..++..+.  ..+++++|++.++++..
T Consensus       191 ~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          191 NRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             CTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             CCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc
Confidence            211      1567788889999999999999999998763321    223445566664  56788999888876543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.05  E-value=4.2e-09  Score=105.87  Aligned_cols=194  Identities=12%  Similarity=0.031  Sum_probs=125.0

Q ss_pred             HHhcCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCC-CHHHHHHHHHH
Q 004244          509 LCEQRRITEACELFQEMLSR----GMSPD-EFTYTTLINAYCTEGDIPQALRLHDEMIQK----GFLP-DVVTYSVLING  578 (766)
Q Consensus       509 ~~~~g~~~~A~~~~~~m~~~----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g~~p-~~~~~~~li~~  578 (766)
                      |...|++++|...|++..+.    |-+++ ..+|+.+...|.+.|++++|+..+++.++.    |-.. ...++..+...
T Consensus        47 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~  126 (292)
T 1qqe_A           47 YRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEI  126 (292)
T ss_dssp             HHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            44556666666666555432    21111 345666666677777777777776666542    1100 13467778888


Q ss_pred             HHhc-CCHHHHHHHHHHHHhCCCC-Cc----HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC
Q 004244          579 LNKQ-ARTMEAKKLLLKLFYDESV-PS----DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP  652 (766)
Q Consensus       579 ~~~~-g~~~~A~~l~~~~~~~~~~-p~----~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  652 (766)
                      |... |++++|++.|++.+..... .+    ..++..+.               ..+...|++++|+..|+++.+.....
T Consensus       127 ~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg---------------~~~~~~g~~~~A~~~~~~al~~~~~~  191 (292)
T 1qqe_A          127 LENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCA---------------DLKALDGQYIEASDIYSKLIKSSMGN  191 (292)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHTTSSC
T ss_pred             HHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHH---------------HHHHHhCCHHHHHHHHHHHHHHHhcC
Confidence            8886 9999999999988763110 01    12334444               88999999999999999999854322


Q ss_pred             CH------HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHH------HHHHHHHHHH--hcCChHHHHHHHHHHHHc
Q 004244          653 NE------AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTV------TIIVLVKALH--TAGMNEELSQVIENILRS  718 (766)
Q Consensus       653 ~~------~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~------~~~~l~~~~~--~~g~~~~A~~~~~~~~~~  718 (766)
                      ..      ..|..++.++...|++++|+..+++.++  +.|+..      .+..++..+.  ..+++++|+..++++...
T Consensus       192 ~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l  269 (292)
T 1qqe_A          192 RLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS--EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRL  269 (292)
T ss_dssp             TTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC--C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCC
T ss_pred             CcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCcc
Confidence            21      1577888899999999999999999873  345431      2344555554  457789999998888776


Q ss_pred             C
Q 004244          719 C  719 (766)
Q Consensus       719 ~  719 (766)
                      +
T Consensus       270 ~  270 (292)
T 1qqe_A          270 D  270 (292)
T ss_dssp             C
T ss_pred             H
Confidence            5

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.04  E-value=6.1e-08  Score=95.35  Aligned_cols=245  Identities=9%  Similarity=0.043  Sum_probs=151.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 004244          437 KGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRIT  516 (766)
Q Consensus       437 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  516 (766)
                      +-..-.|++..++.-.   .+...........-+.++|...|+++..         ....|....+..+... ...+   
T Consensus        21 kn~fy~G~yq~~i~e~---~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~-~~~~---   84 (310)
T 3mv2_B           21 KQNYYTGNFVQCLQEI---EKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQF-LDTK---   84 (310)
T ss_dssp             HHHHTTTCHHHHTHHH---HTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHH-HTTT---
T ss_pred             HHHHHhhHHHHHHHHH---HhcCccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHH-hccc---
Confidence            4444568888887733   2222222223333344667666665531         1223444344444433 3322   


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004244          517 EACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGF-LPDVVTYSVLINGLNKQARTMEAKKLLLKL  595 (766)
Q Consensus       517 ~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~-~p~~~~~~~li~~~~~~g~~~~A~~l~~~~  595 (766)
                       |+..+++..+.+ .++..++..+..++...|++++|++++.+.+..|- .-+...+..++..+.+.|+.+.|.+.+++|
T Consensus        85 -a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 -NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             -CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             -HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence             677777777655 55566666777888888888888888888776542 135667777788888888888888888888


Q ss_pred             HhCCCCCc-----HHhHHHHhhhhchhhhhhHHHHHhh--hhhcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 004244          596 FYDESVPS-----DVIYNTLIENCTNIEFQNVAALLKG--FCMKG--LMNEADRVFELMLQRNHMPNEAVYDIIIHGHSK  666 (766)
Q Consensus       596 ~~~~~~p~-----~~~~~~ll~~~~~~~~~~~~~l~~~--~~~~g--~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~  666 (766)
                      .+  ..||     ..+...+.               .+  ....|  +..+|..+|+++.+.  .|+..+-..+..++.+
T Consensus       163 ~~--~~~d~~~~~d~~l~~La---------------ea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~  223 (310)
T 3mv2_B          163 TN--AIEDTVSGDNEMILNLA---------------ESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQ  223 (310)
T ss_dssp             HH--HSCHHHHHHHHHHHHHH---------------HHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHH
T ss_pred             Hh--cCccccccchHHHHHHH---------------HHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHH
Confidence            76  4562     33333333               33  33334  888888888888764  2442333334447788


Q ss_pred             cCChHHHHHHHHHHHHc-----CC---CC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 004244          667 VGNVQKAYDLYKKMVRS-----GF---VP-HTVTIIVLVKALHTAGMNEELSQVIENILRSCR  720 (766)
Q Consensus       667 ~g~~~~A~~~~~~m~~~-----~~---~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  720 (766)
                      .|++++|.+.++.+.+.     ..   .| |..++..++......|+  +|.++++++.+..|
T Consensus       224 ~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P  284 (310)
T 3mv2_B          224 QRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDH  284 (310)
T ss_dssp             HTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTC
T ss_pred             cCCHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCC
Confidence            88888888888876532     00   13 34566566666666676  78888888888873

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.99  E-value=7.6e-08  Score=94.67  Aligned_cols=251  Identities=11%  Similarity=0.051  Sum_probs=161.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 004244          401 INGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQEL  480 (766)
Q Consensus       401 i~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  480 (766)
                      ++-..-.|.+..++.-   ..+...........-+.++|...|+....         ....|....+..+...+ ..+  
T Consensus        20 ikn~fy~G~yq~~i~e---~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~--   84 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQE---IEKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK--   84 (310)
T ss_dssp             HHHHHTTTCHHHHTHH---HHTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT--
T ss_pred             HHHHHHhhHHHHHHHH---HHhcCccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc--
Confidence            3455668999988873   33322122233334455778888876642         12334544555444443 322  


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 004244          481 DKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGM-SPDEFTYTTLINAYCTEGDIPQALRLHDE  559 (766)
Q Consensus       481 ~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  559 (766)
                        |+..+++..+.+ .++..++..+..++...|++++|++++.+.+..+. .-+...+..++..+.+.|+.+.|.+.++.
T Consensus        85 --a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~  161 (310)
T 3mv2_B           85 --NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDN  161 (310)
T ss_dssp             --CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             --HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence              788888887765 45666667888899999999999999999877653 24567788899999999999999999999


Q ss_pred             HHHCCCCC-----CHHHHHHHHHHHHh--cCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhc
Q 004244          560 MIQKGFLP-----DVVTYSVLINGLNK--QARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMK  632 (766)
Q Consensus       560 ~~~~g~~p-----~~~~~~~li~~~~~--~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~  632 (766)
                      |.+.  .|     +..+...++.++..  .|.-             ........|.-+...+..  ......|+.++.+.
T Consensus       162 ~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~-------------~~q~A~~~f~El~~~~p~--~~~~~lLln~~~~~  224 (310)
T 3mv2_B          162 YTNA--IEDTVSGDNEMILNLAESYIKFATNKE-------------TATSNFYYYEELSQTFPT--WKTQLGLLNLHLQQ  224 (310)
T ss_dssp             HHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCS-------------TTTHHHHHHHHHHTTSCS--HHHHHHHHHHHHHH
T ss_pred             HHhc--CccccccchHHHHHHHHHHHHHHhCCc-------------cHHHHHHHHHHHHHhCCC--cccHHHHHHHHHHc
Confidence            9875  55     24555555555322  2220             122223344444432221  12233445688999


Q ss_pred             CCHHHHHHHHHHHHhC-----CC---CC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHH
Q 004244          633 GLMNEADRVFELMLQR-----NH---MP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTV  690 (766)
Q Consensus       633 g~~~~A~~~~~~~~~~-----~~---~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  690 (766)
                      |++++|.+.++.+.+.     ..   .| ++.++..++......|+  +|.++++++.+.  .|+..
T Consensus       225 g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~hp  287 (310)
T 3mv2_B          225 RNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL--DHEHA  287 (310)
T ss_dssp             TCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT--TCCCH
T ss_pred             CCHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh--CCCCh
Confidence            9999999999977642     11   24 66777556655666676  899999999864  56654

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.98  E-value=2.7e-09  Score=95.14  Aligned_cols=143  Identities=10%  Similarity=0.009  Sum_probs=110.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCcHH-hHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-
Q 004244          575 LINGLNKQARTMEAKKLLLKLFYDESVPSDV-IYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-  652 (766)
Q Consensus       575 li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~-~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-  652 (766)
                      |...+...|++++|+..+.+....  .|+.. .+..+.               ..|...|++++|++.|++.++.  .| 
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la---------------~~y~~~~~~~~A~~~~~~al~~--~p~   63 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFA---------------KLYYEAKEYDLAKKYICTYINV--QER   63 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHH---------------HHHHHTTCHHHHHHHHHHHHHH--CTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHHh--CCC
Confidence            344556678889999998888652  34332 223333               7889999999999999999984  45 


Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChHHHHH-HHHHHHHcCCCChHHHHHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIVLVKALHTAGMNEELSQ-VIENILRSCRLSDAELAKVL  730 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~-~~~~~~~~~~~~~~~~~~~l  730 (766)
                      +..+|..++.+|.+.|++++|+..|+++++.  .|+ ...+..++..+.+.|+.++|.. +++++++.+ |.++.+|...
T Consensus        64 ~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~  140 (150)
T 4ga2_A           64 DPKAHRFLGLLYELEENTDKAVECYRRSVEL--NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLK  140 (150)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHH
Confidence            7889999999999999999999999999865  454 5788889999999999877665 569999988 6778888888


Q ss_pred             HHHHhcCCC
Q 004244          731 VEINHKEGN  739 (766)
Q Consensus       731 ~~~~~~~g~  739 (766)
                      ...+...|+
T Consensus       141 ~~ll~~~G~  149 (150)
T 4ga2_A          141 EQLLDCEGE  149 (150)
T ss_dssp             HHHHHTCCC
T ss_pred             HHHHHHhCc
Confidence            888888775

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.98  E-value=8.5e-07  Score=95.56  Aligned_cols=118  Identities=9%  Similarity=0.069  Sum_probs=86.7

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC-ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVG-NVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  705 (766)
                      ....+.+..+.|..+|+++ .. ...+...|...+..-...+ +.+.|..+|+..++.. +-++..|...++.....|+.
T Consensus       294 ~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~  370 (493)
T 2uy1_A          294 NYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDE  370 (493)
T ss_dssp             HHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCH
Confidence            5555677899999999999 32 2234455543333333334 6999999999998652 22345566778888899999


Q ss_pred             HHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          706 EELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       706 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      +.|..+++++.     .....|...++.-...|+.+.+.++++++..
T Consensus       371 ~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          371 ENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999982     3577888888877888999999998888764

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.97  E-value=2.3e-08  Score=86.66  Aligned_cols=125  Identities=16%  Similarity=0.138  Sum_probs=110.0

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNE  706 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  706 (766)
                      ..+...|++++|...++++.+.. +.+...+..++..+...|++++|.+.++++.+.+ +.+...+..++..+...|+++
T Consensus         9 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~   86 (136)
T 2fo7_A            9 NAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYD   86 (136)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHhcCHH
Confidence            78889999999999999998753 2367888899999999999999999999998654 345678888999999999999


Q ss_pred             HHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          707 ELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       707 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      +|..+++++++.. +.+...+..++.++.+.|++++|.+.++++.+.+
T Consensus        87 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           87 EAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            9999999999987 5567788899999999999999999999988764

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.97  E-value=1.8e-08  Score=99.39  Aligned_cols=192  Identities=10%  Similarity=0.058  Sum_probs=133.7

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCc-HHh
Q 004244          532 PDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPD---VVTYSVLINGLNKQARTMEAKKLLLKLFYDES-VPS-DVI  606 (766)
Q Consensus       532 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~---~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~-~p~-~~~  606 (766)
                      .+...+..+...+.+.|++++|...|+++++.. +.+   ...+..+..++.+.|++++|+..|++.+.... .|. ...
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            345556666777777888888888888877652 223   56677777778888888888888888876421 112 122


Q ss_pred             HHHHhhhhchhhhhhHHHHHhhhhh--------cCCHHHHHHHHHHHHhCCCCC-CHHHH-----------------HHH
Q 004244          607 YNTLIENCTNIEFQNVAALLKGFCM--------KGLMNEADRVFELMLQRNHMP-NEAVY-----------------DII  660 (766)
Q Consensus       607 ~~~ll~~~~~~~~~~~~~l~~~~~~--------~g~~~~A~~~~~~~~~~~~~p-~~~~~-----------------~~l  660 (766)
                      +..+.               .++..        .|++++|+..|+++++..  | +....                 ..+
T Consensus        92 ~~~lg---------------~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~l  154 (261)
T 3qky_A           92 EYERA---------------MCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEA  154 (261)
T ss_dssp             HHHHH---------------HHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHH---------------HHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHH
Confidence            22222               56666        899999999999999743  4 33333                 556


Q ss_pred             HHHHhccCChHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhc----------CChHHHHHHHHHHHHcCCCCh--H
Q 004244          661 IHGHSKVGNVQKAYDLYKKMVRSGFVPH----TVTIIVLVKALHTA----------GMNEELSQVIENILRSCRLSD--A  724 (766)
Q Consensus       661 ~~~~~~~g~~~~A~~~~~~m~~~~~~p~----~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~~~~--~  724 (766)
                      +..|.+.|++++|+..|+++++..  |+    ...+..++.++...          |++++|+..++++++..|...  .
T Consensus       155 a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  232 (261)
T 3qky_A          155 ARLYERRELYEAAAVTYEAVFDAY--PDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLR  232 (261)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHC--CCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHH
Confidence            888999999999999999998652  33    35677788888866          888999999999999874432  3


Q ss_pred             HHHHHHHHHHhcCCChhHH
Q 004244          725 ELAKVLVEINHKEGNMDAV  743 (766)
Q Consensus       725 ~~~~~l~~~~~~~g~~~~A  743 (766)
                      .....+..++.+.|+++++
T Consensus       233 ~a~~~l~~~~~~~~~~~~~  251 (261)
T 3qky_A          233 TAEELYTRARQRLTELEGD  251 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHhhhh
Confidence            4455566666665555443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.96  E-value=7.3e-07  Score=96.06  Aligned_cols=355  Identities=11%  Similarity=0.015  Sum_probs=198.6

Q ss_pred             CChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCC-hhHHHHHHHHHhhC-CCCC-CHHHHHHHHHHHH----HcCCh
Q 004244          233 GDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGR-IDDAFKLLRDMGLK-GIEP-NLISYNVIINGLC----KEGRL  305 (766)
Q Consensus       233 g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~-~~~A~~l~~~m~~~-g~~p-~~~~~~~li~~~~----~~g~~  305 (766)
                      |+++.+..+|++....  .|++..|...+....+.++ .+....+|+..... |..| +...|...+..+.    ..++.
T Consensus        28 ~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~  105 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRI  105 (493)
T ss_dssp             TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHH
T ss_pred             CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHH
Confidence            7888888888888774  4688888888777776663 34556667665442 3322 5566766665543    24567


Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh---cCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHH
Q 004244          306 KETKGILNEISRKGLVPDEVTYNTLLNGYCK---EGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFF  382 (766)
Q Consensus       306 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~---~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  382 (766)
                      +.+.++|++....... +.   ..+...|..   ......+..+..+.                     .+.+..|..++
T Consensus       106 ~~vR~iy~rAL~~P~~-~~---~~lw~~Y~~fE~~~~~~~~~~~~~~~---------------------~~~y~~ar~~y  160 (493)
T 2uy1_A          106 EKIRNGYMRALQTPMG-SL---SELWKDFENFELELNKITGKKIVGDT---------------------LPIFQSSFQRY  160 (493)
T ss_dssp             HHHHHHHHHHHTSCCT-TH---HHHHHHHHHHHHHHCHHHHHHHHHHH---------------------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhChhh-hH---HHHHHHHHHHHHHhccccHHHHHHHH---------------------hHHHHHHHHHH
Confidence            7788888888763211 11   122222211   11112222222111                     11233334444


Q ss_pred             HHHHHCCCCCCHhHHHHHHHHHHhcC--C-----HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004244          383 DQMHVRELRPNEKTYTTLINGFSQHG--F-----LDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGM  455 (766)
Q Consensus       383 ~~m~~~~~~~~~~~~~~li~~~~~~g--~-----~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~  455 (766)
                      +++...-...+...|...++--...+  -     .+.+..+|+++.... +.+...|...+..+.+.|+.++|..++++.
T Consensus       161 ~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erA  239 (493)
T 2uy1_A          161 QQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERG  239 (493)
T ss_dssp             HHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33332100012334444444322211  0     234566777777643 445666777777777778888888888887


Q ss_pred             HHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC---------C---CCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004244          456 ARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKG---------V---LPDTITYSSLIHGLCEQRRITEACELFQ  523 (766)
Q Consensus       456 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~---------~---~p~~~~~~~li~~~~~~g~~~~A~~~~~  523 (766)
                      ...  +.+...|..    |....+.++.   ++.+.+.-         .   ......|...+....+.+..+.|..+|+
T Consensus       240 i~~--P~~~~l~~~----y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~  310 (493)
T 2uy1_A          240 IEM--SDGMFLSLY----YGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFI  310 (493)
T ss_dssp             HHH--CCSSHHHHH----HHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HhC--CCcHHHHHH----HHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            776  223322222    1111111111   22221110         0   0112456666776767788999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHh-cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 004244          524 EMLSRGMSPDEFTYTTLINAYCT-EGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVP  602 (766)
Q Consensus       524 ~m~~~~~~p~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p  602 (766)
                      +. ... ..+...|......-.. .++.+.|..+|+...+. ++.+...|...++...+.|+.+.|..+|+++.     .
T Consensus       311 ~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~-~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k  382 (493)
T 2uy1_A          311 EL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLK-HPDSTLLKEEFFLFLLRIGDEENARALFKRLE-----K  382 (493)
T ss_dssp             HH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----C
T ss_pred             Hh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----H
Confidence            99 322 2344444432222222 34699999999999875 33345667778888888999999999999973     2


Q ss_pred             cHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHh
Q 004244          603 SDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQ  647 (766)
Q Consensus       603 ~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (766)
                      ....|...+               +.-...|+.+.+.+++++..+
T Consensus       383 ~~~lw~~~~---------------~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          383 TSRMWDSMI---------------EYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             BHHHHHHHH---------------HHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHH---------------HHHHHCCCHHHHHHHHHHHHH
Confidence            445566555               555667999999998887763

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.95  E-value=4.9e-08  Score=93.80  Aligned_cols=190  Identities=12%  Similarity=0.000  Sum_probs=119.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHH----hH
Q 004244          534 EFTYTTLINAYCTEGDIPQALRLHDEMIQKGF-LP-DVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDV----IY  607 (766)
Q Consensus       534 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~-~p-~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~----~~  607 (766)
                      ...+..+...+.+.|++++|+..|+++++... .| ....+..+..++.+.|++++|+..|+++++.  .|+..    .+
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a~   81 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVM   81 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHHH
Confidence            34455666778888888888888888886421 11 1356777788888888888888888888764  33321    12


Q ss_pred             HHHhhhhchhhhhhHHHHHhhhhh------------------cCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccC
Q 004244          608 NTLIENCTNIEFQNVAALLKGFCM------------------KGLMNEADRVFELMLQRNHMPN-EAVYDIIIHGHSKVG  668 (766)
Q Consensus       608 ~~ll~~~~~~~~~~~~~l~~~~~~------------------~g~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  668 (766)
                      ..+.               .++..                  .|++++|+..|+++++..  |+ ...+......     
T Consensus        82 ~~~g---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l-----  139 (225)
T 2yhc_A           82 YMRG---------------LTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRL-----  139 (225)
T ss_dssp             HHHH---------------HHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHH-----
T ss_pred             HHHH---------------HHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHH-----
Confidence            1111               33332                  344555555555555421  21 1111111000     


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCh--HHHHHHHHHHHhcCCChhHHHHH
Q 004244          669 NVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSD--AELAKVLVEINHKEGNMDAVLNV  746 (766)
Q Consensus       669 ~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~  746 (766)
                           ..+...+        ......++..+.+.|++++|+..++++++..|...  ...+..++.+|.+.|++++|.+.
T Consensus       140 -----~~~~~~~--------~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~  206 (225)
T 2yhc_A          140 -----VFLKDRL--------AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKV  206 (225)
T ss_dssp             -----HHHHHHH--------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             -----HHHHHHH--------HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHH
Confidence                 0000000        01113567788899999999999999999874433  36788999999999999999999


Q ss_pred             HHHHHHCCCCCCCC
Q 004244          747 LTEMAKDGLLPNSG  760 (766)
Q Consensus       747 ~~~m~~~~~~~~~~  760 (766)
                      ++++...+..-...
T Consensus       207 ~~~l~~~~~~~~~~  220 (225)
T 2yhc_A          207 AKIIAANSSNTLEH  220 (225)
T ss_dssp             HHHHHHCCSCCCCC
T ss_pred             HHHHHhhCCCchhh
Confidence            99999887655443

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.93  E-value=1.2e-07  Score=89.96  Aligned_cols=176  Identities=11%  Similarity=-0.001  Sum_probs=85.3

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC----CHHHHHHHH
Q 004244          517 EACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQA----RTMEAKKLL  592 (766)
Q Consensus       517 ~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g----~~~~A~~l~  592 (766)
                      +|.+.|++..+.|   +...+..|...|...+++++|.+.|++..+.|   +...+..+...|.. +    ++++|.+.|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            3455555555543   44455555555555666666666666655543   44444445555544 4    555555555


Q ss_pred             HHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhh----cCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHhc-
Q 004244          593 LKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCM----KGLMNEADRVFELMLQRNHM-PNEAVYDIIIHGHSK-  666 (766)
Q Consensus       593 ~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~-p~~~~~~~l~~~~~~-  666 (766)
                      ++..+.|   +...+..+.               ..|..    .+++++|++.|++..+.|.. .++..+..|...|.. 
T Consensus        77 ~~A~~~g---~~~a~~~Lg---------------~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g  138 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLA---------------RVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASG  138 (212)
T ss_dssp             HHHHHTT---CHHHHHHHH---------------HHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHCC---CHHHHHHHH---------------HHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcC
Confidence            5554432   222222222               23333    45555555555555554311 014444555555554 


Q ss_pred             ---cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc-C-----ChHHHHHHHHHHHHcC
Q 004244          667 ---VGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTA-G-----MNEELSQVIENILRSC  719 (766)
Q Consensus       667 ---~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~~~~~~  719 (766)
                         .+++++|+++|++..+.  ..+...+..|...|... |     +.++|..+++++.+.+
T Consensus       139 ~g~~~d~~~A~~~~~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          139 VHGPEDDVKASEYFKGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             SSSSCCHHHHHHHHHHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence               44555555555555543  12223344444444332 2     4555555555555544

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.93  E-value=4e-08  Score=96.90  Aligned_cols=171  Identities=8%  Similarity=-0.027  Sum_probs=136.4

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc----HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHH
Q 004244          566 LPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPS----DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRV  641 (766)
Q Consensus       566 ~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~----~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  641 (766)
                      +.+...+..+...+.+.|++++|+..|++++..  .|+    ...+..+.               .+|...|++++|+..
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~a~~~lg---------------~~~~~~~~~~~A~~~   74 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTY--GRTHEWAADAQFYLA---------------RAYYQNKEYLLAASE   74 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGG--CSCSTTHHHHHHHHH---------------HHHHHTTCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCCCcchHHHHHHHH---------------HHHHHhCcHHHHHHH
Confidence            345677777888899999999999999999885  343    33344444               789999999999999


Q ss_pred             HHHHHhCCC-CC-CHHHHHHHHHHHhc--------cCChHHHHHHHHHHHHcCCCCCH-HHH-----------------H
Q 004244          642 FELMLQRNH-MP-NEAVYDIIIHGHSK--------VGNVQKAYDLYKKMVRSGFVPHT-VTI-----------------I  693 (766)
Q Consensus       642 ~~~~~~~~~-~p-~~~~~~~l~~~~~~--------~g~~~~A~~~~~~m~~~~~~p~~-~~~-----------------~  693 (766)
                      |+++++... .| ....+..++.++..        .|++++|++.|+++++.  .|+. ...                 .
T Consensus        75 ~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~~~~~~~~~~~~~~  152 (261)
T 3qky_A           75 YERFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDATQKIRELRAKLARKQY  152 (261)
T ss_dssp             HHHHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHHHHHHHHHHHHHHHHH
Confidence            999997532 12 25567788888988        99999999999999865  3432 223                 5


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCC--hHHHHHHHHHHHhcC----------CChhHHHHHHHHHHHCCC
Q 004244          694 VLVKALHTAGMNEELSQVIENILRSCRLS--DAELAKVLVEINHKE----------GNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       694 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~----------g~~~~A~~~~~~m~~~~~  755 (766)
                      .++..+...|++++|+..++++++..+..  ....+..++.+|...          |++++|...++++.+...
T Consensus       153 ~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p  226 (261)
T 3qky_A          153 EAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP  226 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC
Confidence            66888999999999999999999987433  467888899999876          899999999999887653

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.92  E-value=8.4e-09  Score=116.64  Aligned_cols=171  Identities=11%  Similarity=-0.037  Sum_probs=92.1

Q ss_pred             HhcCCHHHHHHHHHHHH--------HCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004244          510 CEQRRITEACELFQEML--------SRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNK  581 (766)
Q Consensus       510 ~~~g~~~~A~~~~~~m~--------~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~  581 (766)
                      ...|++++|++.+++..        +.. +.+...+..+...+.+.|++++|++.++++++.. +.+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            55666666666666665        322 3344555566666666666666666666666541 3345556666666666


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHH
Q 004244          582 QARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDI  659 (766)
Q Consensus       582 ~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~  659 (766)
                      .|++++|.+.|++.++.  .|+ ...+..+.               ..+.+.|++++ ++.|+++++.  .| +...|..
T Consensus       480 ~g~~~~A~~~~~~al~l--~P~~~~~~~~lg---------------~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~  539 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDT--FPGELAPKLALA---------------ATAELAGNTDE-HKFYQTVWST--NDGVISAAFG  539 (681)
T ss_dssp             HTCHHHHHHHHHHHHHH--STTCSHHHHHHH---------------HHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh--CCCChHHHHHHH---------------HHHHHcCChHH-HHHHHHHHHh--CCchHHHHHH
Confidence            66666666666666552  232 22333333               45555666666 6666666553  23 4555566


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCC
Q 004244          660 IIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGM  704 (766)
Q Consensus       660 l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~  704 (766)
                      ++.++.+.|++++|++.|+++++  ..|+. ..+..++.++...|+
T Consensus       540 lg~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          540 LARARSAEGDRVGAVRTLDEVPP--TSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSCT--TSTTHHHHHHHHHHHTC----
T ss_pred             HHHHHHHcCCHHHHHHHHHhhcc--cCcccHHHHHHHHHHHHccCC
Confidence            66666666666666666666552  23443 444445555444444

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.91  E-value=2.2e-07  Score=88.14  Aligned_cols=177  Identities=10%  Similarity=-0.014  Sum_probs=106.2

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhh
Q 004244          552 QALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCM  631 (766)
Q Consensus       552 ~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~  631 (766)
                      +|.+.|++..+.|   +...+..+...|...+++++|++.|++..+.|   +...+..+.               ..|..
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg---------------~~y~~   62 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLA---------------QLKIR   62 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHH---------------HHTTS
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHH---------------HHHHc
Confidence            3555666666553   55666666666666777777777777766643   233333333               34444


Q ss_pred             cC----CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHh-
Q 004244          632 KG----LMNEADRVFELMLQRNHMPNEAVYDIIIHGHSK----VGNVQKAYDLYKKMVRSGFV-PHTVTIIVLVKALHT-  701 (766)
Q Consensus       632 ~g----~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~~-p~~~~~~~l~~~~~~-  701 (766)
                       +    ++++|++.|++..+.|   ++..+..|...|..    .+++++|+++|++..+.|.. .+...+..|...+.. 
T Consensus        63 -~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g  138 (212)
T 3rjv_A           63 -NPQQADYPQARQLAEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASG  138 (212)
T ss_dssp             -STTSCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHT
T ss_pred             -CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcC
Confidence             4    6777777777776643   55666666666665    66777777777776644311 014556666666666 


Q ss_pred             ---cCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcC-C-----ChhHHHHHHHHHHHCCC
Q 004244          702 ---AGMNEELSQVIENILRSCRLSDAELAKVLVEINHKE-G-----NMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       702 ---~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~m~~~~~  755 (766)
                         .++.++|..+++++.+.+  .+...+..|+.+|... |     +.++|.+++++..+.|.
T Consensus       139 ~g~~~d~~~A~~~~~~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          139 VHGPEDDVKASEYFKGSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             SSSSCCHHHHHHHHHHHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             CCCCCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence               666777777777776651  2233455566666532 2     67777777777666653

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.86  E-value=1.1e-07  Score=82.41  Aligned_cols=128  Identities=19%  Similarity=0.216  Sum_probs=76.6

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004244          467 YSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCT  546 (766)
Q Consensus       467 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~  546 (766)
                      +..+...+...|++++|...++++.+.+. .+...+..+...+...|++++|...++++...+ +.+...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            44455555566666666666666555432 245555556666666666666666666665543 3345556666666666


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 004244          547 EGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFY  597 (766)
Q Consensus       547 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~  597 (766)
                      .|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.++++..
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            666666666666666542 33455666666666666777777666666654

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.86  E-value=5.9e-08  Score=91.87  Aligned_cols=124  Identities=11%  Similarity=0.032  Sum_probs=97.6

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC-
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGM-  704 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~-  704 (766)
                      ..|...|++++|+..|++.++.  .| +...|..++.++...|++++|++.|+++++.. +.+...+..++..+...|+ 
T Consensus        62 ~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~  138 (208)
T 3urz_A           62 LAYKKNRNYDKAYLFYKELLQK--APNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQ  138 (208)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHH
Confidence            7889999999999999999985  35 78899999999999999999999999999653 3345788888888876654 


Q ss_pred             -hHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          705 -NEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       705 -~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                       .+.+...++++..  +++....+..++.++...|++++|...+++..+...
T Consensus       139 ~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P  188 (208)
T 3urz_A          139 EKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFP  188 (208)
T ss_dssp             HHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSC
T ss_pred             HHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence             4556666666653  233344566678888889999999999999987654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.85  E-value=6.6e-08  Score=96.71  Aligned_cols=164  Identities=15%  Similarity=0.065  Sum_probs=95.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcH-HhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHH
Q 004244          568 DVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSD-VIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELML  646 (766)
Q Consensus       568 ~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~-~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (766)
                      +...+..+...+...|++++|...|++.+..  .|+. ..+..+.               ..+...|++++|...++++.
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la---------------~~~~~~g~~~~A~~~l~~~~  178 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLA---------------ETLIALNRSEDAEAVLXTIP  178 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHH---------------HHHHHTTCHHHHHHHHTTSC
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHH---------------HHHHHCCCHHHHHHHHHhCc
Confidence            3445555556666666666666666666653  3332 2233333               56666666666666666665


Q ss_pred             hCCCCCCHHHH-HHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-hH
Q 004244          647 QRNHMPNEAVY-DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLS-DA  724 (766)
Q Consensus       647 ~~~~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~  724 (766)
                      ..  .|+.... ......+.+.++.++|++.++++++.. +.+...+..++..+...|++++|...++++++.++.. +.
T Consensus       179 ~~--~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~  255 (287)
T 3qou_A          179 LQ--DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADG  255 (287)
T ss_dssp             GG--GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGG
T ss_pred             hh--hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccc
Confidence            53  2433322 222223455666666777776666442 2334566666777777777777777777777765322 25


Q ss_pred             HHHHHHHHHHhcCCChhHHHHHHHHHH
Q 004244          725 ELAKVLVEINHKEGNMDAVLNVLTEMA  751 (766)
Q Consensus       725 ~~~~~l~~~~~~~g~~~~A~~~~~~m~  751 (766)
                      ..+..++..+...|+.++|...+++..
T Consensus       256 ~a~~~l~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          256 QTRXTFQEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            566667777777777777776666543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.83  E-value=1.2e-06  Score=87.11  Aligned_cols=232  Identities=8%  Similarity=0.012  Sum_probs=162.4

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH----Hhc---CC
Q 004244          479 ELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQR--RITEACELFQEMLSRGMSPDEFTYTTLINAY----CTE---GD  549 (766)
Q Consensus       479 ~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~----~~~---g~  549 (766)
                      ..++|++.++.++..++. +...|+.-...+...|  +++++++.++.++... +-+..+|+.-...+    ...   ++
T Consensus        48 ~s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~  125 (306)
T 3dra_A           48 YSERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFD  125 (306)
T ss_dssp             CSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             CCHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCC
Confidence            335777777777776543 5566777777777777  8888888888887764 44555555544444    444   67


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH--HHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHh
Q 004244          550 IPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTM--EAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLK  627 (766)
Q Consensus       550 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~--~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~  627 (766)
                      +++++++++.+.+. .+-+..+|+--...+.+.|.++  ++++.++++++.. .-|...|+-..               .
T Consensus       126 ~~~EL~~~~~~l~~-~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~---------------~  188 (306)
T 3dra_A          126 PYREFDILEAMLSS-DPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRF---------------F  188 (306)
T ss_dssp             THHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHH---------------H
T ss_pred             HHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHH---------------H
Confidence            88888888888875 3557777777666777778777  8888888888752 23444554433               3


Q ss_pred             hhhhcCC------HHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHH-HHHHHHHHHHcC--CCCCHHHHHHHHH
Q 004244          628 GFCMKGL------MNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQK-AYDLYKKMVRSG--FVPHTVTIIVLVK  697 (766)
Q Consensus       628 ~~~~~g~------~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~-A~~~~~~m~~~~--~~p~~~~~~~l~~  697 (766)
                      .....|+      ++++++.+++++..  .| |...|+.+...+.+.|+..+ +.++.+++.+.+  -..+...+..++.
T Consensus       189 ll~~l~~~~~~~~~~eEl~~~~~aI~~--~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~  266 (306)
T 3dra_A          189 LLFSKKHLATDNTIDEELNYVKDKIVK--CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAK  266 (306)
T ss_dssp             HHHSSGGGCCHHHHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHH
T ss_pred             HHHhccccchhhhHHHHHHHHHHHHHh--CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHH
Confidence            3334444      88999999999875  35 88899999888888888544 556777665322  1335577888899


Q ss_pred             HHHhcCChHHHHHHHHHHHH-cCCCChHHHHHHHHH
Q 004244          698 ALHTAGMNEELSQVIENILR-SCRLSDAELAKVLVE  732 (766)
Q Consensus       698 ~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~l~~  732 (766)
                      .+.+.|+.++|+++++++.+ .+ |.....|...+.
T Consensus       267 ~~~~~~~~~~A~~~~~~l~~~~D-pir~~yW~~~~~  301 (306)
T 3dra_A          267 IYTQQKKYNESRTVYDLLKSKYN-PIRSNFWDYQIS  301 (306)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTC-GGGHHHHHHHHH
T ss_pred             HHHccCCHHHHHHHHHHHHhccC-hHHHHHHHHHHh
Confidence            99999999999999999987 46 566777765444

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.82  E-value=9.6e-07  Score=87.85  Aligned_cols=223  Identities=7%  Similarity=-0.003  Sum_probs=171.4

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC--ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH----Hhc--
Q 004244          511 EQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEG--DIPQALRLHDEMIQKGFLPDVVTYSVLINGL----NKQ--  582 (766)
Q Consensus       511 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~----~~~--  582 (766)
                      +....++|+++++.++..+ +-+...|+.-...+...|  ++++++++++.++... +-+..+|+.-...+    ...  
T Consensus        45 ~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~  122 (306)
T 3dra_A           45 AEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNN  122 (306)
T ss_dssp             TTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTT
T ss_pred             cCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccc
Confidence            3345579999999999875 556677888888888888  9999999999999863 44555665544444    444  


Q ss_pred             -CCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHH--HHHHHHHHHHhCCCCCCHHHHHH
Q 004244          583 -ARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMN--EADRVFELMLQRNHMPNEAVYDI  659 (766)
Q Consensus       583 -g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~--~A~~~~~~~~~~~~~p~~~~~~~  659 (766)
                       +++++++++++++++. .+.+...|+-..               ..+.+.|+++  ++++.++++++... -|...|+.
T Consensus       123 ~~~~~~EL~~~~~~l~~-~pkny~aW~~R~---------------~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~  185 (306)
T 3dra_A          123 DFDPYREFDILEAMLSS-DPKNHHVWSYRK---------------WLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSH  185 (306)
T ss_dssp             CCCTHHHHHHHHHHHHH-CTTCHHHHHHHH---------------HHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh-CCCCHHHHHHHH---------------HHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHHH
Confidence             7899999999999985 234555665555               5566677877  99999999998542 28888888


Q ss_pred             HHHHHhccCC------hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHH-HHHHHHHHHHcC--CCChHHHHHHH
Q 004244          660 IIHGHSKVGN------VQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEE-LSQVIENILRSC--RLSDAELAKVL  730 (766)
Q Consensus       660 l~~~~~~~g~------~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~--~~~~~~~~~~l  730 (766)
                      -...+...|.      ++++++.+++++... +-|...|+.+...+.+.|+..+ +..+.+++.+.+  .+.....+..+
T Consensus       186 R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l  264 (306)
T 3dra_A          186 RFFLLFSKKHLATDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETL  264 (306)
T ss_dssp             HHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHH
T ss_pred             HHHHHHhccccchhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHH
Confidence            8888887777      899999999999653 4455888888888888888544 556777776543  24456778889


Q ss_pred             HHHHhcCCChhHHHHHHHHHHHC
Q 004244          731 VEINHKEGNMDAVLNVLTEMAKD  753 (766)
Q Consensus       731 ~~~~~~~g~~~~A~~~~~~m~~~  753 (766)
                      +++|.+.|+.++|.++++++.++
T Consensus       265 a~~~~~~~~~~~A~~~~~~l~~~  287 (306)
T 3dra_A          265 AKIYTQQKKYNESRTVYDLLKSK  287 (306)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHccCCHHHHHHHHHHHHhc
Confidence            99999999999999999998863

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.81  E-value=9.6e-08  Score=95.52  Aligned_cols=169  Identities=14%  Similarity=0.086  Sum_probs=131.2

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHH
Q 004244          531 SPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTL  610 (766)
Q Consensus       531 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~l  610 (766)
                      +.+...+..+...+...|++++|...+++..+. .+.+...+..+...+...|++++|...++++...  .|+.......
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~-~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQL-SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHH
Confidence            344556677778888899999999999988876 2456778888888999999999999999888763  4554433333


Q ss_pred             hhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCC-CCH
Q 004244          611 IENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFV-PHT  689 (766)
Q Consensus       611 l~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~-p~~  689 (766)
                      ..              ..+...++.++|+..+++..+.. +.+...+..++..+...|++++|++.++++++.... .+.
T Consensus       191 ~~--------------~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~  255 (287)
T 3qou_A          191 AQ--------------IELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADG  255 (287)
T ss_dssp             HH--------------HHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGG
T ss_pred             HH--------------HHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccc
Confidence            21              34667778888999999988753 227888999999999999999999999999865311 125


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 004244          690 VTIIVLVKALHTAGMNEELSQVIENILR  717 (766)
Q Consensus       690 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  717 (766)
                      ..+..++..+...|+.++|...+++.+.
T Consensus       256 ~a~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          256 QTRXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            6788899999999999999999988775

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.80  E-value=1.4e-08  Score=90.44  Aligned_cols=124  Identities=7%  Similarity=-0.133  Sum_probs=105.1

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  705 (766)
                      ..+...|++++|+..++.....  .| +...+..++..|.+.|++++|++.|+++++.. +-+..+|..++.++...|++
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCch
Confidence            5677889999999999998763  34 56677889999999999999999999999653 33458899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHH-HHHHHHCC
Q 004244          706 EELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNV-LTEMAKDG  754 (766)
Q Consensus       706 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~-~~~m~~~~  754 (766)
                      ++|+..++++++.+ |.+..++..++.+|.+.|++++|.+. +++..+..
T Consensus        82 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~  130 (150)
T 4ga2_A           82 DKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF  130 (150)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC
Confidence            99999999999998 67788999999999999999887765 57777654

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.80  E-value=7.8e-08  Score=106.77  Aligned_cols=154  Identities=13%  Similarity=0.040  Sum_probs=112.3

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHH
Q 004244          582 QARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDI  659 (766)
Q Consensus       582 ~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~  659 (766)
                      .|++++|.+.+++.++.  .|+ ...+..+.               ..+...|++++|++.+++..+.  .| +...|..
T Consensus         2 ~g~~~~A~~~~~~al~~--~p~~~~~~~~lg---------------~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~   62 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH--RPQDFVAWLMLA---------------DAELGMGDTTAGEMAVQRGLAL--HPGHPEAVAR   62 (568)
T ss_dssp             ---------------------CCHHHHHHHH---------------HHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHh--CCCCHHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence            46788888888888764  343 44455554               7888899999999999999885  34 6888899


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcC--
Q 004244          660 IIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKE--  737 (766)
Q Consensus       660 l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--  737 (766)
                      ++.+|...|++++|++.++++++.. +.+...+..++..+...|++++|...++++++.+ +.+...+..++.++...  
T Consensus        63 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~  140 (568)
T 2vsy_A           63 LGRVRWTQQRHAEAAVLLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCD  140 (568)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhc
Confidence            9999999999999999999998653 3345788889999999999999999999999987 56677888899999999  


Q ss_pred             -CChhHHHHHHHHHHHCCCC
Q 004244          738 -GNMDAVLNVLTEMAKDGLL  756 (766)
Q Consensus       738 -g~~~~A~~~~~~m~~~~~~  756 (766)
                       |+.++|.+.+++..+.+..
T Consensus       141 ~g~~~~A~~~~~~al~~~p~  160 (568)
T 2vsy_A          141 WRALDVLSAQVRAAVAQGVG  160 (568)
T ss_dssp             CTTHHHHHHHHHHHHHHTCC
T ss_pred             cccHHHHHHHHHHHHhcCCc
Confidence             9999999999998876643

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.80  E-value=4.9e-08  Score=89.64  Aligned_cols=76  Identities=18%  Similarity=0.206  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-hHHHHHHHHHHHhcCCChhHHHHHHHHH
Q 004244          673 AYDLYKKMVRSGFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSCRLS-DAELAKVLVEINHKEGNMDAVLNVLTEM  750 (766)
Q Consensus       673 A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m  750 (766)
                      |++.++++++.  .|+ ...+..++..+...|++++|+..++++++.+|.+ +...+..++.++...|+.++|...+++.
T Consensus        93 a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~a  170 (176)
T 2r5s_A           93 ELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQ  170 (176)
T ss_dssp             HHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHH
Confidence            44445544432  222 3444445555555555555555555555554322 2334445555555555555555555443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.80  E-value=1.7e-07  Score=88.61  Aligned_cols=136  Identities=13%  Similarity=0.055  Sum_probs=93.7

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004244          468 STIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTE  547 (766)
Q Consensus       468 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  547 (766)
                      ..+...|.+.|++++|+..|++..+..+. +...+..+...+...|++++|+..|++.++.. +.+..++..+...|...
T Consensus        58 ~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~  135 (208)
T 3urz_A           58 TELALAYKKNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLT  135 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHH
Confidence            34777888888888888888888877543 67788888888888899999999888888864 55677788888777655


Q ss_pred             CC--hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHH
Q 004244          548 GD--IPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNT  609 (766)
Q Consensus       548 g~--~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~  609 (766)
                      |+  .+.+...++....  ..|....+.....++...|++++|+..|++.++  ..|+......
T Consensus       136 ~~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~  195 (208)
T 3urz_A          136 AEQEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKT  195 (208)
T ss_dssp             HHHHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHHH
Confidence            53  3444555554432  122223344445556678889999999998887  4666544433

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.80  E-value=7.4e-08  Score=97.50  Aligned_cols=91  Identities=9%  Similarity=-0.053  Sum_probs=51.4

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHc----CCCCCH-HHHHHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQR----NHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRS----GFVPHT-VTIIVLV  696 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~----~~~p~~-~~~~~l~  696 (766)
                      ..|.. |++++|+..|++.++.    +..+ ...++..++..|.+.|++++|++.++++++.    +..+.. ..+..++
T Consensus       124 ~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g  202 (307)
T 2ifu_A          124 KLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQV  202 (307)
T ss_dssp             HHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Confidence            45555 6666666666665531    1000 1345666667777777777777777776532    111111 2444555


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcC
Q 004244          697 KALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       697 ~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      ..+...|++++|...+++++ ..
T Consensus       203 ~~~~~~g~~~~A~~~~~~al-~~  224 (307)
T 2ifu_A          203 LVQLHRADYVAAQKCVRESY-SI  224 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHT-TS
T ss_pred             HHHHHcCCHHHHHHHHHHHh-CC
Confidence            55666677777777777776 54

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.78  E-value=1.7e-06  Score=86.72  Aligned_cols=163  Identities=13%  Similarity=-0.012  Sum_probs=123.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCC-CCcHH----hHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCC
Q 004244          575 LINGLNKQARTMEAKKLLLKLFYDES-VPSDV----IYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRN  649 (766)
Q Consensus       575 li~~~~~~g~~~~A~~l~~~~~~~~~-~p~~~----~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (766)
                      .+..+...|++++|.+++++...... .|+..    .+..+.               ..+...|++++|+..++++.+..
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~---------------~~~~~~~~~~~Ai~~~~~al~~~  145 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVA---------------AYVLKKVDYEYCILELKKLLNQQ  145 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHH---------------HHHTTSSCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHH---------------HHHHcccCHHHHHHHHHHHHHHh
Confidence            35667889999999999999887422 22221    111222               66778889999999999998742


Q ss_pred             CC-CC----HHHHHHHHHHHhccCChHHHHHHHHHHHH----c-CCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 004244          650 HM-PN----EAVYDIIIHGHSKVGNVQKAYDLYKKMVR----S-GFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       650 ~~-p~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~----~-~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      .. ++    ..+|+.++..|...|++++|++.++++++    . +..+.. .++..++..+...|++++|+.+++++++.
T Consensus       146 ~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~  225 (293)
T 3u3w_A          146 LTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEI  225 (293)
T ss_dssp             CCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            22 23    34689999999999999999999999883    1 222222 47788999999999999999999999875


Q ss_pred             C-----CCChHHHHHHHHHHHhcCCC-hhHHHHHHHHHHH
Q 004244          719 C-----RLSDAELAKVLVEINHKEGN-MDAVLNVLTEMAK  752 (766)
Q Consensus       719 ~-----~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~m~~  752 (766)
                      .     ...-..+|..++.+|.+.|+ +++|.+.+++...
T Consensus       226 ~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          226 SCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            2     12237789999999999995 6999999887653

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.75  E-value=5.8e-08  Score=109.76  Aligned_cols=184  Identities=10%  Similarity=-0.057  Sum_probs=145.8

Q ss_pred             HccCCHHHHHHHHHHHH--------HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004244          475 SRSQELDKAFDTKREMV--------EKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCT  546 (766)
Q Consensus       475 ~~~g~~~~A~~~~~~m~--------~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~  546 (766)
                      ...|++++|++.+++..        +.. ..+...+..+...+...|++++|+..++++.+.+ +.+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            78999999999999998        433 2366788889999999999999999999999875 5678899999999999


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHH
Q 004244          547 EGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAAL  625 (766)
Q Consensus       547 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l  625 (766)
                      .|++++|.+.|++.++.. +.+...|..+..++.+.|++++ ++.|++.++.  .|+ ...|..+.              
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~lg--------------  541 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWST--NDGVISAAFGLA--------------  541 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHHHH--------------
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHh--CCchHHHHHHHH--------------
Confidence            999999999999999862 4467888899999999999999 9999999874  443 44555555              


Q ss_pred             HhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHH-HHHHHHHH
Q 004244          626 LKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKA-YDLYKKMV  681 (766)
Q Consensus       626 ~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A-~~~~~~m~  681 (766)
                       ..+.+.|++++|++.|+++.+.  .| +...|..++.++...|+.+++ .+-++++.
T Consensus       542 -~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~  596 (681)
T 2pzi_A          542 -RARSAEGDRVGAVRTLDEVPPT--SRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAA  596 (681)
T ss_dssp             -HHHHHTTCHHHHHHHHHTSCTT--STTHHHHHHHHHHHTC-------CCHHHHHHHH
T ss_pred             -HHHHHcCCHHHHHHHHHhhccc--CcccHHHHHHHHHHHHccCCCCCCCHHHHHHHH
Confidence             7899999999999999999874  46 467788888888877775444 44444443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.75  E-value=5e-07  Score=86.65  Aligned_cols=202  Identities=15%  Similarity=0.109  Sum_probs=127.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCH----HH
Q 004244          498 DTITYSSLIHGLCEQRRITEACELFQEMLSRGMS-PD-EFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDV----VT  571 (766)
Q Consensus       498 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~----~~  571 (766)
                      +...+..+...+...|++++|+..|+++.+.... |. ...+..+..+|.+.|++++|+..|+++++.  .|+.    ..
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a   80 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYV   80 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHH
Confidence            4456667788899999999999999999986311 11 356778899999999999999999999976  2332    24


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCC
Q 004244          572 YSVLINGLNKQARTMEAKKLLLKLFYDE-SVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNH  650 (766)
Q Consensus       572 ~~~li~~~~~~g~~~~A~~l~~~~~~~~-~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (766)
                      +..+..++...|..     .+......+ ..-+..-+...+        ..+..++..+-.......|......+...  
T Consensus        81 ~~~~g~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~A~--------~~~~~~l~~~P~~~~a~~a~~~l~~~~~~--  145 (225)
T 2yhc_A           81 MYMRGLTNMALDDS-----ALQGFFGVDRSDRDPQQARAAF--------SDFSKLVRGYPNSQYTTDATKRLVFLKDR--  145 (225)
T ss_dssp             HHHHHHHHHHHHC-------------------CCHHHHHHH--------HHHHHHHTTCTTCTTHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHhhhhh-----hhhhhhccchhhcCcHHHHHHH--------HHHHHHHHHCcCChhHHHHHHHHHHHHHH--
Confidence            44555555444321     111111110 000100111111        11222224444444444554444333321  


Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 004244          651 MPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT----VTIIVLVKALHTAGMNEELSQVIENILRSCR  720 (766)
Q Consensus       651 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  720 (766)
                        -......++..|.+.|++++|+..|+++++.  .|+.    ..+..++.++.+.|+.++|+..++++...++
T Consensus       146 --~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~  215 (225)
T 2yhc_A          146 --LAKYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSS  215 (225)
T ss_dssp             --HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCS
T ss_pred             --HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence              1223346778899999999999999999865  3432    5678899999999999999999999888764

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.74  E-value=8e-08  Score=88.18  Aligned_cols=163  Identities=13%  Similarity=0.124  Sum_probs=114.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhch
Q 004244          537 YTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTN  616 (766)
Q Consensus       537 ~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~  616 (766)
                      +..+...+.+.|++++|...+++.++. .+.+...+..+...+...|++++|...+++....  .|+... ..+...   
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~-~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~-~~~~~~---   81 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDE-LQSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSY-KSLIAK---   81 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHH-HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHH-HHHHHH---
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH-CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHH-HHHHHH---
Confidence            445566677888888888888877654 2345677777888888888888888888877653  233322 222210   


Q ss_pred             hhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCC-CHHHHHH
Q 004244          617 IEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVP-HTVTIIV  694 (766)
Q Consensus       617 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~  694 (766)
                                -.+...+...+|+..+++..+.  .| +...+..++.++...|++++|+..++++++....+ +...+..
T Consensus        82 ----------~~~~~~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~  149 (176)
T 2r5s_A           82 ----------LELHQQAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKT  149 (176)
T ss_dssp             ----------HHHHHHHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHH
T ss_pred             ----------HHHHhhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHH
Confidence                      0111222334578888888874  35 68888899999999999999999999998543222 2457888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHc
Q 004244          695 LVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       695 l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      ++..+...|+.++|...+++++..
T Consensus       150 l~~~~~~~g~~~~A~~~y~~al~~  173 (176)
T 2r5s_A          150 FMDILSALGQGNAIASKYRRQLYS  173 (176)
T ss_dssp             HHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCcHHHHHHHHHHH
Confidence            899999999999999999988753

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.73  E-value=6.7e-08  Score=85.58  Aligned_cols=102  Identities=5%  Similarity=-0.101  Sum_probs=74.3

Q ss_pred             CC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHH
Q 004244          651 MP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKV  729 (766)
Q Consensus       651 ~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  729 (766)
                      .| +...+..++..+.+.|++++|++.|+++++.. +.+...|..++.++...|++++|+..|+++++.+ |.++..|..
T Consensus        32 ~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~  109 (151)
T 3gyz_A           32 PDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFH  109 (151)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHH
Confidence            34 45566777777777888888888888777542 2345677777777778888888888888888777 556667777


Q ss_pred             HHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          730 LVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       730 l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      ++.+|.+.|++++|.+.|++..+..
T Consensus       110 lg~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          110 TGQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            7888888888888888887776654

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.73  E-value=1.7e-07  Score=104.01  Aligned_cols=152  Identities=12%  Similarity=0.030  Sum_probs=85.1

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHH
Q 004244          548 GDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALL  626 (766)
Q Consensus       548 g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~  626 (766)
                      |++++|.+.+++..+. .+.+...|..+...+...|++++|.+.+++.++.  .|+ ...+..+.               
T Consensus         3 g~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg---------------   64 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRH-RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLG---------------   64 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHH---------------
T ss_pred             ccHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHH---------------
Confidence            5566666666666544 1334556666666666666666666666666653  232 33333333               


Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc---C
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTA---G  703 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~---g  703 (766)
                      ..|...|++++|.+.+++..+.. +.+...+..++.+|.+.|++++|++.++++++.. +.+...+..++..+...   |
T Consensus        65 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g  142 (568)
T 2vsy_A           65 RVRWTQQRHAEAAVLLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWR  142 (568)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccc
Confidence            56666777777777777766632 1256667777777777777777777777776542 22345666677777777   7


Q ss_pred             ChHHHHHHHHHHHHcC
Q 004244          704 MNEELSQVIENILRSC  719 (766)
Q Consensus       704 ~~~~A~~~~~~~~~~~  719 (766)
                      +.++|...++++++.+
T Consensus       143 ~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A          143 ALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             THHHHHHHHHHHHHHT
T ss_pred             cHHHHHHHHHHHHhcC
Confidence            7777777777777766

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.73  E-value=2.5e-07  Score=79.27  Aligned_cols=103  Identities=18%  Similarity=0.142  Sum_probs=82.1

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  705 (766)
                      ..|.+.|++++|++.|++.++.  .| +..+|..++.+|.+.|++++|++.++++++.. +.+...|..++.++...|++
T Consensus        21 ~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~   97 (126)
T 4gco_A           21 NEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVAMREW   97 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHHCCCH
Confidence            6788889999999999888874  34 77888888888889999999999998888653 33457788888888889999


Q ss_pred             HHHHHHHHHHHHcCCCChHHHHHHHHHH
Q 004244          706 EELSQVIENILRSCRLSDAELAKVLVEI  733 (766)
Q Consensus       706 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~  733 (766)
                      ++|+..++++++.+ |.+..++..|..+
T Consensus        98 ~~A~~~~~~al~l~-P~~~~a~~~l~~~  124 (126)
T 4gco_A           98 SKAQRAYEDALQVD-PSNEEAREGVRNC  124 (126)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHC-cCCHHHHHHHHHh
Confidence            99999999998887 5566666666554

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.72  E-value=1.3e-07  Score=81.08  Aligned_cols=104  Identities=8%  Similarity=-0.118  Sum_probs=91.9

Q ss_pred             CCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHH
Q 004244          650 HMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAK  728 (766)
Q Consensus       650 ~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  728 (766)
                      +.| ....+...+..|.+.|++++|++.|+++++.. +.+...|..++.++...|++++|+..++++++.+ |.+...|.
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~   85 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYI   85 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHH
Confidence            456 35678889999999999999999999999653 3456888999999999999999999999999998 67788899


Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          729 VLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       729 ~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      .++.+|...|++++|.+.+++..+..+
T Consensus        86 ~lg~~~~~~~~~~~A~~~~~~al~l~P  112 (126)
T 4gco_A           86 RKAACLVAMREWSKAQRAYEDALQVDP  112 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCc
Confidence            999999999999999999999887643

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.71  E-value=1.2e-07  Score=95.85  Aligned_cols=124  Identities=14%  Similarity=-0.042  Sum_probs=95.0

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhC---CCCC--CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCC---CCC--HHHHHHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQR---NHMP--NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGF---VPH--TVTIIVLV  696 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~---~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~---~p~--~~~~~~l~  696 (766)
                      ..|...|++++|+..|++.++.   .-.|  ...++..+...|.. |++++|++.++++++...   .+.  ..++..++
T Consensus        84 ~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg  162 (307)
T 2ifu_A           84 MMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKAS  162 (307)
T ss_dssp             HHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            6777888888888888877642   1112  24577888999988 999999999999874210   111  36778899


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCC-----hHHHHHHHHHHHhcCCChhHHHHHHHHHH
Q 004244          697 KALHTAGMNEELSQVIENILRSCRLS-----DAELAKVLVEINHKEGNMDAVLNVLTEMA  751 (766)
Q Consensus       697 ~~~~~~g~~~~A~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  751 (766)
                      ..+...|++++|+.+++++++..+..     ....+..++.++...|++++|...+++..
T Consensus       163 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          163 RLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            99999999999999999999863111     13467778888899999999999999988

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.67  E-value=4.6e-07  Score=85.92  Aligned_cols=124  Identities=10%  Similarity=-0.059  Sum_probs=108.7

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNE  706 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  706 (766)
                      ..+...|++++|+..|+++.    .|+...|..++.+|...|++++|++.++++++.. +.+...+..++..+...|+++
T Consensus        14 ~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~   88 (213)
T 1hh8_A           14 VLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYD   88 (213)
T ss_dssp             HHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHH
Confidence            67889999999999998874    4688899999999999999999999999998653 345678889999999999999


Q ss_pred             HHHHHHHHHHHcCCC---------------ChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          707 ELSQVIENILRSCRL---------------SDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       707 ~A~~~~~~~~~~~~~---------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      +|+..++++++..+.               .....+..++.++.+.|++++|.+.+++..+...
T Consensus        89 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           89 LAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             HHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            999999999997532               2347889999999999999999999999988764

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.67  E-value=9.3e-08  Score=84.74  Aligned_cols=96  Identities=7%  Similarity=-0.007  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Q 004244          655 AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEIN  734 (766)
Q Consensus       655 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  734 (766)
                      ..+..++..+.+.|++++|++.|++++... +.+...|..++.++...|++++|+..++++++.+ |.+...+..++.+|
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHH
Confidence            334444444445555555555555444321 1233444444444445555555555555554444 33334444445555


Q ss_pred             hcCCChhHHHHHHHHHHH
Q 004244          735 HKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       735 ~~~g~~~~A~~~~~~m~~  752 (766)
                      ...|++++|.+.+++..+
T Consensus       100 ~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            555555555555444433

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.62  E-value=1.3e-06  Score=82.70  Aligned_cols=128  Identities=9%  Similarity=-0.096  Sum_probs=74.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC
Q 004244          573 SVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP  652 (766)
Q Consensus       573 ~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  652 (766)
                      ..+...+...|++++|.+.|++.+    .|+...+..+.               ..|...|++++|+..+++..+.. +.
T Consensus        10 ~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg---------------~~~~~~g~~~~A~~~~~~al~~~-~~   69 (213)
T 1hh8_A           10 WNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIG---------------CMYTILKNMTEAEKAFTRSINRD-KH   69 (213)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHH---------------HHHHHcCCHHHHHHHHHHHHHhC-cc
Confidence            334445556666666666666552    33444444444               55666666666666666666532 12


Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcC--------------CCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSG--------------FVPH-TVTIIVLVKALHTAGMNEELSQVIENILR  717 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~--------------~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  717 (766)
                      +...|..++.+|...|++++|++.++++++..              ..|+ ...+..++.++...|++++|...++++++
T Consensus        70 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  149 (213)
T 1hh8_A           70 LAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  149 (213)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            55566666666666666666666666666432              1111 14556666667777777777777777776


Q ss_pred             cCC
Q 004244          718 SCR  720 (766)
Q Consensus       718 ~~~  720 (766)
                      ..+
T Consensus       150 ~~p  152 (213)
T 1hh8_A          150 MKS  152 (213)
T ss_dssp             TCC
T ss_pred             cCc
Confidence            653

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.62  E-value=8.4e-06  Score=81.64  Aligned_cols=164  Identities=10%  Similarity=0.030  Sum_probs=119.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHCC-CCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CcH----HhHHH
Q 004244          540 LINAYCTEGDIPQALRLHDEMIQKG-FLPDV----VTYSVLINGLNKQARTMEAKKLLLKLFYDESV-PSD----VIYNT  609 (766)
Q Consensus       540 l~~~~~~~g~~~~A~~~~~~~~~~g-~~p~~----~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~-p~~----~~~~~  609 (766)
                      .+..+...|++++|..++++..+.. ..|+.    ..+..+...+...|++++|+..+++.+..... ++.    ..++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            4566788899999999998887642 12221    12334666667788999999999998874222 221    13444


Q ss_pred             HhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHh----C-CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHc
Q 004244          610 LIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQ----R-NHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRS  683 (766)
Q Consensus       610 ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  683 (766)
                      +.               ..|...|++++|+..|+++.+    . +..+ ...+|..++..|.+.|++++|++.++++++.
T Consensus       161 lg---------------~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~  225 (293)
T 3u3w_A          161 IA---------------NIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEI  225 (293)
T ss_dssp             HH---------------HHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HH---------------HHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            44               788999999999999998873    1 1222 2447889999999999999999999998742


Q ss_pred             ----CCCCC-HHHHHHHHHHHHhcCC-hHHHHHHHHHHHHc
Q 004244          684 ----GFVPH-TVTIIVLVKALHTAGM-NEELSQVIENILRS  718 (766)
Q Consensus       684 ----~~~p~-~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~~  718 (766)
                          +..+. ..++..++.++.+.|+ +++|...+++++..
T Consensus       226 ~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          226 SCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence                22222 4678889999999995 69999999998864

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.61  E-value=1.5e-06  Score=84.22  Aligned_cols=199  Identities=8%  Similarity=-0.095  Sum_probs=136.6

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHH-------HHHHHhcCChHHHHHHHHHHHHCCCCCC---------------
Q 004244          511 EQRRITEACELFQEMLSRGMSPDEFTYTTL-------INAYCTEGDIPQALRLHDEMIQKGFLPD---------------  568 (766)
Q Consensus       511 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l-------~~~~~~~g~~~~A~~~~~~~~~~g~~p~---------------  568 (766)
                      ..++..+|.+.|.++.... +-....|..+       ...+.+.++..+++..+..-..  +.|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            4677777777777777764 4445566666       3445555555555554444443  1111               


Q ss_pred             -------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHH
Q 004244          569 -------VVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRV  641 (766)
Q Consensus       569 -------~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  641 (766)
                             ...+..+...+...|++++|.++|+.+...  .|+......+.               ..+.+.|++++|+..
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a---------------~l~~~~~r~~dA~~~  157 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKA---------------VVYGAAERWTDVIDQ  157 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHH---------------HHHHHTTCHHHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHH---------------HHHHHcCCHHHHHHH
Confidence                   233445677788899999999999888763  35544332222               578899999999999


Q ss_pred             HHHHHhCCCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 004244          642 FELMLQRNHMPN--EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH--TVTIIVLVKALHTAGMNEELSQVIENILR  717 (766)
Q Consensus       642 ~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  717 (766)
                      |+...... .|.  ...+..+..++.+.|++++|+..|++.......|.  ...+...+.++.+.|+.++|...|++++.
T Consensus       158 l~~a~~~~-d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a  236 (282)
T 4f3v_A          158 VKSAGKWP-DKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQT  236 (282)
T ss_dssp             HTTGGGCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhhccC-CcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            98665531 121  34677889999999999999999999874332254  34677788889999999999999999999


Q ss_pred             cCCCChHHHHHHHHH
Q 004244          718 SCRLSDAELAKVLVE  732 (766)
Q Consensus       718 ~~~~~~~~~~~~l~~  732 (766)
                      .+|.  ..++..|.+
T Consensus       237 ~~P~--~~~~~aL~~  249 (282)
T 4f3v_A          237 THPE--PKVAAALKD  249 (282)
T ss_dssp             HSCC--HHHHHHHHC
T ss_pred             cCCc--HHHHHHHhC
Confidence            9843  666655543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.61  E-value=3.6e-06  Score=84.38  Aligned_cols=171  Identities=13%  Similarity=-0.013  Sum_probs=119.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCC
Q 004244          571 TYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNH  650 (766)
Q Consensus       571 ~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (766)
                      .+...+..+...|++++|.+.+.+.++.... .......+.         ....+...+...|++++|+..+++..+...
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~-~~~~~~~~~---------~~~~~~~~~~~~~~~~~A~~~~~~al~~~~  146 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEY-HPEFQQFLQ---------WQYYVAAYVLKKVDYEYCILELKKLLNQQL  146 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCC-CHHHHHHHH---------HHHHHHHHHHTSSCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccC-ChhHHHHHH---------HHHHHHHHHhcCCCHHHHHHHHHHHHHHHh
Confidence            3444566677888888888888877764222 111100000         001112567788899999999998875321


Q ss_pred             ---CCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHc-CCCCC-----HHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          651 ---MPN--EAVYDIIIHGHSKVGNVQKAYDLYKKMVRS-GFVPH-----TVTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       651 ---~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~-~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                         .+.  ..+|+.++..|...|++++|++.++++++. ...|+     ..++..++..+...|++++|..+++++++..
T Consensus       147 ~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~  226 (293)
T 2qfc_A          147 TGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEIS  226 (293)
T ss_dssp             CSSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             cCCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence               122  457889999999999999999999998721 01122     1577889999999999999999999988653


Q ss_pred             C-----CChHHHHHHHHHHHhcCCChhHH-HHHHHHHH
Q 004244          720 R-----LSDAELAKVLVEINHKEGNMDAV-LNVLTEMA  751 (766)
Q Consensus       720 ~-----~~~~~~~~~l~~~~~~~g~~~~A-~~~~~~m~  751 (766)
                      .     .....+|..++.+|.+.|++++| ...+++..
T Consensus       227 ~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          227 CRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            1     11367889999999999999999 77677654

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.57  E-value=1.3e-06  Score=78.69  Aligned_cols=122  Identities=7%  Similarity=-0.050  Sum_probs=102.3

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNE  706 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  706 (766)
                      ..+...|++++|...|++..+.. +.+..++..++.++...|++++|++.+++.++.. +.+...+..++..+...|+++
T Consensus        21 ~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~   98 (166)
T 1a17_A           21 NDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   98 (166)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhccHH
Confidence            77889999999999999999753 2378889999999999999999999999998653 345678889999999999999


Q ss_pred             HHHHHHHHHHHcCCCChHHHHH--HHHHHHhcCCChhHHHHHHHHHH
Q 004244          707 ELSQVIENILRSCRLSDAELAK--VLVEINHKEGNMDAVLNVLTEMA  751 (766)
Q Consensus       707 ~A~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~g~~~~A~~~~~~m~  751 (766)
                      +|...++++++.. +.+...+.  .++..+.+.|++++|.+.+.+..
T Consensus        99 ~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           99 AALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            9999999999987 44455553  44455888999999999987754

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.57  E-value=6.2e-07  Score=86.99  Aligned_cols=205  Identities=11%  Similarity=-0.064  Sum_probs=145.7

Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHH-------HHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHH-hhhhchh
Q 004244          546 TEGDIPQALRLHDEMIQKGFLPDVVTYSVL-------INGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTL-IENCTNI  617 (766)
Q Consensus       546 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l-------i~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~l-l~~~~~~  617 (766)
                      ..++.+.|.+.|.++.+.. +-....|..+       ...+...++..+++..+.+.+.  +.|+......- .+-++.+
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            6899999999999999862 4456788777       4666666666777766666654  34443221111 0000000


Q ss_pred             hh------hhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC--H
Q 004244          618 EF------QNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH--T  689 (766)
Q Consensus       618 ~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~--~  689 (766)
                      ++      +........+...|++++|.++|+.+...+  |+......+...+.+.|+|++|+..|++..... .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence            00      111223367888999999999999988743  644366677778999999999999998665321 121  2


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CC-hHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCC
Q 004244          690 VTIIVLVKALHTAGMNEELSQVIENILRSCR-LS-DAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLL  756 (766)
Q Consensus       690 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  756 (766)
                      ..+..+..++...|++++|+..++++..... |. .......++.++.+.|+.++|...|+++.+.+..
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~  240 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE  240 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc
Confidence            4677889999999999999999999986432 22 5567788999999999999999999999887653

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.57  E-value=7.5e-07  Score=83.60  Aligned_cols=157  Identities=12%  Similarity=-0.008  Sum_probs=97.1

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHh----CCCCC-CH
Q 004244          580 NKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQ----RNHMP-NE  654 (766)
Q Consensus       580 ~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~p-~~  654 (766)
                      ...|++++|.+.++.+... .......+..+.               ..+...|++++|...+++..+    .+..| ..
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~---------------~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   66 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLG---------------YVYAFMDRFDEARASFQALQQQAQKSGDHTAEH   66 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHH---------------HHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHH
Confidence            3567777777744444321 112233333333               677778888888888877764    22222 34


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHc----CCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC--C-CC--h
Q 004244          655 AVYDIIIHGHSKVGNVQKAYDLYKKMVRS----GFVP--HTVTIIVLVKALHTAGMNEELSQVIENILRSC--R-LS--D  723 (766)
Q Consensus       655 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~----~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~-~~--~  723 (766)
                      .++..+...+...|++++|.+.+++.++.    +-.|  ....+..++..+...|++++|...++++++..  . .+  .
T Consensus        67 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  146 (203)
T 3gw4_A           67 RALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAI  146 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHH
Confidence            56777778888888888888888876632    1111  12456677777888888888888888877541  1 11  1


Q ss_pred             HHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          724 AELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       724 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      ...+..++.++...|++++|.+.+++..+
T Consensus       147 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          147 ACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            33456777888888888888887776554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.56  E-value=5.7e-07  Score=79.55  Aligned_cols=91  Identities=15%  Similarity=0.082  Sum_probs=77.8

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  705 (766)
                      ..+...|++++|+..|+++++.  .| +...|..++.+|...|++++|++.|+++++.. +.+...|..++.++...|++
T Consensus        44 ~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~~~lg~~  120 (151)
T 3gyz_A           44 YDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQLRLKAP  120 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCH
Confidence            6788899999999999999884  35 78889999999999999999999999998653 23457888899999999999


Q ss_pred             HHHHHHHHHHHHcCC
Q 004244          706 EELSQVIENILRSCR  720 (766)
Q Consensus       706 ~~A~~~~~~~~~~~~  720 (766)
                      ++|+..|+++++..+
T Consensus       121 ~eA~~~~~~al~l~~  135 (151)
T 3gyz_A          121 LKAKECFELVIQHSN  135 (151)
T ss_dssp             HHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHhCC
Confidence            999999999999873

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.56  E-value=4.1e-07  Score=83.40  Aligned_cols=127  Identities=8%  Similarity=0.038  Sum_probs=104.7

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHhcCCh
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKA-LHTAGMN  705 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~-~~~~g~~  705 (766)
                      ..+...|++++|+..+++..+.. +.+...|..++..|...|++++|++.++++++.. +.+...+..++.. +...|++
T Consensus        18 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~   95 (177)
T 2e2e_A           18 HQFASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQH   95 (177)
T ss_dssp             CCCC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTC
T ss_pred             hhhhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCc
Confidence            44667899999999999988753 2378899999999999999999999999998653 3355777888888 7789998


Q ss_pred             --HHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCC
Q 004244          706 --EELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLL  756 (766)
Q Consensus       706 --~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  756 (766)
                        ++|...++++++.+ |.+...+..++.+|...|++++|...++++.+....
T Consensus        96 ~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~  147 (177)
T 2e2e_A           96 MTAQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLNSP  147 (177)
T ss_dssp             CCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCT
T ss_pred             chHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCC
Confidence              99999999999997 566788889999999999999999999999887654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.54  E-value=1.6e-06  Score=74.69  Aligned_cols=110  Identities=15%  Similarity=0.026  Sum_probs=93.3

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNE  706 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  706 (766)
                      ..+...|++++|+..++++.+.. +.+...+..++.++...|++++|++.++++++.. +.+...+..++..+...|+++
T Consensus        24 ~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~  101 (133)
T 2lni_A           24 NECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAALEAMKDYT  101 (133)
T ss_dssp             HHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHHhhHH
Confidence            78889999999999999999753 2278889999999999999999999999998653 345678888999999999999


Q ss_pred             HHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCC
Q 004244          707 ELSQVIENILRSCRLSDAELAKVLVEINHKEGN  739 (766)
Q Consensus       707 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  739 (766)
                      +|...++++++.. +.+...+..++.++...|+
T Consensus       102 ~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A          102 KAMDVYQKALDLD-SSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhC-CCchHHHHHHHHHHHHhcC
Confidence            9999999999987 5566777788888876664

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.54  E-value=3.6e-07  Score=90.97  Aligned_cols=192  Identities=10%  Similarity=-0.048  Sum_probs=89.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhh
Q 004244          535 FTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPS-DVIYNTLIEN  613 (766)
Q Consensus       535 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~  613 (766)
                      ..+..+...+.+.|++++|...+++.++. .+.+...|..+..++.+.|++++|...+++.++.  .|+ ...+..+.  
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg--   79 (281)
T 2c2l_A            5 QELKEQGNRLFVGRKYPEAAACYGRAITR-NPLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLG--   79 (281)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHH--
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHH--
Confidence            34444555555555555555555555543 1224455555555555555555555555555542  222 22222222  


Q ss_pred             hchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHH
Q 004244          614 CTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTI  692 (766)
Q Consensus       614 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  692 (766)
                                   .+|...|++++|+..|+++.+..  | +...+...+....+   ..++.. +..........+....
T Consensus        80 -------------~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~i~  140 (281)
T 2c2l_A           80 -------------QCQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALR---IAKKKR-WNSIEERRIHQESELH  140 (281)
T ss_dssp             -------------HHHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHH---HHHHHH-HHHHHHTCCCCCCHHH
T ss_pred             -------------HHHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHH---HHHHHH-HHHHHHHHHhhhHHHH
Confidence                         45555566666666655555421  2 10011111111111   011111 1112222233333333


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcC-CChhHHHHHHHHHHHC
Q 004244          693 IVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKE-GNMDAVLNVLTEMAKD  753 (766)
Q Consensus       693 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~m~~~  753 (766)
                      ..+...  ..|+.++|++.++++++.+ +.+......+...+.+. +.+++|.++|.++.+.
T Consensus       141 ~~l~~l--~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          141 SYLTRL--IAAERERELEECQRNHEGH-EDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHHHH--HHHHHHHHHTTTSGGGTTT-SCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHH--HHHHHHHHHHHHHhhhccc-cchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            333222  2577777777777777665 44444445555555544 5667777777766553

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.53  E-value=9.9e-07  Score=73.30  Aligned_cols=103  Identities=13%  Similarity=0.043  Sum_probs=86.8

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC--hHHHHHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLS--DAELAKVL  730 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l  730 (766)
                      +...+..++..+...|++++|+..++++++.. +.+...+..++..+...|++++|...++++++.. +.  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            45667788888999999999999999988653 3455778888999999999999999999999887 55  67888899


Q ss_pred             HHHHhcC-CChhHHHHHHHHHHHCCCCC
Q 004244          731 VEINHKE-GNMDAVLNVLTEMAKDGLLP  757 (766)
Q Consensus       731 ~~~~~~~-g~~~~A~~~~~~m~~~~~~~  757 (766)
                      +.++... |++++|.+.+++..+.+...
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~p~~  110 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEHHHH  110 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGCCCC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhcccCC
Confidence            9999999 99999999999988877644

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.51  E-value=2.4e-06  Score=72.46  Aligned_cols=109  Identities=18%  Similarity=0.199  Sum_probs=90.1

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNE  706 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  706 (766)
                      ..+...|++++|.+.++++.+.. +.+..++..++..+...|++++|+..++++.+.. +.+..++..++..+...|+++
T Consensus        17 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~   94 (125)
T 1na0_A           17 NAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYD   94 (125)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHH
Confidence            78889999999999999998753 2367888899999999999999999999998653 345678888999999999999


Q ss_pred             HHHHHHHHHHHcCCCChHHHHHHHHHHHhcCC
Q 004244          707 ELSQVIENILRSCRLSDAELAKVLVEINHKEG  738 (766)
Q Consensus       707 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  738 (766)
                      +|..+++++++.. |.+...+..++.++...|
T Consensus        95 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           95 EAIEYYQKALELD-PNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHhcc
Confidence            9999999999987 556667777777765543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.51  E-value=2.2e-06  Score=73.49  Aligned_cols=111  Identities=13%  Similarity=-0.010  Sum_probs=95.7

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNE  706 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  706 (766)
                      ..+...|++++|+..++++.+.. +.+...+..++.++...|++++|++.++++.+.. +.+...+..++..+...|+++
T Consensus        20 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~   97 (131)
T 2vyi_A           20 NEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALSSLNKHV   97 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHHHhCCHH
Confidence            78889999999999999998753 2378889999999999999999999999998653 344678888999999999999


Q ss_pred             HHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCCh
Q 004244          707 ELSQVIENILRSCRLSDAELAKVLVEINHKEGNM  740 (766)
Q Consensus       707 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  740 (766)
                      +|...++++++.. |.+...+..++.++.+.|++
T Consensus        98 ~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           98 EAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            9999999999997 56677888899998888775

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.51  E-value=1.2e-06  Score=89.71  Aligned_cols=124  Identities=10%  Similarity=-0.000  Sum_probs=105.8

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCC--------------HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPN--------------EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTI  692 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~--------------~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  692 (766)
                      ..+.+.|++++|+..|++.++......              ..+|..++.+|.+.|++++|++.++++++.. +.+...+
T Consensus       155 ~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~  233 (336)
T 1p5q_A          155 TVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGL  233 (336)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHH
Confidence            788999999999999999998432211              5889999999999999999999999999653 3456888


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHH-HHHHHHHHH
Q 004244          693 IVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAV-LNVLTEMAK  752 (766)
Q Consensus       693 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A-~~~~~~m~~  752 (766)
                      ..++.++...|++++|+..++++++.. |.+..++..++.++.+.|+.++| .+++++|.+
T Consensus       234 ~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          234 SRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            899999999999999999999999998 56778889999999999999999 445565543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.48  E-value=2.1e-05  Score=78.71  Aligned_cols=166  Identities=11%  Similarity=0.071  Sum_probs=107.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHhcCChHHHHHHHHHHHHCCC---CCC--
Q 004244          500 ITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDE------FTYTTLINAYCTEGDIPQALRLHDEMIQKGF---LPD--  568 (766)
Q Consensus       500 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~---~p~--  568 (766)
                      ..+...+..+...|++++|.+.+++..+.... ..      ..+..+...+...|++++|...+++..+...   .+.  
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEY-HPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCC-CHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccC-ChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            34455666778888899998888887775322 22      2234456667788899999999998885421   122  


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCc-H----HhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHH
Q 004244          569 VVTYSVLINGLNKQARTMEAKKLLLKLFYD-ESVPS-D----VIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVF  642 (766)
Q Consensus       569 ~~~~~~li~~~~~~g~~~~A~~l~~~~~~~-~~~p~-~----~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  642 (766)
                      ..+|+.+...|...|++++|...+++.+.. ...|+ .    .++..+.               ..|...|++++|+..+
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg---------------~~y~~~~~y~~Al~~~  219 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHA---------------KALYLDSRYEESLYQV  219 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHH---------------HHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHH---------------HHHHHHhhHHHHHHHH
Confidence            457888899999999999999999988731 01111 1    2333333               6677777777777777


Q ss_pred             HHHHhCC----CCC-CHHHHHHHHHHHhccCChHHH-HHHHHHHH
Q 004244          643 ELMLQRN----HMP-NEAVYDIIIHGHSKVGNVQKA-YDLYKKMV  681 (766)
Q Consensus       643 ~~~~~~~----~~p-~~~~~~~l~~~~~~~g~~~~A-~~~~~~m~  681 (766)
                      ++..+..    ... -..+|..++.+|.+.|++++| ...++++.
T Consensus       220 ~kal~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          220 NKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            7665421    111 145566666667777777776 55566554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.48  E-value=1.3e-06  Score=76.74  Aligned_cols=92  Identities=9%  Similarity=-0.015  Sum_probs=47.8

Q ss_pred             HHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 004244          625 LLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAG  703 (766)
Q Consensus       625 l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g  703 (766)
                      +...+...|++++|+..|+++...  .| +...|..++.+|.+.|++++|+..|+++++.. +.+...+..++.++...|
T Consensus        24 ~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g  100 (142)
T 2xcb_A           24 LGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQLG  100 (142)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcC
Confidence            334455555555555555555542  22 44555555555555555555555555555432 222344445555555555


Q ss_pred             ChHHHHHHHHHHHHcC
Q 004244          704 MNEELSQVIENILRSC  719 (766)
Q Consensus       704 ~~~~A~~~~~~~~~~~  719 (766)
                      ++++|...++++++..
T Consensus       101 ~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A          101 DLDGAESGFYSARALA  116 (142)
T ss_dssp             CHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            5555555555555543

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.46  E-value=1.7e-06  Score=73.99  Aligned_cols=94  Identities=12%  Similarity=0.021  Sum_probs=57.6

Q ss_pred             HHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 004244          624 ALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAG  703 (766)
Q Consensus       624 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g  703 (766)
                      .+...+...|++++|+..|++.++.. +.+...|..++.++.+.|++++|++.++++++.. +.+...+..++.++...|
T Consensus         9 ~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~   86 (126)
T 3upv_A            9 LEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVK   86 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHh
Confidence            34455666666666766666666532 1155666666666666666666666666666432 223455666666666666


Q ss_pred             ChHHHHHHHHHHHHcC
Q 004244          704 MNEELSQVIENILRSC  719 (766)
Q Consensus       704 ~~~~A~~~~~~~~~~~  719 (766)
                      ++++|+..++++++.+
T Consensus        87 ~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           87 EYASALETLDAARTKD  102 (126)
T ss_dssp             CHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC
Confidence            6666666666666654

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.45  E-value=6.6e-05  Score=75.36  Aligned_cols=234  Identities=7%  Similarity=-0.020  Sum_probs=148.1

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-C-ChHHH
Q 004244          477 SQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQR-RITEACELFQEMLSRGMSPDEFTYTTLINAYCTE-G-DIPQA  553 (766)
Q Consensus       477 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~-g-~~~~A  553 (766)
                      .+..++|++++++++..+.. +..+|+.--..+...| .+++++..++.++... +-+..+|+.-...+.+. + +++++
T Consensus        67 ~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~E  144 (349)
T 3q7a_A           67 EEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVSE  144 (349)
T ss_dssp             TCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHHH
T ss_pred             CCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHHH
Confidence            33445677777777776544 5566666666666666 4788888888887764 55666676666666665 6 77788


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH--------HHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHH
Q 004244          554 LRLHDEMIQKGFLPDVVTYSVLINGLNKQARTM--------EAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAAL  625 (766)
Q Consensus       554 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~--------~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l  625 (766)
                      +++++.+++. .+-+...|+--...+.+.|.++        ++++.++++++.. .-|...|+-..              
T Consensus       145 L~~~~k~L~~-dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~--------------  208 (349)
T 3q7a_A          145 IEYIHGSLLP-DPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRW--------------  208 (349)
T ss_dssp             HHHHHHHTSS-CTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHH--------------
T ss_pred             HHHHHHHHHh-CCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHH--------------
Confidence            8888888765 2446666665555555555555        8899999988752 23555555544              


Q ss_pred             HhhhhhcCC-------HHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCCh--------------------HHHHHHH
Q 004244          626 LKGFCMKGL-------MNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNV--------------------QKAYDLY  677 (766)
Q Consensus       626 ~~~~~~~g~-------~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~--------------------~~A~~~~  677 (766)
                       ..+.+.++       ++++++.+++++..  .| |...|+.+-..+.+.|+.                    .+..++.
T Consensus       209 -~lL~~l~~~~~~~~~~~eELe~~~~aI~~--~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  285 (349)
T 3q7a_A          209 -YLRVSRPGAETSSRSLQDELIYILKSIHL--IPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFG  285 (349)
T ss_dssp             -HHHTTSTTCCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------
T ss_pred             -HHHHhccccccchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHH
Confidence             34444454       68899999998874  35 788888877777766654                    2223333


Q ss_pred             HHHHHcC-----CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHH
Q 004244          678 KKMVRSG-----FVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLV  731 (766)
Q Consensus       678 ~~m~~~~-----~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  731 (766)
                      .++...+     ..+....+..+++.+...|+.++|.++++.+.+.--|.....|...+
T Consensus       286 ~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~~  344 (349)
T 3q7a_A          286 FPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFRR  344 (349)
T ss_dssp             CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             HHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHHH
Confidence            3332211     12455667778888888888888888888887542144455554433

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.45  E-value=8.1e-05  Score=74.74  Aligned_cols=231  Identities=11%  Similarity=0.030  Sum_probs=139.9

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-C-CHHHHH
Q 004244          443 GRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQ-ELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQ-R-RITEAC  519 (766)
Q Consensus       443 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~-g-~~~~A~  519 (766)
                      +..++|+++++.++..++. +..+|+.--..+...| .++++++.++.+.....+ +..+|+.-...+... + ++++++
T Consensus        68 e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL  145 (349)
T 3q7a_A           68 EKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEI  145 (349)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHH
T ss_pred             CCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHH
Confidence            3445666666666665443 5555666555555566 477777777777766544 566666655555555 5 667777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCChH--------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-------
Q 004244          520 ELFQEMLSRGMSPDEFTYTTLINAYCTEGDIP--------QALRLHDEMIQKGFLPDVVTYSVLINGLNKQAR-------  584 (766)
Q Consensus       520 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~--------~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~-------  584 (766)
                      ++++.+++.. +-|..+|+--...+.+.|.++        ++++.++++++.. +-|...|+.-...+.+.++       
T Consensus       146 ~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~  223 (349)
T 3q7a_A          146 EYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRS  223 (349)
T ss_dssp             HHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHH
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHH
Confidence            7777777654 445666655555555555555        7888888887753 4566777777777766665       


Q ss_pred             HHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCH--------------------HHHHHHHHH
Q 004244          585 TMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLM--------------------NEADRVFEL  644 (766)
Q Consensus       585 ~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~--------------------~~A~~~~~~  644 (766)
                      ++++++.+++++.. .+-|...|+-+-               ..+.+.|+.                    .+..+....
T Consensus       224 ~~eELe~~~~aI~~-~P~n~SaW~Ylr---------------~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  287 (349)
T 3q7a_A          224 LQDELIYILKSIHL-IPHNVSAWNYLR---------------GFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFP  287 (349)
T ss_dssp             HHHHHHHHHHHHHH-CTTCHHHHHHHH---------------HHHHHTTCCSGGGHHHHGGGTC--------------CC
T ss_pred             HHHHHHHHHHHHHh-CCCCHHHHHHHH---------------HHHHhcCCCcccccccccccccccccccchhHHHHHHH
Confidence            67888888888764 223444454433               222333322                    222233333


Q ss_pred             HHhCC-----CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHH
Q 004244          645 MLQRN-----HMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIV  694 (766)
Q Consensus       645 ~~~~~-----~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~  694 (766)
                      +...+     ..++...+..+++.|.+.|+.++|.++++.+.++ ..|-. ..|..
T Consensus       288 ~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~-~dpir~~yw~~  342 (349)
T 3q7a_A          288 MPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE-YDQMRAGYWEF  342 (349)
T ss_dssp             CCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TCGGGHHHHHH
T ss_pred             HHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh-hChHHHHHHHH
Confidence            33221     1357888899999999999999999999998754 33433 44443

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.43  E-value=8.8e-05  Score=74.12  Aligned_cols=199  Identities=10%  Similarity=-0.023  Sum_probs=126.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC--ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-HHHHHHH
Q 004244          515 ITEACELFQEMLSRGMSPDEFTYTTLINAYCTEG--DIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQAR-TMEAKKL  591 (766)
Q Consensus       515 ~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~-~~~A~~l  591 (766)
                      +++++.+++.++... +-+..+|+.-...+.+.|  .+++++.+++.+.+. .+-+...|+--...+...|. ++++++.
T Consensus        90 l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~-dprNy~AW~~R~~vl~~l~~~~~eel~~  167 (331)
T 3dss_A           90 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEA-DERNFHCWDYRRFVAAQAAVAPAEELAF  167 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            466666777666653 445666666666666666  367777777777765 24456666655555566666 4777777


Q ss_pred             HHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhh-----------hhcCCHHHHHHHHHHHHhCCCCC-CHHHHHH
Q 004244          592 LLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGF-----------CMKGLMNEADRVFELMLQRNHMP-NEAVYDI  659 (766)
Q Consensus       592 ~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~-----------~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~  659 (766)
                      ++++++.. +-|...|+-....            +...           ...+.++++++.+.+.+..  .| |..+|+.
T Consensus       168 ~~~~I~~~-p~N~SAW~~R~~l------------l~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~--~P~d~SaW~Y  232 (331)
T 3dss_A          168 TDSLITRN-FSNYSSWHYRSCL------------LPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT--DPNDQSAWFY  232 (331)
T ss_dssp             HHHHHHHC-SCCHHHHHHHHHH------------HHHHSCCC------CCCHHHHHHHHHHHHHHHHH--STTCHHHHHH
T ss_pred             HHHHHHHC-CCCHHHHHHHHHH------------HHHhhhccccccccccchHHHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence            77777642 2233344333310            0111           0114578999999999974  35 7888887


Q ss_pred             HHHHHhcc-----------CChHHHHHHHHHHHHcCCCCCHHHHHHHHH-----HHHhcCChHHHHHHHHHHHHcCCCCh
Q 004244          660 IIHGHSKV-----------GNVQKAYDLYKKMVRSGFVPHTVTIIVLVK-----ALHTAGMNEELSQVIENILRSCRLSD  723 (766)
Q Consensus       660 l~~~~~~~-----------g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~-----~~~~~g~~~~A~~~~~~~~~~~~~~~  723 (766)
                      +-..+.+.           +.++++++.++++++.  .||. .|..+..     +....|..++...+++++.+.+ |..
T Consensus       233 ~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~D-p~r  308 (331)
T 3dss_A          233 HRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD-PMR  308 (331)
T ss_dssp             HHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHC-GGG
T ss_pred             HHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--Cccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhC-cch
Confidence            66666655           4578999999999954  5776 3432222     2224678889999999999998 566


Q ss_pred             HHHHHHHHHHH
Q 004244          724 AELAKVLVEIN  734 (766)
Q Consensus       724 ~~~~~~l~~~~  734 (766)
                      ...|..+...+
T Consensus       309 ~~~y~d~~~~~  319 (331)
T 3dss_A          309 AAYLDDLRSKF  319 (331)
T ss_dssp             HHHHHHHHHHH
T ss_pred             hhHHHHHHHHH
Confidence            77776655433

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.42  E-value=1.3e-06  Score=74.92  Aligned_cols=93  Identities=12%  Similarity=0.034  Sum_probs=47.9

Q ss_pred             HHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcC--CCCC----HHHHHHHHH
Q 004244          625 LLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSG--FVPH----TVTIIVLVK  697 (766)
Q Consensus       625 l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~--~~p~----~~~~~~l~~  697 (766)
                      |-..+.+.|++++|++.|++.++.  .| +...|..++.+|.+.|++++|++.++++++..  ..++    ..+|..++.
T Consensus        14 lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~   91 (127)
T 4gcn_A           14 LGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAGN   91 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHHH
Confidence            334555556666666666555552  23 45555555555666666666666555554321  0111    123444555


Q ss_pred             HHHhcCChHHHHHHHHHHHHcC
Q 004244          698 ALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       698 ~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      ++...|++++|+..++++++..
T Consensus        92 ~~~~~~~~~~A~~~~~kal~~~  113 (127)
T 4gcn_A           92 AFQKQNDLSLAVQWFHRSLSEF  113 (127)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC
Confidence            5555555555555555555543

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.42  E-value=3.5e-07  Score=85.69  Aligned_cols=126  Identities=15%  Similarity=0.010  Sum_probs=92.2

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCC----------------HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPN----------------EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTV  690 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~----------------~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  690 (766)
                      ..+...|++++|+..|++..+.... +                ...|..++.+|.+.|++++|+..++++++.. +.+..
T Consensus        46 ~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~  123 (198)
T 2fbn_A           46 NEFFKKNEINEAIVKYKEALDFFIH-TEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVK  123 (198)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTTT-CTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhc-ccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHH
Confidence            5666777777777777777763211 2                2678889999999999999999999998653 34557


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHH-HHHHHHHHCCC
Q 004244          691 TIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVL-NVLTEMAKDGL  755 (766)
Q Consensus       691 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~-~~~~~m~~~~~  755 (766)
                      .+..++.++...|++++|+..++++++.. |.+..++..+..++...|+.+++. ..+..|...|.
T Consensus       124 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~~~  188 (198)
T 2fbn_A          124 ALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDKGP  188 (198)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC--------------
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            88899999999999999999999999997 566788888999999888888887 55666665554

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.39  E-value=2.6e-06  Score=79.81  Aligned_cols=157  Identities=14%  Similarity=-0.055  Sum_probs=97.7

Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCc-HHhHHHHhhhhchhhhh
Q 004244          546 TEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYD----ESVPS-DVIYNTLIENCTNIEFQ  620 (766)
Q Consensus       546 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~----~~~p~-~~~~~~ll~~~~~~~~~  620 (766)
                      ..|++++|.+.++.+... .......+..+...+...|++++|...+++.+..    +..|. ...+..+.         
T Consensus         4 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~---------   73 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVG---------   73 (203)
T ss_dssp             ---CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH---------
T ss_pred             ccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHH---------
Confidence            456666666644333321 1123455566666666666777666666665541    11111 11222222         


Q ss_pred             hHHHHHhhhhhcCCHHHHHHHHHHHHhC----CCCC--CHHHHHHHHHHHhccCChHHHHHHHHHHHHcC---CCCC--H
Q 004244          621 NVAALLKGFCMKGLMNEADRVFELMLQR----NHMP--NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSG---FVPH--T  689 (766)
Q Consensus       621 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~---~~p~--~  689 (766)
                            ..+...|++++|...+++..+.    +..|  ....+..++..+...|++++|.+.+++.++..   -.+.  .
T Consensus        74 ------~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  147 (203)
T 3gw4_A           74 ------MVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIA  147 (203)
T ss_dssp             ------HHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ------HHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHH
Confidence                  6777888888888888776642    2122  24457888899999999999999999887321   1122  1


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 004244          690 VTIIVLVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       690 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      .++..++..+...|++++|...++++++.
T Consensus       148 ~~~~~la~~~~~~g~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          148 CAFRGLGDLAQQEKNLLEAQQHWLRARDI  176 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            34577888999999999999999998865

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.38  E-value=5.4e-06  Score=71.91  Aligned_cols=99  Identities=8%  Similarity=-0.115  Sum_probs=54.7

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVE  732 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  732 (766)
                      +...|..++..+...|++++|+..|+++++.. +.+...+..++..+...|++++|...++++++.+ |.+...+..++.
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            44555555555556666666666665555432 2233455555555555666666666666665554 344555555566


Q ss_pred             HHhcCCChhHHHHHHHHHHHC
Q 004244          733 INHKEGNMDAVLNVLTEMAKD  753 (766)
Q Consensus       733 ~~~~~g~~~~A~~~~~~m~~~  753 (766)
                      ++...|++++|.+.+++..+.
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHH
Confidence            666666666666555555443

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.38  E-value=1.7e-06  Score=76.42  Aligned_cols=91  Identities=11%  Similarity=0.002  Sum_probs=80.6

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  705 (766)
                      ..+...|++++|+..|+++.+.  .| +...|..++.+|...|++++|++.|+++++.. +.+...+..++.++...|++
T Consensus        29 ~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~  105 (148)
T 2vgx_A           29 FNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLLQXGEL  105 (148)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCCH
Confidence            7888999999999999999974  35 78899999999999999999999999998653 33457888899999999999


Q ss_pred             HHHHHHHHHHHHcCC
Q 004244          706 EELSQVIENILRSCR  720 (766)
Q Consensus       706 ~~A~~~~~~~~~~~~  720 (766)
                      ++|+..++++++..+
T Consensus       106 ~~A~~~~~~al~~~p  120 (148)
T 2vgx_A          106 AEAESGLFLAQELIA  120 (148)
T ss_dssp             HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHCc
Confidence            999999999998863

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.37  E-value=1.2e-05  Score=72.32  Aligned_cols=129  Identities=12%  Similarity=-0.015  Sum_probs=87.2

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004244          465 VSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAY  544 (766)
Q Consensus       465 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~  544 (766)
                      ..+..+...+...|++++|...+++....... +...+..+...+...|++++|...+++..+.. +.+...+..+...+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            44555666677777777777777777665432 56667777777777778888877777777654 44566777777777


Q ss_pred             HhcCChHHHHHHHHHHHHCCCCCCHHHHHH--HHHHHHhcCCHHHHHHHHHHHH
Q 004244          545 CTEGDIPQALRLHDEMIQKGFLPDVVTYSV--LINGLNKQARTMEAKKLLLKLF  596 (766)
Q Consensus       545 ~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~--li~~~~~~g~~~~A~~l~~~~~  596 (766)
                      ...|++++|...+++..+.. +.+...+..  .+..+...|++++|.+.+.+..
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            78888888888887777652 334444433  3333666788888887777654

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.36  E-value=7.1e-06  Score=70.07  Aligned_cols=100  Identities=8%  Similarity=-0.074  Sum_probs=88.8

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVE  732 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  732 (766)
                      +...|...+..+.+.|++++|++.|+++++.. +.+...|..++.++...|++++|+..++++++.+ |.+...+..++.
T Consensus         3 ~a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (126)
T 3upv_A            3 KAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            35567888999999999999999999999653 3456889999999999999999999999999998 667888999999


Q ss_pred             HHhcCCChhHHHHHHHHHHHCC
Q 004244          733 INHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       733 ~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      ++...|++++|.+.+++..+..
T Consensus        81 ~~~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           81 AQIAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHHhC
Confidence            9999999999999999987754

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.36  E-value=4.1e-06  Score=75.53  Aligned_cols=98  Identities=11%  Similarity=-0.038  Sum_probs=82.4

Q ss_pred             hhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004244          620 QNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKA  698 (766)
Q Consensus       620 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~  698 (766)
                      ..+..+...+...|++++|+..|++.++.  .| +...|..++.+|.+.|++++|++.++++++.. +.+...|..++.+
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   88 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            34556667888999999999999999874  34 78889999999999999999999999998653 3345788889999


Q ss_pred             HHhcCChHHHHHHHHHHHHcCC
Q 004244          699 LHTAGMNEELSQVIENILRSCR  720 (766)
Q Consensus       699 ~~~~g~~~~A~~~~~~~~~~~~  720 (766)
                      +...|++++|+..++++++..+
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~p  110 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAEG  110 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHS
T ss_pred             HHHccCHHHHHHHHHHHHHhCC
Confidence            9999999999999999998873

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.35  E-value=2.5e-06  Score=72.35  Aligned_cols=96  Identities=11%  Similarity=-0.048  Sum_probs=70.9

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhc
Q 004244          657 YDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHK  736 (766)
Q Consensus       657 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  736 (766)
                      +..++..+.+.|++++|+..++++++.. +.+...|..++.++...|++++|+..++++++.+ |.+...+..++.+|..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            4456667778888888888888877542 2345677777888888888888888888888877 4556677778888888


Q ss_pred             CCChhHHHHHHHHHHHCC
Q 004244          737 EGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       737 ~g~~~~A~~~~~~m~~~~  754 (766)
                      .|++++|...+++..+..
T Consensus        98 ~g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHHC--
T ss_pred             cCCHHHHHHHHHHHHHhC
Confidence            888888888888776654

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.32  E-value=7.6e-06  Score=68.49  Aligned_cols=109  Identities=18%  Similarity=0.105  Sum_probs=73.8

Q ss_pred             HHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004244          622 VAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHT  701 (766)
Q Consensus       622 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~  701 (766)
                      +..+...+...|++++|...+++..+.. +.+...+..++.++...|++++|.+.++++.+.. +.+...+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~   84 (118)
T 1elw_A            7 LKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEF   84 (118)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH
Confidence            3445566777788888888887777642 1266677777777777888888888887777542 2345667777777777


Q ss_pred             cCChHHHHHHHHHHHHcCCCChHHHHHHHHHH
Q 004244          702 AGMNEELSQVIENILRSCRLSDAELAKVLVEI  733 (766)
Q Consensus       702 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  733 (766)
                      .|++++|...++++++.+ |.+...+..+..+
T Consensus        85 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  115 (118)
T 1elw_A           85 LNRFEEAKRTYEEGLKHE-ANNPQLKEGLQNM  115 (118)
T ss_dssp             TTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHh
Confidence            888888888888877776 3445555444443

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.32  E-value=3.1e-06  Score=84.10  Aligned_cols=194  Identities=12%  Similarity=0.007  Sum_probs=98.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004244          429 IVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHG  508 (766)
Q Consensus       429 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  508 (766)
                      ...+..+...+.+.|++++|...++...+.... +...|..+...|.+.|++++|...+++..+.... +...+..+..+
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~   81 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQC   81 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            344555555666666666666666666654322 5566666666666666777776666666655322 45566666666


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 004244          509 LCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEA  588 (766)
Q Consensus       509 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A  588 (766)
                      +...|++++|...|++..+.+ +.+...+...+....+.   .++.. +........+.+......+...  ..|+.++|
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~i~~~l~~l--~~~~~~~A  154 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLA-KEQRLNFGDDIPSALRI---AKKKR-WNSIEERRIHQESELHSYLTRL--IAAERERE  154 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH-HHTTCCCCSHHHHHHHH---HHHHH-HHHHHHTCCCCCCHHHHHHHHH--HHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHH---HHHHH-HHHHHHHHHhhhHHHHHHHHHH--HHHHHHHH
Confidence            777777777777776665532 10100111111111111   11111 1112222233344433333222  25777777


Q ss_pred             HHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhc-CCHHHHHHHHHHHHh
Q 004244          589 KKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMK-GLMNEADRVFELMLQ  647 (766)
Q Consensus       589 ~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~  647 (766)
                      ++.+++..+  ..|+.......+.              ..+... +.+++|.++|.++.+
T Consensus       155 ~~~~~~al~--~~p~~~~~~~~l~--------------~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          155 LEECQRNHE--GHEDDGHIRAQQA--------------CIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HTTTSGGGT--TTSCHHHHTHHHH--------------HHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHhhhc--cccchhhhhhHHH--------------HHHHHHHHHHHHHHHHHHhhhc
Confidence            777777665  3454433322221              223333 556777777776654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.31  E-value=2.2e-05  Score=66.38  Aligned_cols=96  Identities=18%  Similarity=0.287  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004244          465 VSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAY  544 (766)
Q Consensus       465 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~  544 (766)
                      ..+..+...+...|++++|.+.++++..... .+..++..+...+...|++++|...++++.+.. +.+..++..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            3444444445555555555555555444321 134444455555555555555555555554432 33444455555555


Q ss_pred             HhcCChHHHHHHHHHHHH
Q 004244          545 CTEGDIPQALRLHDEMIQ  562 (766)
Q Consensus       545 ~~~g~~~~A~~~~~~~~~  562 (766)
                      ...|++++|...++++.+
T Consensus        88 ~~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHH
Confidence            555555555555555544

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.31  E-value=1.8e-05  Score=66.16  Aligned_cols=101  Identities=10%  Similarity=-0.066  Sum_probs=88.8

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVE  732 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  732 (766)
                      ....+..++..+...|++++|++.++++.+.. +.+...+..++..+...|++++|...++++++.. +.+...+..++.
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            45667888999999999999999999998653 3456788889999999999999999999999997 567888899999


Q ss_pred             HHhcCCChhHHHHHHHHHHHCCC
Q 004244          733 INHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       733 ~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      ++...|++++|.+.+++..+.+.
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~~  103 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHEA  103 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHhhHHHHHHHHHHHHHcCC
Confidence            99999999999999999887654

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.29  E-value=3.4e-05  Score=82.09  Aligned_cols=167  Identities=11%  Similarity=0.032  Sum_probs=108.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCcHHh---HHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHh
Q 004244          572 YSVLINGLNKQARTMEAKKLLLKLFYD-ESVPSDVI---YNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQ  647 (766)
Q Consensus       572 ~~~li~~~~~~g~~~~A~~l~~~~~~~-~~~p~~~~---~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (766)
                      +..++..|...|++++|.+.+.++... +..++..+   ....++              ..+...|+.++|..+++....
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~--------------~~~~~~~~~~~a~~~~~~~~~  123 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIE--------------KFEQVPDSLDDQIFVCEKSIE  123 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHH--------------HHCSCCSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHH--------------HHHhCCCCHHHHHHHHHHHHH
Confidence            455666777777777777777666542 01111111   111111              445567888888888877653


Q ss_pred             ----CCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHc--CC--CCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 004244          648 ----RNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRS--GF--VPH-TVTIIVLVKALHTAGMNEELSQVIENILR  717 (766)
Q Consensus       648 ----~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~--~~--~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  717 (766)
                          .+..+ -..++..++..|...|++++|..+++++...  +.  .+. ..++..++..|...|++++|..++++++.
T Consensus       124 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          124 FAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             HHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence                22223 2456778888899999999999998887632  21  122 25677888888899999999999988875


Q ss_pred             cC---CCC---hHHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          718 SC---RLS---DAELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       718 ~~---~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      ..   ..+   ....+..++..+...|++++|...+.+...
T Consensus       204 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          204 AANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            41   112   145567777888888999999887766543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.28  E-value=2.4e-05  Score=68.70  Aligned_cols=105  Identities=12%  Similarity=0.030  Sum_probs=83.1

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPN----EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTA  702 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  702 (766)
                      ..+...|++++|+..|++..+.  .|+    ...|..++.+|...|++++|++.++++++.. +.+...+..++.++...
T Consensus        36 ~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~  112 (148)
T 2dba_A           36 NELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYRRSQALEKL  112 (148)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHHHHHHHHHc
Confidence            7788899999999999998874  455    6778888888999999999999999988642 33457778888889999


Q ss_pred             CChHHHHHHHHHHHHcCCCChHHHHHHHHHHHh
Q 004244          703 GMNEELSQVIENILRSCRLSDAELAKVLVEINH  735 (766)
Q Consensus       703 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  735 (766)
                      |++++|...++++++.. |.+...+..+.....
T Consensus       113 ~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~  144 (148)
T 2dba_A          113 GRLDQAVLDLQRCVSLE-PKNKVFQEALRNISG  144 (148)
T ss_dssp             TCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHh
Confidence            99999999999999887 455566655555543

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.27  E-value=6.6e-06  Score=70.39  Aligned_cols=101  Identities=11%  Similarity=-0.022  Sum_probs=85.4

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC------hHHHH
Q 004244          654 EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLS------DAELA  727 (766)
Q Consensus       654 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~------~~~~~  727 (766)
                      ...+..++..+.+.|++++|++.|+++++.. +-+...|..++.++...|++++|+..++++++.++..      -..+|
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            4567789999999999999999999999653 3345788899999999999999999999999875322      14578


Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          728 KVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       728 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      ..++.++...|++++|++.+++......
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~~~  114 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSEFR  114 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCc
Confidence            8999999999999999999999877543

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.26  E-value=2.2e-05  Score=67.36  Aligned_cols=95  Identities=15%  Similarity=0.140  Sum_probs=43.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004244          431 TYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLC  510 (766)
Q Consensus       431 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  510 (766)
                      .+..+...+...|++++|...++...+.... +...+..+...|...|++++|...+++..+.... +...+..+...+.
T Consensus        18 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~   95 (133)
T 2lni_A           18 MVKNKGNECFQKGDYPQAMKHYTEAIKRNPK-DAKLYSNRAACYTKLLEFQLALKDCEECIQLEPT-FIKGYTRKAAALE   95 (133)
T ss_dssp             HHHHHHHHHHHTTCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-chHHHHHHHHHHH
Confidence            3444444444444444444444444443211 3444444444444455555555555444443211 3344444444444


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 004244          511 EQRRITEACELFQEMLS  527 (766)
Q Consensus       511 ~~g~~~~A~~~~~~m~~  527 (766)
                      ..|++++|.+.+++..+
T Consensus        96 ~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           96 AMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHH
Confidence            55555555555544444

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.25  E-value=0.00063  Score=67.93  Aligned_cols=149  Identities=9%  Similarity=-0.024  Sum_probs=85.2

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-HHHHHHH
Q 004244          445 VEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQ--ELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRR-ITEACEL  521 (766)
Q Consensus       445 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~-~~~A~~~  521 (766)
                      +++++.+++.+....++ +..+|+.-...+.+.+  .+++++.+++++.+.... |..+|+.-.-.+...|. ++++++.
T Consensus        90 l~~EL~~~~~~L~~~PK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~  167 (331)
T 3dss_A           90 VKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAF  167 (331)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            45566666666655433 5566665555555555  366777777777666544 66666666555666666 4677777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhc--------------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-----
Q 004244          522 FQEMLSRGMSPDEFTYTTLINAYCTE--------------GDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQ-----  582 (766)
Q Consensus       522 ~~~m~~~~~~p~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~-----  582 (766)
                      ++.+++.. +-|...|+.....+.+.              +.++++++.+...+.. .+-|...|+.+-..+.+.     
T Consensus       168 ~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~-~P~d~SaW~Y~r~ll~~~~~~~~  245 (331)
T 3dss_A          168 TDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT-DPNDQSAWFYHRWLLGAGSGRCE  245 (331)
T ss_dssp             HHHHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHSSSCGGG
T ss_pred             HHHHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhccCccc
Confidence            77776654 44555665555444433              3466677777777654 244555665444333333     


Q ss_pred             ------CCHHHHHHHHHHHHh
Q 004244          583 ------ARTMEAKKLLLKLFY  597 (766)
Q Consensus       583 ------g~~~~A~~l~~~~~~  597 (766)
                            +.++++++.++++++
T Consensus       246 ~~~~~~~~l~~el~~~~elle  266 (331)
T 3dss_A          246 LSVEKSTVLQSELESCKELQE  266 (331)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHh
Confidence                  234455555555554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.25  E-value=5.6e-06  Score=72.54  Aligned_cols=100  Identities=9%  Similarity=0.028  Sum_probs=88.1

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVE  732 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  732 (766)
                      +...+..++..+.+.|++++|++.|++++... +.+...|..++.++...|++++|+..++++++.+ |.+...+..++.
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            45667778889999999999999999998653 3456788899999999999999999999999998 667788889999


Q ss_pred             HHhcCCChhHHHHHHHHHHHCC
Q 004244          733 INHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       733 ~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      +|...|++++|.+.+++..+..
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARALA  116 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999987654

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.25  E-value=8.5e-06  Score=71.17  Aligned_cols=93  Identities=10%  Similarity=-0.021  Sum_probs=60.4

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-------------HHHHHHHHHHHHhcCChHHHHHHHHHHHHc-----
Q 004244          657 YDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-------------TVTIIVLVKALHTAGMNEELSQVIENILRS-----  718 (766)
Q Consensus       657 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----  718 (766)
                      +...+..+.+.|++++|++.|+++++.  .|+             ...|..+..++.+.|++++|+..++++++.     
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~   91 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEI--SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRG   91 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccc
Confidence            344555566666666666666666532  222             126666777777777777777777777776     


Q ss_pred             --CCCChHHHH----HHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          719 --CRLSDAELA----KVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       719 --~~~~~~~~~----~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                        + |.+...|    ...+.++...|++++|+..|++..+
T Consensus        92 e~~-pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           92 ELN-QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CTT-STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCC-CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence              6 4566666    7777777777777777777776654

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.25  E-value=2.7e-05  Score=66.42  Aligned_cols=60  Identities=7%  Similarity=0.016  Sum_probs=23.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 004244          501 TYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMI  561 (766)
Q Consensus       501 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  561 (766)
                      .+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..
T Consensus        48 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  107 (131)
T 2vyi_A           48 YFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALSSLNKHVEAVAYYKKAL  107 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            33333333333444444444444333321 2223333333344444444444444444433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.24  E-value=2.5e-05  Score=70.30  Aligned_cols=101  Identities=10%  Similarity=-0.018  Sum_probs=90.1

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVE  732 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  732 (766)
                      +...|..++..+.+.|++++|++.|+++++.. +.+...|..++.++...|++++|+..++++++.+ +.+...|..++.
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            56778889999999999999999999999653 3356888899999999999999999999999998 667889999999


Q ss_pred             HHhcCCChhHHHHHHHHHHHCCC
Q 004244          733 INHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       733 ~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      +|...|++++|.+.+++..+...
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p  110 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEG  110 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHS
T ss_pred             HHHHccCHHHHHHHHHHHHHhCC
Confidence            99999999999999999887653

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.24  E-value=1.6e-05  Score=69.87  Aligned_cols=100  Identities=10%  Similarity=-0.064  Sum_probs=89.4

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH----TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAK  728 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  728 (766)
                      +...+..++..+...|++++|++.++++++.  .|+    ...+..++..+...|++++|+..++++++.. +.+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            6788889999999999999999999999954  566    5778889999999999999999999999987 56688889


Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          729 VLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       729 ~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      .++.++...|++++|.+.+++..+...
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~~p  130 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSLEP  130 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence            999999999999999999999887643

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.23  E-value=6.3e-06  Score=75.36  Aligned_cols=121  Identities=12%  Similarity=0.129  Sum_probs=76.2

Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCCh--H
Q 004244          475 SRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINA-YCTEGDI--P  551 (766)
Q Consensus       475 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~-~~~~g~~--~  551 (766)
                      ...|++++|...+++...... .+...|..+...+...|++++|...|++..+.. +.+...+..+... +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchH
Confidence            345666666666666665532 255666666777777777777777777766653 3455566666666 6667776  7


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 004244          552 QALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYD  598 (766)
Q Consensus       552 ~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~  598 (766)
                      +|...++++++.. +.+...+..+...+...|++++|...+++.+..
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            7777777776652 334566666777777777777777777777663

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.19  E-value=3.1e-05  Score=79.11  Aligned_cols=130  Identities=14%  Similarity=0.062  Sum_probs=85.5

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC--------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004244          465 VSYSTIISGFSRSQELDKAFDTKREMVEKGVLPD--------------TITYSSLIHGLCEQRRITEACELFQEMLSRGM  530 (766)
Q Consensus       465 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  530 (766)
                      ..+..+...|.+.|++++|+..|++.........              ...|..+..++.+.|++++|+..+++.++.. 
T Consensus       148 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  226 (336)
T 1p5q_A          148 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-  226 (336)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            3444444555555555555555555554432211              4667777777778888888888888777764 


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH-HHHHHHHH
Q 004244          531 SPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEA-KKLLLKLF  596 (766)
Q Consensus       531 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A-~~l~~~~~  596 (766)
                      +.+...+..+..+|...|++++|+..|++.++. .+.+...+..+..++.+.|+.++| ...+.+|.
T Consensus       227 p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l-~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          227 SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL-YPNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456677777778888888888888888887765 244566777777777777777777 44555554

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.19  E-value=1.4e-05  Score=69.19  Aligned_cols=91  Identities=10%  Similarity=0.007  Sum_probs=80.6

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNE  706 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  706 (766)
                      ..+...|++++|+..|++.++.. +.+...|..++.++...|++++|+..++++++.. +.+...+..++.++...|+++
T Consensus        17 ~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~   94 (137)
T 3q49_B           17 NRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQLEMESYD   94 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHHhhHH
Confidence            78899999999999999999853 2268899999999999999999999999999653 335678889999999999999


Q ss_pred             HHHHHHHHHHHcC
Q 004244          707 ELSQVIENILRSC  719 (766)
Q Consensus       707 ~A~~~~~~~~~~~  719 (766)
                      +|+..++++++..
T Consensus        95 ~A~~~~~~a~~~~  107 (137)
T 3q49_B           95 EAIANLQRAYSLA  107 (137)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHC
Confidence            9999999999875

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.16  E-value=3.5e-06  Score=90.60  Aligned_cols=118  Identities=8%  Similarity=-0.024  Sum_probs=98.1

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  705 (766)
                      ..+...|++++|++.++++++.  .| +..+|..++.+|.+.|++++|++.++++++.. +.+...+..++.++...|++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            6778899999999999999985  35 68899999999999999999999999999753 33457888999999999999


Q ss_pred             HHHHHHHHHHHHcCCCChHHHHHHHHHH--HhcCCChhHHHHHHH
Q 004244          706 EELSQVIENILRSCRLSDAELAKVLVEI--NHKEGNMDAVLNVLT  748 (766)
Q Consensus       706 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~  748 (766)
                      ++|...++++++.. |.+...+..++.+  +.+.|++++|.+.++
T Consensus        91 ~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999999987 4555566667766  888999999999988

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.16  E-value=2e-05  Score=67.32  Aligned_cols=92  Identities=15%  Similarity=0.124  Sum_probs=69.6

Q ss_pred             HHhhhhhcCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC----HHHHHHHHH
Q 004244          625 LLKGFCMKGLMNEADRVFELMLQRNHMPNE---AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH----TVTIIVLVK  697 (766)
Q Consensus       625 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~----~~~~~~l~~  697 (766)
                      +...+...|++++|+..|+++.+.... +.   ..+..++.++.+.|++++|++.++++++..  |+    ...+..++.
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la~   84 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHHH
Confidence            445677888888888888888864311 23   467778888888888888888888887643  33    456777888


Q ss_pred             HHHhcCChHHHHHHHHHHHHcC
Q 004244          698 ALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       698 ~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      ++...|++++|...++++++..
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC
Confidence            8888888888888888888876

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.15  E-value=1.2e-05  Score=68.70  Aligned_cols=111  Identities=11%  Similarity=0.043  Sum_probs=83.1

Q ss_pred             hHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCC--CCC----HHHHHH
Q 004244          621 NVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGF--VPH----TVTIIV  694 (766)
Q Consensus       621 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~--~p~----~~~~~~  694 (766)
                      .+..+...+...|++++|...++++.+.. +.+...+..++..+...|++++|+..++++++...  .++    ..++..
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            34456677888999999999999888753 23677888888889999999999999998875421  122    567778


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Q 004244          695 LVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEIN  734 (766)
Q Consensus       695 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  734 (766)
                      ++..+...|++++|...++++++..+  +......+..+.
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~l~~~~  122 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAEHR--TPDVLKKCQQAE  122 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCC--CHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCC--CHHHHHHHHHHH
Confidence            88888899999999999999988763  455555454443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.14  E-value=1.1e-05  Score=72.12  Aligned_cols=127  Identities=14%  Similarity=0.061  Sum_probs=99.2

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHhccCChHHHHHHHHHHHHc----CCCCC-HHHHHHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHM-PN----EAVYDIIIHGHSKVGNVQKAYDLYKKMVRS----GFVPH-TVTIIVLV  696 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~-p~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~----~~~p~-~~~~~~l~  696 (766)
                      ..+...|++++|+..+++..+.... ++    ..++..++..+...|++++|.+.++++++.    +..+. ...+..++
T Consensus        17 ~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~   96 (164)
T 3ro3_A           17 NTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLG   96 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHH
Confidence            7888999999999999988753111 12    247788999999999999999999998742    11111 35677888


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcC-----CCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHC
Q 004244          697 KALHTAGMNEELSQVIENILRSC-----RLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKD  753 (766)
Q Consensus       697 ~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  753 (766)
                      ..+...|++++|..+++++++..     .+.....+..++..+...|++++|.+.+++..+.
T Consensus        97 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           97 NTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            99999999999999999988652     1123566788999999999999999999887653

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.11  E-value=1.4e-05  Score=67.61  Aligned_cols=91  Identities=12%  Similarity=-0.005  Sum_probs=78.5

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  705 (766)
                      ..+.+.|++++|+..|+++++.  .| +...|..++.++...|++++|+..++++++.. +-+...+..++.++...|++
T Consensus        25 ~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g~~  101 (121)
T 1hxi_A           25 LSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  101 (121)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            6788999999999999999984  35 78899999999999999999999999999653 23457888999999999999


Q ss_pred             HHHHHHHHHHHHcCC
Q 004244          706 EELSQVIENILRSCR  720 (766)
Q Consensus       706 ~~A~~~~~~~~~~~~  720 (766)
                      ++|+..++++++.++
T Consensus       102 ~~A~~~~~~al~~~P  116 (121)
T 1hxi_A          102 NAALASLRAWLLSQP  116 (121)
T ss_dssp             HHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHhCc
Confidence            999999999998763

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.09  E-value=1.9e-05  Score=70.94  Aligned_cols=113  Identities=14%  Similarity=0.135  Sum_probs=86.3

Q ss_pred             hHHHHHhhhhhcCCHHHHHHHHHHHHhC--------CC--------CC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHc
Q 004244          621 NVAALLKGFCMKGLMNEADRVFELMLQR--------NH--------MP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRS  683 (766)
Q Consensus       621 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~~--------~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  683 (766)
                      .+...-..+.+.|++++|+..|.+.++.        ..        .| +...|..++.+|.+.|++++|+..++++++.
T Consensus        13 ~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~   92 (162)
T 3rkv_A           13 ALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR   92 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Confidence            3445567788999999999999998863        00        12 3467888899999999999999999999865


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChH-HHHHHHHHHHh
Q 004244          684 GFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDA-ELAKVLVEINH  735 (766)
Q Consensus       684 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~  735 (766)
                      . +.+...|..++.++...|++++|+..++++++.+| .+. .+...+..+..
T Consensus        93 ~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~~l~~~~~  143 (162)
T 3rkv_A           93 E-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHP-AAASVVAREMKIVTE  143 (162)
T ss_dssp             S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHH
T ss_pred             C-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHH
Confidence            3 33457888899999999999999999999999984 444 55555544443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.08  E-value=3e-05  Score=64.04  Aligned_cols=93  Identities=13%  Similarity=0.012  Sum_probs=81.0

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHhc-C
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVP--HTVTIIVLVKALHTA-G  703 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p--~~~~~~~l~~~~~~~-g  703 (766)
                      ..+...|++++|+..++++.+.. +.+...|..++.++...|++++|++.++++++.. +.  +...+..++..+... |
T Consensus        14 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~~~~~~~   91 (112)
T 2kck_A           14 VLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADALRYIEG   91 (112)
T ss_dssp             HHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHHHTTCSS
T ss_pred             HHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHHHHHHhC
Confidence            77889999999999999999753 2378889999999999999999999999999653 23  468888999999999 9


Q ss_pred             ChHHHHHHHHHHHHcCCC
Q 004244          704 MNEELSQVIENILRSCRL  721 (766)
Q Consensus       704 ~~~~A~~~~~~~~~~~~~  721 (766)
                      ++++|.+.+++++...+.
T Consensus        92 ~~~~A~~~~~~~~~~~p~  109 (112)
T 2kck_A           92 KEVEAEIAEARAKLEHHH  109 (112)
T ss_dssp             CSHHHHHHHHHHGGGCCC
T ss_pred             CHHHHHHHHHHHhhcccC
Confidence            999999999999998744

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.08  E-value=1.9e-05  Score=84.55  Aligned_cols=123  Identities=11%  Similarity=0.021  Sum_probs=100.6

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-C---------------HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-N---------------EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTV  690 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~---------------~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  690 (766)
                      ..+.+.|++++|+..|+++++.  .| +               ...|..+..+|.+.|++++|+..++++++.. +.+..
T Consensus       276 ~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~  352 (457)
T 1kt0_A          276 TVYFKGGKYMQAVIQYGKIVSW--LEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEK  352 (457)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--HTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHH--hcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHH
Confidence            7888999999999999999974  23 3               5889999999999999999999999999653 33567


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHH-HHHHHHHC
Q 004244          691 TIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLN-VLTEMAKD  753 (766)
Q Consensus       691 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~-~~~~m~~~  753 (766)
                      .|..++.++...|++++|+..|+++++.. |.+..++..+..++.+.|+.++|.+ .+++|..+
T Consensus       353 a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f~k  415 (457)
T 1kt0_A          353 GLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERDRRIYANMFKK  415 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            88899999999999999999999999998 6677888999999999999988864 34444433

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.06  E-value=6.5e-06  Score=69.25  Aligned_cols=89  Identities=16%  Similarity=0.119  Sum_probs=70.4

Q ss_pred             hcCCHHHHHHHHHHHHhCCC-CC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHH
Q 004244          631 MKGLMNEADRVFELMLQRNH-MP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEEL  708 (766)
Q Consensus       631 ~~g~~~~A~~~~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A  708 (766)
                      ..|++++|+..|+++++.+. .| +..+|..++.+|...|++++|++.++++++.. +-+...+..++.++...|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHH
Confidence            35888999999999998531 24 56788899999999999999999999998653 33457788899999999999999


Q ss_pred             HHHHHHHHHcCC
Q 004244          709 SQVIENILRSCR  720 (766)
Q Consensus       709 ~~~~~~~~~~~~  720 (766)
                      +..++++++..+
T Consensus        81 ~~~~~~al~~~p   92 (117)
T 3k9i_A           81 VELLLKIIAETS   92 (117)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCC
Confidence            999999998863

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.06  E-value=5.8e-06  Score=69.55  Aligned_cols=88  Identities=16%  Similarity=0.199  Sum_probs=72.3

Q ss_pred             ccCChHHHHHHHHHHHHcCC-CCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHH
Q 004244          666 KVGNVQKAYDLYKKMVRSGF-VPH-TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAV  743 (766)
Q Consensus       666 ~~g~~~~A~~~~~~m~~~~~-~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  743 (766)
                      ..|++++|++.|+++++.+. .|+ ...+..++..+...|++++|+..++++++.. |.+...+..++.++...|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHH
Confidence            46899999999999996431 243 3778899999999999999999999999998 56688899999999999999999


Q ss_pred             HHHHHHHHHCC
Q 004244          744 LNVLTEMAKDG  754 (766)
Q Consensus       744 ~~~~~~m~~~~  754 (766)
                      .+.+++..+..
T Consensus        81 ~~~~~~al~~~   91 (117)
T 3k9i_A           81 VELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            99999987754

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.05  E-value=6.5e-05  Score=64.07  Aligned_cols=95  Identities=13%  Similarity=0.042  Sum_probs=81.9

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCh---HHHHHH
Q 004244          657 YDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT----VTIIVLVKALHTAGMNEELSQVIENILRSCRLSD---AELAKV  729 (766)
Q Consensus       657 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~  729 (766)
                      +..++..+...|++++|++.++++++..  |+.    ..+..++.++...|++++|+..++++++.. |.+   ...+..
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~   81 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLK   81 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHH
Confidence            4456778889999999999999998653  333    477889999999999999999999999987 344   777889


Q ss_pred             HHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          730 LVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       730 l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      ++.++...|++++|.+.++++.+..
T Consensus        82 la~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           82 LGLSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            9999999999999999999988765

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.04  E-value=1.2e-05  Score=82.29  Aligned_cols=128  Identities=10%  Similarity=0.057  Sum_probs=76.9

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHH------------------HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEA------------------VYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH  688 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~------------------~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~  688 (766)
                      ..+.+.|++++|+..|++.++.  .|+..                  .|..+..+|.+.|++++|+..++++++.. +.+
T Consensus       187 ~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~  263 (338)
T 2if4_A          187 NSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIVLTEE-EKN  263 (338)
T ss_dssp             HHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCC
Confidence            7788999999999999998873  35433                  78889999999999999999999998653 335


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHH-HhcCCChhHHHHHHHHHHHCCCCCC
Q 004244          689 TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEI-NHKEGNMDAVLNVLTEMAKDGLLPN  758 (766)
Q Consensus       689 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~m~~~~~~~~  758 (766)
                      ...|..++.++...|++++|+..++++++.. |.+..++..+..+ ....+..+++.+++++|........
T Consensus       264 ~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~~p~~~  333 (338)
T 2if4_A          264 PKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQEKALYQKQKEMYKGIFKGKDEGG  333 (338)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------------------------------
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCC
Confidence            6788999999999999999999999999887 5566777777766 4456778888899999887665443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.03  E-value=2.7e-05  Score=69.85  Aligned_cols=92  Identities=9%  Similarity=0.014  Sum_probs=77.7

Q ss_pred             HHhccCChHHHHHHHHHHHHc-------CC---------CCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHH
Q 004244          663 GHSKVGNVQKAYDLYKKMVRS-------GF---------VPH-TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAE  725 (766)
Q Consensus       663 ~~~~~g~~~~A~~~~~~m~~~-------~~---------~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  725 (766)
                      .+.+.|++++|+..|.+.++.       .-         .|. ...|..++.++.+.|++++|+..++++++.+ |.+..
T Consensus        20 ~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~   98 (162)
T 3rkv_A           20 ELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEK   98 (162)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchH
Confidence            356889999999999998854       00         122 3678889999999999999999999999998 67788


Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          726 LAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       726 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      .|..++.+|...|++++|...+++..+...
T Consensus        99 a~~~~g~~~~~~g~~~~A~~~~~~al~l~p  128 (162)
T 3rkv_A           99 ALFRRAKARIAAWKLDEAEEDLKLLLRNHP  128 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCG
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcCC
Confidence            999999999999999999999999877643

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.03  E-value=3.7e-05  Score=65.58  Aligned_cols=101  Identities=12%  Similarity=0.059  Sum_probs=86.6

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC--h----HHHH
Q 004244          654 EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLS--D----AELA  727 (766)
Q Consensus       654 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~----~~~~  727 (766)
                      ...|..++..+...|++++|+..++++++.. +.+...+..++..+...|++++|..+++++++..+..  +    ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            4567888999999999999999999998653 3456788889999999999999999999999885321  1    7788


Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          728 KVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       728 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      ..++.++...|++++|.+.+++..+...
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~~  110 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEHR  110 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            8999999999999999999999888653

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.02  E-value=0.00025  Score=75.22  Aligned_cols=55  Identities=13%  Similarity=-0.002  Sum_probs=24.7

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhC--CC--CC-CHHHHHHHHHHHhccCChHHHHHHHHHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQR--NH--MP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMV  681 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~--~~--~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  681 (766)
                      ..|...|++++|..+++++...  +.  .+ ...+|..++..|...|++++|..++++..
T Consensus       143 ~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al  202 (434)
T 4b4t_Q          143 TLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAAR  202 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Confidence            4444555555555555444321  01  11 12344445555555555555555555443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.00  E-value=4.8e-05  Score=67.68  Aligned_cols=133  Identities=13%  Similarity=0.039  Sum_probs=90.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCcH----HhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHH
Q 004244          571 TYSVLINGLNKQARTMEAKKLLLKLFYDES-VPSD----VIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELM  645 (766)
Q Consensus       571 ~~~~li~~~~~~g~~~~A~~l~~~~~~~~~-~p~~----~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  645 (766)
                      ++..+...+...|++++|.+.+++.+.... .++.    ..+..+.               ..+...|++++|...+++.
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~---------------~~~~~~g~~~~A~~~~~~a   75 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLG---------------NAYIFLGEFETASEYYKKT   75 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH---------------HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHH---------------HHHHHcCCHHHHHHHHHHH
Confidence            455556666667777777777666654210 0111    1222222               6788888999998888887


Q ss_pred             HhC----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHH
Q 004244          646 LQR----NHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRS----GFVPH-TVTIIVLVKALHTAGMNEELSQVIENI  715 (766)
Q Consensus       646 ~~~----~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~  715 (766)
                      .+.    +..+ ...++..++..+...|++++|.+.+++.++.    +..+. ..++..++..+...|++++|...++++
T Consensus        76 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  155 (164)
T 3ro3_A           76 LLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKH  155 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            642    1111 1456788889999999999999999998742    21111 256778889999999999999999998


Q ss_pred             HHc
Q 004244          716 LRS  718 (766)
Q Consensus       716 ~~~  718 (766)
                      ++.
T Consensus       156 ~~~  158 (164)
T 3ro3_A          156 LEI  158 (164)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            865

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.00  E-value=8.8e-05  Score=64.30  Aligned_cols=118  Identities=12%  Similarity=-0.033  Sum_probs=98.5

Q ss_pred             hhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cC
Q 004244          628 GFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHT----AG  703 (766)
Q Consensus       628 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~g  703 (766)
                      +..-.+++++|++.|++..+.| .|+..    +...|...+.+++|++.|++..+.|   +...+..+...|..    .+
T Consensus         4 G~g~~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~   75 (138)
T 1klx_A            4 GGTVKKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKK   75 (138)
T ss_dssp             CSSHHHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCC
T ss_pred             CcCCccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCc
Confidence            3344568899999999999987 33433    7788888888999999999998765   56777888888887    89


Q ss_pred             ChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhc----CCChhHHHHHHHHHHHCCCC
Q 004244          704 MNEELSQVIENILRSCRLSDAELAKVLVEINHK----EGNMDAVLNVLTEMAKDGLL  756 (766)
Q Consensus       704 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~~  756 (766)
                      +.++|..+++++.+.+   ++..+..|+..|..    .++.++|.+++++..+.|..
T Consensus        76 d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~  129 (138)
T 1klx_A           76 DLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  129 (138)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             cHHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCCH
Confidence            9999999999999875   46677889999998    89999999999999988753

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=97.98  E-value=0.00011  Score=68.39  Aligned_cols=129  Identities=11%  Similarity=-0.001  Sum_probs=77.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHCCCC-C--------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004244          466 SYSTIISGFSRSQELDKAFDTKREMVEKGVL-P--------------DTITYSSLIHGLCEQRRITEACELFQEMLSRGM  530 (766)
Q Consensus       466 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p--------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  530 (766)
                      .+..+...+.+.|++++|+..|++....... |              ....+..+..++...|++++|+..+++.++.. 
T Consensus        40 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-  118 (198)
T 2fbn_A           40 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-  118 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-
Confidence            3444445555555555555555555543211 0              02566677777778888888888888777764 


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH-HHHHHHH
Q 004244          531 SPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAK-KLLLKLF  596 (766)
Q Consensus       531 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~-~l~~~~~  596 (766)
                      +.+...+..+..+|...|++++|.+.+++..+.. +.+...+..+..++...++.+++. ..+..+.
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f  184 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGMF  184 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC----------
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4566677777778888888888888888777652 345566666666666666666555 4444443

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.96  E-value=4.3e-05  Score=78.93  Aligned_cols=117  Identities=12%  Similarity=0.043  Sum_probs=99.5

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhC--------------CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HH
Q 004244          627 KGFCMKGLMNEADRVFELMLQR--------------NHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TV  690 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~--------------~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~  690 (766)
                      ..+.+.|++++|++.|+++++.              ...| +..+|..+..+|.+.|++++|++.++++++.  .|+ ..
T Consensus       231 ~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~--~p~~~~  308 (370)
T 1ihg_A          231 NTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI--DPSNTK  308 (370)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--CchhHH
Confidence            7888999999999999998861              0223 5678899999999999999999999999954  454 57


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHH
Q 004244          691 TIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNV  746 (766)
Q Consensus       691 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  746 (766)
                      .+..++.++...|++++|+..++++++.. |.+..++..+..++...|+.+++.+.
T Consensus       309 a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k~  363 (370)
T 1ihg_A          309 ALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEKA  363 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88899999999999999999999999998 56778888899999888888877654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.95  E-value=3.5e-05  Score=82.17  Aligned_cols=128  Identities=12%  Similarity=0.005  Sum_probs=100.6

Q ss_pred             hhhhhcCCHHHHHHHHHHHHh---CCCCC----CHHHHHHHHHHHhccCChHHHHHHHHHHHH-----cC-CCCCH-HHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQ---RNHMP----NEAVYDIIIHGHSKVGNVQKAYDLYKKMVR-----SG-FVPHT-VTI  692 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~---~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-----~~-~~p~~-~~~  692 (766)
                      ..+..+|++++|+.++++.++   .-+-|    ...+++.|+.+|...|++++|..+++++++     .| -.|+. .++
T Consensus       317 ~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l  396 (490)
T 3n71_A          317 DKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAV  396 (490)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            446678999999999998874   21222    246789999999999999999999999763     22 12333 678


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHc-----CCC--ChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          693 IVLVKALHTAGMNEELSQVIENILRS-----CRL--SDAELAKVLVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       693 ~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      +.|+..|...|++++|..+++++++.     |+.  ........+..++.+.|.+++|..+++++.+.-
T Consensus       397 ~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          397 MRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            89999999999999999999998864     422  235566788899999999999999999987643

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.92  E-value=7.7e-06  Score=67.82  Aligned_cols=95  Identities=16%  Similarity=0.063  Sum_probs=76.9

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCh------HHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSD------AEL  726 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~------~~~  726 (766)
                      +...|..++..+...|++++|++.++++++.. +.+...+..++.++...|++++|+..++++++.. |.+      ...
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT-STAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-SSTTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCccHHHHHHHH
Confidence            45677888899999999999999999988653 3456788889999999999999999999999987 344      666


Q ss_pred             HHHHHHHHhcCCChhHHHHHHHH
Q 004244          727 AKVLVEINHKEGNMDAVLNVLTE  749 (766)
Q Consensus       727 ~~~l~~~~~~~g~~~~A~~~~~~  749 (766)
                      +..++.++...|+.++|.+.+++
T Consensus        81 ~~~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHHHhHhhhHhHHHH
Confidence            77888888888888877665544

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.90  E-value=4.1e-05  Score=66.83  Aligned_cols=91  Identities=10%  Similarity=0.016  Sum_probs=78.3

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCC-------------HHHHHHHHHHHhccCChHHHHHHHHHHHHc-----CCCCC
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPN-------------EAVYDIIIHGHSKVGNVQKAYDLYKKMVRS-----GFVPH  688 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~-------------~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~-----~~~p~  688 (766)
                      ..+.+.|++++|+..|++.++.  .|+             ...|..+..++.+.|++++|+..+++.++.     .+.|+
T Consensus        19 ~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd   96 (159)
T 2hr2_A           19 QRQLVAGEYDEAAANCRRAMEI--SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQD   96 (159)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH--HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTST
T ss_pred             HHHHHCCCHHHHHHHHHHHHhh--CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCc
Confidence            6788899999999999999974  343             238999999999999999999999999863     12576


Q ss_pred             H-HHH----HHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          689 T-VTI----IVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       689 ~-~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      . ..|    ...+.++...|++++|+..|+++++..
T Consensus        97 ~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~  132 (159)
T 2hr2_A           97 EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMI  132 (159)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            5 678    889999999999999999999999885

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.90  E-value=0.00033  Score=76.60  Aligned_cols=174  Identities=7%  Similarity=-0.066  Sum_probs=131.8

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhh
Q 004244          549 DIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQAR----------TMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIE  618 (766)
Q Consensus       549 ~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~----------~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~  618 (766)
                      ..++|++.+++++... +-+...|+.--..+...|+          ++++++.++++++. .+.+...|..-.       
T Consensus        44 ~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~-~pK~y~aW~hR~-------  114 (567)
T 1dce_A           44 LDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV-NPKSYGTWHHRC-------  114 (567)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH-CTTCHHHHHHHH-------
T ss_pred             CCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh-CCCCHHHHHHHH-------
Confidence            3456788888888752 3345566655555555666          89999999999885 233455666555       


Q ss_pred             hhhHHHHHhhhhhcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC-ChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 004244          619 FQNVAALLKGFCMKG--LMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVG-NVQKAYDLYKKMVRSGFVPHTVTIIVL  695 (766)
Q Consensus       619 ~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~~~~~l  695 (766)
                              ..+.+.|  +++++++.++++.+... -+..+|+.-..++.+.| .++++++.++++++.. +-|...|...
T Consensus       115 --------w~l~~l~~~~~~~el~~~~k~l~~d~-~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r  184 (567)
T 1dce_A          115 --------WLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYR  184 (567)
T ss_dssp             --------HHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHH
T ss_pred             --------HHHHHcccccHHHHHHHHHHHHhhcc-ccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHH
Confidence                    5667778  77999999999998532 28889998888888889 8999999999998543 3345778777


Q ss_pred             HHHHHhc--------------CChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhH
Q 004244          696 VKALHTA--------------GMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDA  742 (766)
Q Consensus       696 ~~~~~~~--------------g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  742 (766)
                      ...+.+.              +.+++|++++++++..+ |.+..+|..+...+.+.|+.++
T Consensus       185 ~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          185 SCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             HHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             HHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCccc
Confidence            7666653              56799999999999998 6778889999999998887554

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.86  E-value=7.2e-05  Score=80.31  Aligned_cols=118  Identities=13%  Similarity=-0.008  Sum_probs=89.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-C
Q 004244          576 INGLNKQARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-N  653 (766)
Q Consensus       576 i~~~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~  653 (766)
                      ...+.+.|++++|.+.+++.++.  .|+ ...+..+.               ..|.+.|++++|++.++++.+.  .| +
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg---------------~~~~~~g~~~~A~~~~~~al~l--~p~~   73 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRS---------------LAYLRTECYGYALGDATRAIEL--DKKY   73 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHS--CTTC
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHH---------------HHHHHhcCHHHHHHHHHHHHHh--CCCC
Confidence            34456789999999999998874  444 45555555               7899999999999999999985  35 7


Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH--HHhcCChHHHHHHHH
Q 004244          654 EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKA--LHTAGMNEELSQVIE  713 (766)
Q Consensus       654 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~--~~~~g~~~~A~~~~~  713 (766)
                      ..+|..++.+|.+.|++++|++.++++++.. +.+...+..+..+  +.+.|++++|+..++
T Consensus        74 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           74 IKGYYRRAASNMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            8889999999999999999999999998653 2233455555555  888899999999998

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.74  E-value=0.00021  Score=56.32  Aligned_cols=84  Identities=18%  Similarity=0.173  Sum_probs=69.2

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVE  732 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  732 (766)
                      +...+..+...+...|++++|++.+++.++.. +.+...+..++..+...|++++|...++++++.+ |.+...+..++.
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~   85 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            45677888889999999999999999998653 3355778889999999999999999999999987 566777778888


Q ss_pred             HHhcCC
Q 004244          733 INHKEG  738 (766)
Q Consensus       733 ~~~~~g  738 (766)
                      ++.+.|
T Consensus        86 ~~~~~g   91 (91)
T 1na3_A           86 AKQKQG   91 (91)
T ss_dssp             HHHHHC
T ss_pred             HHHhcC
Confidence            776544

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.73  E-value=7.3e-05  Score=76.31  Aligned_cols=90  Identities=12%  Similarity=0.131  Sum_probs=49.3

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHH-HHhcC
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKA-LHTAG  703 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~-~~~~g  703 (766)
                      .+|.+.|++++|+..++++++.  .| +...|..++.+|...|++++|++.|+++++  +.|+. ..+..+... ....+
T Consensus       238 ~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~--l~p~~~~a~~~L~~l~~~~~~  313 (338)
T 2if4_A          238 ACLIKLKRYDEAIGHCNIVLTE--EEKNPKALFRRGKAKAELGQMDSARDDFRKAQK--YAPDDKAIRRELRALAEQEKA  313 (338)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHH
Confidence            7889999999999999999984  35 788999999999999999999999999874  35554 445555544 33456


Q ss_pred             ChHHHHHHHHHHHHcCC
Q 004244          704 MNEELSQVIENILRSCR  720 (766)
Q Consensus       704 ~~~~A~~~~~~~~~~~~  720 (766)
                      ..+++...+++++...+
T Consensus       314 ~~~~a~~~~~~~l~~~p  330 (338)
T 2if4_A          314 LYQKQKEMYKGIFKGKD  330 (338)
T ss_dssp             -----------------
T ss_pred             HHHHHHHHHHHhhCCCC
Confidence            77888999999988763

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.68  E-value=0.00018  Score=59.97  Aligned_cols=82  Identities=16%  Similarity=0.062  Sum_probs=68.8

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 004244          636 NEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENI  715 (766)
Q Consensus       636 ~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  715 (766)
                      ++|+..|+++.+.. +.+...+..++..|...|++++|++.++++++.. +.+...|..++.++...|++++|...++++
T Consensus         2 ~~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            2 QAITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CCHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            35788888888753 2278889999999999999999999999998653 334578888999999999999999999999


Q ss_pred             HHcC
Q 004244          716 LRSC  719 (766)
Q Consensus       716 ~~~~  719 (766)
                      ++..
T Consensus        80 l~~~   83 (115)
T 2kat_A           80 LAAA   83 (115)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            9875

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.64  E-value=0.00053  Score=73.17  Aligned_cols=96  Identities=14%  Similarity=0.085  Sum_probs=62.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004244          499 TITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLING  578 (766)
Q Consensus       499 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~  578 (766)
                      ...|..+..+|.+.|++++|+..+++.++.. +.+...|..+..+|...|++++|+..|++.++.. +.+...+..+..+
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~  394 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMC  394 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            4566667777777777777777777777664 4456677777777777777877777777777652 2344566666666


Q ss_pred             HHhcCCHHHHHH-HHHHHH
Q 004244          579 LNKQARTMEAKK-LLLKLF  596 (766)
Q Consensus       579 ~~~~g~~~~A~~-l~~~~~  596 (766)
                      +.+.|+.++|.+ ++.+|.
T Consensus       395 ~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          395 QKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             HHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            767777666653 344443

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.60  E-value=0.00054  Score=70.68  Aligned_cols=140  Identities=10%  Similarity=-0.061  Sum_probs=85.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004244          429 IVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHG  508 (766)
Q Consensus       429 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  508 (766)
                      ...+..+...+.+.|++++|+..|++..+.-  +..          ......+++.       ... ..+...|..+..+
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~--~~~----------~~~~~~~~~~-------~~~-~~~~~~~~nla~~  282 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYV--EGS----------RAAAEDADGA-------KLQ-PVALSCVLNIGAC  282 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHH----------HHHSCHHHHG-------GGH-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh--hcC----------ccccChHHHH-------HHH-HHHHHHHHHHHHH
Confidence            4456667777777788888877777766520  000          0000011110       010 1134566777777


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 004244          509 LCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEA  588 (766)
Q Consensus       509 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A  588 (766)
                      |.+.|++++|+..+++.++.. +.+...+..+..+|...|++++|++.+++..+.. +.+...+..+...+...++.+++
T Consensus       283 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          283 KLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            777888888888888777764 4456677777777888888888888888777652 33555666666666666666555


Q ss_pred             HH
Q 004244          589 KK  590 (766)
Q Consensus       589 ~~  590 (766)
                      .+
T Consensus       361 ~k  362 (370)
T 1ihg_A          361 EK  362 (370)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.60  E-value=0.00018  Score=59.90  Aligned_cols=81  Identities=11%  Similarity=-0.003  Sum_probs=64.8

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHH
Q 004244          671 QKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEM  750 (766)
Q Consensus       671 ~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  750 (766)
                      ++|++.++++++.. +.+...+..++..+...|++++|+..++++++.+ |.+...|..++.+|...|++++|...+++.
T Consensus         2 ~~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            2 QAITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CCHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            35777888887532 2345778888888999999999999999999887 566778888999999999999999998887


Q ss_pred             HHC
Q 004244          751 AKD  753 (766)
Q Consensus       751 ~~~  753 (766)
                      .+.
T Consensus        80 l~~   82 (115)
T 2kat_A           80 LAA   82 (115)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.49  E-value=0.00057  Score=72.79  Aligned_cols=123  Identities=12%  Similarity=0.061  Sum_probs=65.1

Q ss_pred             HHhcCChHHHHHHHHHHHHC---CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CCCcH-HhHHH
Q 004244          544 YCTEGDIPQALRLHDEMIQK---GFLP----DVVTYSVLINGLNKQARTMEAKKLLLKLFYD-----E-SVPSD-VIYNT  609 (766)
Q Consensus       544 ~~~~g~~~~A~~~~~~~~~~---g~~p----~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~-----~-~~p~~-~~~~~  609 (766)
                      +..+|++++|+.++++.++.   -+.|    -..+++.|...|...|++++|..++++.+.-     | ..|+. .+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            34556666666666655532   1111    2346677777777778888777777766531     1 11111 11222


Q ss_pred             HhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHh-----CCCC-C-CHHHHHHHHHHHhccCChHHHHHHHHHHH
Q 004244          610 LIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQ-----RNHM-P-NEAVYDIIIHGHSKVGNVQKAYDLYKKMV  681 (766)
Q Consensus       610 ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~-p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  681 (766)
                      +.               ..|...|++++|+.++++..+     .|.. | ...+.+.+..++.+.|.+++|..++.++.
T Consensus       399 La---------------~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~  462 (490)
T 3n71_A          399 AG---------------LTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMR  462 (490)
T ss_dssp             HH---------------HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HH---------------HHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            22               566666777776666666542     2321 1 12233445555555566666666665554

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.48  E-value=0.0043  Score=53.44  Aligned_cols=15  Identities=13%  Similarity=0.215  Sum_probs=6.0

Q ss_pred             CChHHHHHHHHHHHH
Q 004244          548 GDIPQALRLHDEMIQ  562 (766)
Q Consensus       548 g~~~~A~~~~~~~~~  562 (766)
                      ++.++|.+.+++..+
T Consensus       111 ~d~~~A~~~~~~Aa~  125 (138)
T 1klx_A          111 KNEKQAVKTFEKACR  125 (138)
T ss_dssp             CCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH
Confidence            334444444443333

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.46  E-value=0.00014  Score=63.33  Aligned_cols=88  Identities=10%  Similarity=0.027  Sum_probs=69.1

Q ss_pred             hhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCCh----------HHHHHHHHHHHHcCCCCC-HHHHHHHH
Q 004244          629 FCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNV----------QKAYDLYKKMVRSGFVPH-TVTIIVLV  696 (766)
Q Consensus       629 ~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~----------~~A~~~~~~m~~~~~~p~-~~~~~~l~  696 (766)
                      ..+.+.+++|++.+++.++.  .| +...|..+..++.+.+++          ++|+..|+++++.  .|+ ...|..++
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l--dP~~~~A~~~LG   87 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIG   87 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh--CcCcHHHHHHHH
Confidence            45677889999999999874  35 788888888888888765          4888888888854  454 46788888


Q ss_pred             HHHHhcC-----------ChHHHHHHHHHHHHcCC
Q 004244          697 KALHTAG-----------MNEELSQVIENILRSCR  720 (766)
Q Consensus       697 ~~~~~~g-----------~~~~A~~~~~~~~~~~~  720 (766)
                      .+|...|           ++++|+.+|+++++.+|
T Consensus        88 ~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P  122 (158)
T 1zu2_A           88 NAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQP  122 (158)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHhcccCcchhhhhccHHHHHHHHHHHHHhCC
Confidence            8888764           78888888888888873

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.46  E-value=0.0059  Score=66.68  Aligned_cols=173  Identities=9%  Similarity=-0.016  Sum_probs=124.6

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC-
Q 004244          410 LDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGR----------VEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQ-  478 (766)
Q Consensus       410 ~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~----------~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-  478 (766)
                      .++|++.++++.... +.+..+|+.--..+...|+          ++++...++.+.+...+ +..+|+.-...+.+.+ 
T Consensus        45 ~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           45 DESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             SHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSS
T ss_pred             CHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHccc
Confidence            456677777776653 2234445544444444455          78888888888877655 7778887777777888 


Q ss_pred             -CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc---------
Q 004244          479 -ELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQR-RITEACELFQEMLSRGMSPDEFTYTTLINAYCTE---------  547 (766)
Q Consensus       479 -~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~---------  547 (766)
                       +++++++.++++.+.... |..+|+.-...+.+.| .++++++.++++++.. +-|...|+.....+.+.         
T Consensus       123 ~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          123 PNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccccccc
Confidence             678888888888887655 7788888777777888 8888888888888775 55777777776666653         


Q ss_pred             -----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004244          548 -----GDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTME  587 (766)
Q Consensus       548 -----g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~  587 (766)
                           +.++++++.+++.+... +-|...|..+-..+.+.++.++
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCccc
Confidence                 55788999998888752 5567788877777777776444

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.43  E-value=0.00028  Score=61.39  Aligned_cols=89  Identities=9%  Similarity=-0.028  Sum_probs=74.7

Q ss_pred             hccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh----------HHHHHHHHHHHHcCCCChHHHHHHHHHHH
Q 004244          665 SKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN----------EELSQVIENILRSCRLSDAELAKVLVEIN  734 (766)
Q Consensus       665 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~----------~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  734 (766)
                      .+.+.+++|++.+++.++.. +.+...|..+..++...|++          ++|+..|+++++.+ |....+|+.++.+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            45677899999999999653 34568888888888888765          59999999999998 67788899999999


Q ss_pred             hcCC-----------ChhHHHHHHHHHHHCCC
Q 004244          735 HKEG-----------NMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       735 ~~~g-----------~~~~A~~~~~~m~~~~~  755 (766)
                      ...|           ++++|++.|++..+.+.
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P  122 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDEQP  122 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHhCC
Confidence            9875           89999999999888654

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.42  E-value=0.00055  Score=55.25  Aligned_cols=66  Identities=14%  Similarity=0.120  Sum_probs=57.2

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      +...+..++.+|.+.|++++|++.|+++++.. +.+...|..++.++...|++++|+..++++++..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~   71 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVA   71 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence            67888999999999999999999999998653 2345788899999999999999999999998764

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.36  E-value=0.00019  Score=59.03  Aligned_cols=84  Identities=15%  Similarity=0.167  Sum_probs=66.9

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-------HHHHHHHHHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-------TVTIIVLVKAL  699 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-------~~~~~~l~~~~  699 (766)
                      ..+...|++++|++.|++.++.. +.+...|..++.++.+.|++++|++.++++++.  .|+       ...+..+..++
T Consensus        12 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~   88 (111)
T 2l6j_A           12 NSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEHVAIRSKLQYRLELAQ   88 (111)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccHHHHHHHHHHHHHHHH
Confidence            78889999999999999999853 227888999999999999999999999999953  555       44556666777


Q ss_pred             HhcCChHHHHHHHH
Q 004244          700 HTAGMNEELSQVIE  713 (766)
Q Consensus       700 ~~~g~~~~A~~~~~  713 (766)
                      ...|+.++|+..++
T Consensus        89 ~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           89 GAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHCCCCCSSSSS
T ss_pred             HHHHhHhhhHhHHH
Confidence            77777666655443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.25  E-value=0.001  Score=53.63  Aligned_cols=55  Identities=16%  Similarity=0.211  Sum_probs=28.3

Q ss_pred             HHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHH
Q 004244          625 LLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMV  681 (766)
Q Consensus       625 l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  681 (766)
                      +...|...|++++|+..|+++++..  | +...|..++.+|...|++++|++.+++.+
T Consensus        13 lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A           13 LAQEHLKHDNASRALALFEELVETD--PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444555555555555555555432  2 34445555555555555555555555544

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.20  E-value=0.0012  Score=69.13  Aligned_cols=89  Identities=7%  Similarity=-0.054  Sum_probs=63.8

Q ss_pred             hhcCCHHHHHHHHHHHHh---CCCCCC----HHHHHHHHHHHhccCChHHHHHHHHHHHH-----cC-CCCCH-HHHHHH
Q 004244          630 CMKGLMNEADRVFELMLQ---RNHMPN----EAVYDIIIHGHSKVGNVQKAYDLYKKMVR-----SG-FVPHT-VTIIVL  695 (766)
Q Consensus       630 ~~~g~~~~A~~~~~~~~~---~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-----~~-~~p~~-~~~~~l  695 (766)
                      ...|++++|+.++++.++   .-+-|+    ..+++.++.+|...|++++|+.+++++++     .| -.|+. .+++.|
T Consensus       309 ~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nL  388 (433)
T 3qww_A          309 KHYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKL  388 (433)
T ss_dssp             TTTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHH
Confidence            356788888888887764   212232    45678888888888888888888888762     22 12333 567788


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHc
Q 004244          696 VKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       696 ~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      +..|...|++++|..+++++++.
T Consensus       389 a~~~~~qg~~~eA~~~~~~Al~i  411 (433)
T 3qww_A          389 GRLYMGLENKAAGEKALKKAIAI  411 (433)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhccCHHHHHHHHHHHHHH
Confidence            88888888888888888888876

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.18  E-value=0.0025  Score=50.29  Aligned_cols=65  Identities=8%  Similarity=-0.022  Sum_probs=30.3

Q ss_pred             CHHHHHHHHHHHhccCC---hHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          653 NEAVYDIIIHGHSKVGN---VQKAYDLYKKMVRSGFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~---~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      ++..+..++.++...++   .++|..+++++++.  .|+ ......++..+...|++++|+.+++++++.+
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~--dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQL--EPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHH--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            44444444444432222   35555555555532  222 2344444455555555555555555555544

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.04  E-value=0.00099  Score=53.42  Aligned_cols=59  Identities=8%  Similarity=0.099  Sum_probs=36.1

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 004244          660 IIHGHSKVGNVQKAYDLYKKMVRSGFVPHTV-TIIVLVKALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       660 l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      .+..+.+.|++++|++.++++++.. +.+.. .+..++.++...|++++|+..++++++.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3445556666666666666666432 22234 56666666666677777777777766665

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.03  E-value=0.0053  Score=47.85  Aligned_cols=59  Identities=17%  Similarity=0.240  Sum_probs=23.2

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004244          468 STIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLS  527 (766)
Q Consensus       468 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  527 (766)
                      ..+...+...|++++|...+++..+.... +...+..+...+...|++++|...+++..+
T Consensus        13 ~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           13 YNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            33333344444444444444444333211 233333344444444444444444444433

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.00  E-value=0.0039  Score=65.31  Aligned_cols=95  Identities=9%  Similarity=0.028  Sum_probs=58.0

Q ss_pred             HHHhhhhhcCCHHHHHHHHHHHHhC---CCCCC----HHHHHHHHHHHhccCChHHHHHHHHHHHH-----cC-CCCCH-
Q 004244          624 ALLKGFCMKGLMNEADRVFELMLQR---NHMPN----EAVYDIIIHGHSKVGNVQKAYDLYKKMVR-----SG-FVPHT-  689 (766)
Q Consensus       624 ~l~~~~~~~g~~~~A~~~~~~~~~~---~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-----~~-~~p~~-  689 (766)
                      ..+..+...|++++|+.++++.++.   -+.|+    ..+++.++.+|...|+|++|+.+++++++     .| ..|+. 
T Consensus       292 ~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a  371 (429)
T 3qwp_A          292 KKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRG  371 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHH
Confidence            3345556667777777777766642   11221    34566677777777777777777776652     12 11222 


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 004244          690 VTIIVLVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       690 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                      .+++.|+..|...|++++|..+++++++.
T Consensus       372 ~~l~nLa~~~~~~g~~~eA~~~~~~Al~i  400 (429)
T 3qwp_A          372 VQVMKVGKLQLHQGMFPQAMKNLRLAFDI  400 (429)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            55666777777777777777777777766

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.85  E-value=0.01  Score=62.04  Aligned_cols=92  Identities=9%  Similarity=0.006  Sum_probs=73.1

Q ss_pred             HHHHhccCChHHHHHHHHHHHHc---CCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHc-----CC--CChHHH
Q 004244          661 IHGHSKVGNVQKAYDLYKKMVRS---GFVPHT----VTIIVLVKALHTAGMNEELSQVIENILRS-----CR--LSDAEL  726 (766)
Q Consensus       661 ~~~~~~~g~~~~A~~~~~~m~~~---~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~--~~~~~~  726 (766)
                      +..+.+.|++++|+++++++++.   -+.|+.    .+++.++.+|...|++++|..+++++++.     ++  |.....
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            44466789999999999999843   122332    67888999999999999999999998854     31  223567


Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          727 AKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       727 ~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      ++.|+..|..+|++++|..++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            89999999999999999999988654

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.82  E-value=0.012  Score=58.83  Aligned_cols=67  Identities=15%  Similarity=0.161  Sum_probs=59.9

Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 004244          652 PNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCR  720 (766)
Q Consensus       652 p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  720 (766)
                      .++.+|..+...+...|++++|+..+++++..+  |+...|..+...+.-.|+.++|...+++++..+|
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P  341 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRP  341 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSC
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            478889888888888899999999999999764  7877888889999999999999999999999984

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.81  E-value=0.0033  Score=65.75  Aligned_cols=85  Identities=12%  Similarity=-0.046  Sum_probs=68.8

Q ss_pred             CChHHHHHHHHHHHH---cCCCCC---H-HHHHHHHHHHHhcCChHHHHHHHHHHHHc-----CC--CChHHHHHHHHHH
Q 004244          668 GNVQKAYDLYKKMVR---SGFVPH---T-VTIIVLVKALHTAGMNEELSQVIENILRS-----CR--LSDAELAKVLVEI  733 (766)
Q Consensus       668 g~~~~A~~~~~~m~~---~~~~p~---~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~--~~~~~~~~~l~~~  733 (766)
                      |++++|+.++++.++   .-+.|+   . .+++.++.+|...|++++|..+++++++.     |+  |.....++.|+..
T Consensus       312 g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  391 (433)
T 3qww_A          312 KSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRL  391 (433)
T ss_dssp             SCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHH
Confidence            689999999998764   222333   3 67889999999999999999999998854     32  2246678999999


Q ss_pred             HhcCCChhHHHHHHHHHHH
Q 004244          734 NHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       734 ~~~~g~~~~A~~~~~~m~~  752 (766)
                      |..+|++++|..++++..+
T Consensus       392 ~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHH
Confidence            9999999999999988764

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.66  E-value=0.14  Score=49.04  Aligned_cols=84  Identities=15%  Similarity=0.199  Sum_probs=67.7

Q ss_pred             CHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHhcc-----CChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhc-
Q 004244          634 LMNEADRVFELMLQRNHMPN---EAVYDIIIHGHSKV-----GNVQKAYDLYKKMVRSGFVPH--TVTIIVLVKALHTA-  702 (766)
Q Consensus       634 ~~~~A~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~-----g~~~~A~~~~~~m~~~~~~p~--~~~~~~l~~~~~~~-  702 (766)
                      ....|..++++.++  +.|+   -..|..++..|.+.     |+.++|.++|+++++.  .|+  ..++..++..++.. 
T Consensus       178 ~l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~L--nP~~~id~~v~YA~~l~~~~  253 (301)
T 3u64_A          178 TVHAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRY--CSAHDPDHHITYADALCIPL  253 (301)
T ss_dssp             HHHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHH--CCTTCSHHHHHHHHHTTTTT
T ss_pred             hHHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHh--CCCCCchHHHHHHHHHHHhc
Confidence            45778888888888  4575   56788899889884     9999999999999865  453  56677788888874 


Q ss_pred             CChHHHHHHHHHHHHcCCC
Q 004244          703 GMNEELSQVIENILRSCRL  721 (766)
Q Consensus       703 g~~~~A~~~~~~~~~~~~~  721 (766)
                      |+.++|..++++++...+.
T Consensus       254 gd~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          254 NNRAGFDEALDRALAIDPE  272 (301)
T ss_dssp             TCHHHHHHHHHHHHHCCGG
T ss_pred             CCHHHHHHHHHHHHcCCCC
Confidence            9999999999999998654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.60  E-value=0.0094  Score=51.18  Aligned_cols=89  Identities=8%  Similarity=0.029  Sum_probs=73.3

Q ss_pred             hhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC---ChHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHhcCC
Q 004244          630 CMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVG---NVQKAYDLYKKMVRSGFVP--HTVTIIVLVKALHTAGM  704 (766)
Q Consensus       630 ~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~m~~~~~~p--~~~~~~~l~~~~~~~g~  704 (766)
                      ...+....+.+.|.+..+.|. ++..+...+..++++++   +.++++.++++..+.. .|  +...+..++-++.+.|+
T Consensus         9 l~~~~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~   86 (152)
T 1pc2_A            9 VSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKE   86 (152)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSC
T ss_pred             CCHHHHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccC
Confidence            344567788888888877654 68888889999999988   5679999999998764 35  34677778889999999


Q ss_pred             hHHHHHHHHHHHHcCC
Q 004244          705 NEELSQVIENILRSCR  720 (766)
Q Consensus       705 ~~~A~~~~~~~~~~~~  720 (766)
                      +++|.++++++++..|
T Consensus        87 Y~~A~~y~~~lL~ieP  102 (152)
T 1pc2_A           87 YEKALKYVRGLLQTEP  102 (152)
T ss_dssp             HHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHhcCC
Confidence            9999999999999984

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.55  E-value=0.027  Score=48.31  Aligned_cols=86  Identities=10%  Similarity=0.039  Sum_probs=66.7

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC---ChHHHHHHHHHHHHcC-CCChHHHHHHHHHHHhcCCChhHHH
Q 004244          669 NVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAG---MNEELSQVIENILRSC-RLSDAELAKVLVEINHKEGNMDAVL  744 (766)
Q Consensus       669 ~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~  744 (766)
                      ....+.+.|.+..+.+ .++..+...+++++.+++   +.++++.+++.+++.+ +......+..|+-++.+.|++++|.
T Consensus        13 ~l~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHH
Confidence            3456677777776655 477888888899999888   6668999999998886 2245677778888899999999999


Q ss_pred             HHHHHHHHCCC
Q 004244          745 NVLTEMAKDGL  755 (766)
Q Consensus       745 ~~~~~m~~~~~  755 (766)
                      ++++++.+..+
T Consensus        92 ~y~~~lL~ieP  102 (152)
T 1pc2_A           92 KYVRGLLQTEP  102 (152)
T ss_dssp             HHHHHHHHHCT
T ss_pred             HHHHHHHhcCC
Confidence            99888877643

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.51  E-value=0.075  Score=53.23  Aligned_cols=120  Identities=10%  Similarity=-0.044  Sum_probs=80.4

Q ss_pred             CHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhc---cC-ChHHH----HHHHHHHHHc-CCCCCHHHHHHHHHHHHhcC
Q 004244          634 LMNEADRVFELMLQRNHMPN-EAVYDIIIHGHSK---VG-NVQKA----YDLYKKMVRS-GFVPHTVTIIVLVKALHTAG  703 (766)
Q Consensus       634 ~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~---~g-~~~~A----~~~~~~m~~~-~~~p~~~~~~~l~~~~~~~g  703 (766)
                      ...+|+.+|+++++.  .|+ ...|..+..+|..   .+ .....    ...++..... ..+.+..++..+...+...|
T Consensus       214 ~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~~~~~~~a~~~~alal~~l~~g  291 (372)
T 3ly7_A          214 SLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTLPELNNLSIIYQIKAVSALVKG  291 (372)
T ss_dssp             HHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhcccCCcCHHHHHHHHHHHHhCC
Confidence            357788888888873  463 4455444444431   11 11111    1112221111 12445677777777777789


Q ss_pred             ChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC
Q 004244          704 MNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLP  757 (766)
Q Consensus       704 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  757 (766)
                      ++++|+..+++++..+  ++...|..++..+.-.|++++|.+.+++....+..+
T Consensus       292 d~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~  343 (372)
T 3ly7_A          292 KTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGA  343 (372)
T ss_dssp             CHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSH
T ss_pred             CHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            9999999999999997  456777889999999999999999999988776543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.34  E-value=0.01  Score=47.24  Aligned_cols=61  Identities=18%  Similarity=0.139  Sum_probs=53.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCChHH-HHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          694 VLVKALHTAGMNEELSQVIENILRSCRLSDAE-LAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       694 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      ..+..+...|++++|+..++++++.. |.+.. .+..++.+|...|++++|.+.+++..+.+.
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p   66 (99)
T 2kc7_A            5 KTIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNP   66 (99)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            35667889999999999999999998 56677 899999999999999999999999887754

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.31  E-value=0.16  Score=58.37  Aligned_cols=45  Identities=16%  Similarity=0.129  Sum_probs=24.5

Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004244          475 SRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEM  525 (766)
Q Consensus       475 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  525 (766)
                      ...|++++|.++.+.+      .+...|..+...+.+.|+++.|.+.|.++
T Consensus       663 l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          663 LKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            4455555555553322      24455666666666666666666665554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.30  E-value=0.13  Score=59.05  Aligned_cols=192  Identities=11%  Similarity=0.020  Sum_probs=108.7

Q ss_pred             HHHccCCHHHHHH-HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChH
Q 004244          473 GFSRSQELDKAFD-TKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIP  551 (766)
Q Consensus       473 ~~~~~g~~~~A~~-~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  551 (766)
                      .....+++++|.+ ++..+      ++......++..+.+.|..++|.++.+.-       .     .-.......|+++
T Consensus       608 ~~~~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~~-------~-----~~f~~~l~~~~~~  669 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPDQ-------D-----QKFELALKVGQLT  669 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCCH-------H-----HHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCCc-------c-----hheehhhhcCCHH
Confidence            3445778888766 44211      11223366777778888888887665321       1     1123345678888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhh
Q 004244          552 QALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCM  631 (766)
Q Consensus       552 ~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~  631 (766)
                      +|.++.+.+      .+...|..+...+.+.|+++.|.+.|.++..         |..+.               ..|..
T Consensus       670 ~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~---------------~l~~~  719 (814)
T 3mkq_A          670 LARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLF---------------LLHSS  719 (814)
T ss_dssp             HHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHH---------------HHHHH
T ss_pred             HHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhH---------------HHHHH
Confidence            888875432      4678888888888888888888888877632         12222               34444


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 004244          632 KGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQV  711 (766)
Q Consensus       632 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  711 (766)
                      .|+.+...++.+.....|   +   ++....++.+.|++++|++++.                      +.+++++|..+
T Consensus       720 ~~~~~~~~~~~~~a~~~~---~---~~~A~~~~~~~g~~~~a~~~~~----------------------~~~~~~~A~~l  771 (814)
T 3mkq_A          720 FNNKEGLVTLAKDAETTG---K---FNLAFNAYWIAGDIQGAKDLLI----------------------KSQRFSEAAFL  771 (814)
T ss_dssp             TTCHHHHHHHHHHHHHTT---C---HHHHHHHHHHHTCHHHHHHHHH----------------------HTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcC---c---hHHHHHHHHHcCCHHHHHHHHH----------------------HcCChHHHHHH
Confidence            666665555544444432   1   2233334445555555555544                      44566666665


Q ss_pred             HHHHHHcCCCC--hHHHHHHHHHHHhcCCChhHH
Q 004244          712 IENILRSCRLS--DAELAKVLVEINHKEGNMDAV  743 (766)
Q Consensus       712 ~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A  743 (766)
                      .++   .++..  -..+.......+...|+.+.|
T Consensus       772 A~~---~~~~~~~i~~~~~~~~~~L~~~~~~~~a  802 (814)
T 3mkq_A          772 GST---YGLGDNEVNDIVTKWKENLILNGKNTVS  802 (814)
T ss_dssp             HHH---TTCCHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHH---hCCChHHHHHHHHHHHHHHHhccchhHH
Confidence            443   33222  224444555666667765433

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.15  E-value=0.048  Score=43.91  Aligned_cols=74  Identities=7%  Similarity=-0.077  Sum_probs=55.8

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcC------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSG------FVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAEL  726 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~------~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  726 (766)
                      +..-+..++..+.+.|+++.|...++++++.-      -.+....+..++.++.+.|++++|..+++++++..| .+..+
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P-~~~~~   82 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDP-EHQRA   82 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC-CCHHH
Confidence            44556678888889999999999988877431      123446778888999999999999999999998874 44444


Q ss_pred             H
Q 004244          727 A  727 (766)
Q Consensus       727 ~  727 (766)
                      .
T Consensus        83 ~   83 (104)
T 2v5f_A           83 N   83 (104)
T ss_dssp             H
T ss_pred             H
Confidence            3

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.10  E-value=0.044  Score=46.26  Aligned_cols=103  Identities=13%  Similarity=0.168  Sum_probs=71.0

Q ss_pred             CHHHHHHHHHHHhccCCh------HHHHHHHHHHHHcCCCCCH-HHHHHHH------HHHHhcCChHHHHHHHHHHHHcC
Q 004244          653 NEAVYDIIIHGHSKVGNV------QKAYDLYKKMVRSGFVPHT-VTIIVLV------KALHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~------~~A~~~~~~m~~~~~~p~~-~~~~~l~------~~~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      |..+|-..+....+.|+.      ++.++.|+++... ++|+. ..|...+      ..+...++.++|.++|+.+++..
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            677777777777777877      7778888887753 45543 1111111      11234478888888888887763


Q ss_pred             CCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC
Q 004244          720 RLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLP  757 (766)
Q Consensus       720 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  757 (766)
                       ..-+.+|...+..-.++|+...|.+++.+....+.+|
T Consensus        91 -KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           91 -KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             -TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             -HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence             3337778777888888888888888888888877665

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.08  E-value=0.027  Score=53.98  Aligned_cols=90  Identities=17%  Similarity=0.109  Sum_probs=74.6

Q ss_pred             hHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcC-CCh
Q 004244          670 VQKAYDLYKKMVRSGFVPH---TVTIIVLVKALHTA-----GMNEELSQVIENILRSCRLSDAELAKVLVEINHKE-GNM  740 (766)
Q Consensus       670 ~~~A~~~~~~m~~~~~~p~---~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~  740 (766)
                      ..+|...++++++.  .|+   ...|..++..|...     |+.++|.+.|+++++.++..+..++...++.++.. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            46788888888854  566   46788888888884     99999999999999998555588888899999985 999


Q ss_pred             hHHHHHHHHHHHCCCCCCCCC
Q 004244          741 DAVLNVLTEMAKDGLLPNSGR  761 (766)
Q Consensus       741 ~~A~~~~~~m~~~~~~~~~~~  761 (766)
                      ++|.+.+++..+.....+|++
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~  277 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHN  277 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSC
T ss_pred             HHHHHHHHHHHcCCCCCCCCh
Confidence            999999999999888854543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.96  E-value=0.048  Score=42.80  Aligned_cols=70  Identities=7%  Similarity=0.029  Sum_probs=55.9

Q ss_pred             CCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCC
Q 004244          686 VPHTVTIIVLVKALHTAGM---NEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLL  756 (766)
Q Consensus       686 ~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  756 (766)
                      +.|...+..++.++...++   .++|...++++++.+ |.+......++..+.+.|++++|+..|+++.+....
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            3456777777877765544   688999999999888 677888888888888899999999999988887765

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.84  E-value=0.054  Score=43.61  Aligned_cols=67  Identities=15%  Similarity=0.108  Sum_probs=57.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC------CCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          688 HTVTIIVLVKALHTAGMNEELSQVIENILRSC------RLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       688 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      +..-+..++..+...|+++.|+.+++++++..      ......++..|+.++.+.|++++|...++++.+..
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            44556788999999999999999999999862      13467889999999999999999999999987654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.70  E-value=3.8  Score=46.40  Aligned_cols=280  Identities=13%  Similarity=0.053  Sum_probs=154.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCC-------CCCHHHHHHHHHH
Q 004244          438 GHCTGGRVEDAVGVLHGMARKG--LAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGV-------LPDTITYSSLIHG  508 (766)
Q Consensus       438 ~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-------~p~~~~~~~li~~  508 (766)
                      +....|+.++++.++......+  -.+....-..+.-+....|..+++...+.......-       .+....-.++.-+
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            4567788888888776655421  122234444455566677766678887777655321       0112222333334


Q ss_pred             HHhcCC-HHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH--HHhcC
Q 004244          509 LCEQRR-ITEACELFQEMLSRGMSPDEF--TYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLING--LNKQA  583 (766)
Q Consensus       509 ~~~~g~-~~~A~~~~~~m~~~~~~p~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~--~~~~g  583 (766)
                      +...|. -+++.+.+..++... .+...  .--+|...++-.|+-+....++..+.+..   +......++-+  +...|
T Consensus       463 la~~GS~~eev~e~L~~~L~dd-~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g  538 (963)
T 4ady_A          463 LAAMGSANIEVYEALKEVLYND-SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYG  538 (963)
T ss_dssp             HHSTTCCCHHHHHHHHHHHHTC-CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTT
T ss_pred             HHhcCCCCHHHHHHHHHHHhcC-CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCC
Confidence            443443 246666666666543 11111  11233344557788887888888777642   33333444444  44678


Q ss_pred             CHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004244          584 RTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHG  663 (766)
Q Consensus       584 ~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  663 (766)
                      +.+.+..+++.+...  .....-|...+            ++.-+|+..|+.....+++..+.+.. ..+..-...+.-+
T Consensus       539 ~~e~~~~li~~L~~~--~dp~vRygaa~------------alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLG  603 (963)
T 4ady_A          539 RQELADDLITKMLAS--DESLLRYGGAF------------TIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALG  603 (963)
T ss_dssp             CGGGGHHHHHHHHHC--SCHHHHHHHHH------------HHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhC--CCHHHHHHHHH------------HHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHH
Confidence            888888888887653  22222333222            22267889999888888998888641 2233333333334


Q ss_pred             HhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh-HHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCC
Q 004244          664 HSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN-EELSQVIENILRSCRLSDAELAKVLVEINHKEG  738 (766)
Q Consensus       664 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  738 (766)
                      +...|+.+.+..+++.+.+.+ .|....-..++-+....|+. .+|+..+.++.... .+.+......+-+..-.|
T Consensus       604 lI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~-d~~Vrq~Ai~ALG~Ig~g  677 (963)
T 4ady_A          604 FVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDP-VDFVRQAAMIALSMILIQ  677 (963)
T ss_dssp             HHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCS-SHHHHHHHHHHHHHHSTT
T ss_pred             hhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCC-CHHHHHHHHHHHHHHhcC
Confidence            445677666677776665443 45444444555555556654 67888888887532 333333333344444444

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.10  E-value=0.15  Score=42.09  Aligned_cols=88  Identities=7%  Similarity=-0.013  Sum_probs=67.6

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHH---HHHHHHHHHHcCCCC--CHHHHHHHHHHHHhcCChH
Q 004244          632 KGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQK---AYDLYKKMVRSGFVP--HTVTIIVLVKALHTAGMNE  706 (766)
Q Consensus       632 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~---A~~~~~~m~~~~~~p--~~~~~~~l~~~~~~~g~~~  706 (766)
                      ......+.+.|.+....|. |+..+-..+.+++.++.+..+   ++.++++..+.+ .|  .......++-++.+.|+++
T Consensus        14 ~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~   91 (126)
T 1nzn_A           14 VEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYE   91 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHH
Confidence            3445566666766665443 678888888999999988765   999999988653 24  2356667888999999999


Q ss_pred             HHHHHHHHHHHcCCC
Q 004244          707 ELSQVIENILRSCRL  721 (766)
Q Consensus       707 ~A~~~~~~~~~~~~~  721 (766)
                      +|..+++.+++..|.
T Consensus        92 ~A~~~~~~lL~~eP~  106 (126)
T 1nzn_A           92 KALKYVRGLLQTEPQ  106 (126)
T ss_dssp             HHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHhCCC
Confidence            999999999999843

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=94.66  E-value=0.087  Score=45.53  Aligned_cols=96  Identities=11%  Similarity=0.071  Sum_probs=54.2

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHcC-CCCC-----H--HHHHHHHHHHHhcCChHHHHHHHHHHHHc------------
Q 004244          659 IIIHGHSKVGNVQKAYDLYKKMVRSG-FVPH-----T--VTIIVLVKALHTAGMNEELSQVIENILRS------------  718 (766)
Q Consensus       659 ~l~~~~~~~g~~~~A~~~~~~m~~~~-~~p~-----~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------------  718 (766)
                      .-+..+...|.++.|+-+.+.++... ..|+     .  .++..++++++..|++.+|...|+++++.            
T Consensus        25 dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~  104 (167)
T 3ffl_A           25 DHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRP  104 (167)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence            33444555555555555555433110 1111     1  23444555555555555555555554322            


Q ss_pred             ------------CCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          719 ------------CRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       719 ------------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                                  ....+.++-..++.+|.+.|++++|+.+++.+..+.
T Consensus       105 ~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~  152 (167)
T 3ffl_A          105 STGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQ  152 (167)
T ss_dssp             ------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGG
T ss_pred             cccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchh
Confidence                        112345666779999999999999999988765443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.45  E-value=0.95  Score=39.84  Aligned_cols=97  Identities=12%  Similarity=0.228  Sum_probs=44.8

Q ss_pred             HcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 004244          266 KLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALV  345 (766)
Q Consensus       266 ~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  345 (766)
                      ..|+++.|.++.+++      -+...|..+.......|+++-|.+.|.+...         +..+.-.|...|+.+.-..
T Consensus        17 ~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           17 EYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             hcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            445555555555444      1344555555555555555555555555432         2333333444455444444


Q ss_pred             HHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHH
Q 004244          346 LHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFD  383 (766)
Q Consensus       346 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  383 (766)
                      +-+.....|      -++.-...+.-.|+++++.++|.
T Consensus        82 la~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~  113 (177)
T 3mkq_B           82 MQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFA  113 (177)
T ss_dssp             HHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHH
Confidence            333333322      12333333444455555555553

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.31  E-value=1.9  Score=35.59  Aligned_cols=63  Identities=22%  Similarity=0.138  Sum_probs=31.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 004244          502 YSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGF  565 (766)
Q Consensus       502 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~  565 (766)
                      ....++.+...|+-++-.+++..+... .+|++.....+.++|.+.|+..+|.+++.+..++|+
T Consensus        94 vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           94 VNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            334444455555555555555554332 244555555555555555555555555555555543

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.18  E-value=0.19  Score=41.40  Aligned_cols=87  Identities=11%  Similarity=0.076  Sum_probs=67.8

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHH---HHHHHHHHHHcCCC-ChHHHHHHHHHHHhcCCChhHH
Q 004244          668 GNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEE---LSQVIENILRSCRL-SDAELAKVLVEINHKEGNMDAV  743 (766)
Q Consensus       668 g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A  743 (766)
                      .....+.+.|.+....| .|+..+-..+++++.++.+.++   ++.+++.+.+.+.| ..-.....|+-++.+.|++++|
T Consensus        15 ~~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHH
Confidence            33455666677666555 4788888889999999988766   99999998887622 3456677899999999999999


Q ss_pred             HHHHHHHHHCCC
Q 004244          744 LNVLTEMAKDGL  755 (766)
Q Consensus       744 ~~~~~~m~~~~~  755 (766)
                      .+.++.+.+..+
T Consensus        94 ~~~~~~lL~~eP  105 (126)
T 1nzn_A           94 LKYVRGLLQTEP  105 (126)
T ss_dssp             HHHHHHHHHHCT
T ss_pred             HHHHHHHHHhCC
Confidence            999999887643

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.98  E-value=0.23  Score=55.17  Aligned_cols=122  Identities=11%  Similarity=0.108  Sum_probs=82.5

Q ss_pred             hhhhhcCC-HHHHHHHHHHHHhCCCCCCHHH-H-HHHHHHHhccCC-hHHHHHHHHHHHHc------CCCCCHH------
Q 004244          627 KGFCMKGL-MNEADRVFELMLQRNHMPNEAV-Y-DIIIHGHSKVGN-VQKAYDLYKKMVRS------GFVPHTV------  690 (766)
Q Consensus       627 ~~~~~~g~-~~~A~~~~~~~~~~~~~p~~~~-~-~~l~~~~~~~g~-~~~A~~~~~~m~~~------~~~p~~~------  690 (766)
                      ..+...|+ .+.|+.+++++.+..  |...+ + ..++..+.+.++ --+|+.++.+.++.      ...+...      
T Consensus       256 ~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~~  333 (754)
T 4gns_B          256 SFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLM  333 (754)
T ss_dssp             HHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHH
T ss_pred             HHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccccc
Confidence            45555666 588999999998753  53333 2 233333333332 23566666665421      1122110      


Q ss_pred             -----HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHH
Q 004244          691 -----TIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMA  751 (766)
Q Consensus       691 -----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  751 (766)
                           ....=++-|...|+++-|..+.++++... |.+..+|..|+.+|...|+++.|+-.++.+.
T Consensus       334 ~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          334 NCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             CcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                 11111445667899999999999999997 7889999999999999999999999988874

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.84  E-value=2.4  Score=35.02  Aligned_cols=84  Identities=6%  Similarity=0.029  Sum_probs=55.7

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 004244          631 MKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQ  710 (766)
Q Consensus       631 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  710 (766)
                      .+|++......+-.+-     .+....+..++.+..+|+-++-.+++..++. +-+|++.....++.+|.+.|+..+|.+
T Consensus        73 ~C~NlKrVi~C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~e  146 (172)
T 1wy6_A           73 KCQNLKSVVECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATT  146 (172)
T ss_dssp             GCSCTHHHHHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hhhcHHHHHHHHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHH
Confidence            4566666666654432     2444556667777777777777777777543 235667777777777778888877777


Q ss_pred             HHHHHHHcCC
Q 004244          711 VIENILRSCR  720 (766)
Q Consensus       711 ~~~~~~~~~~  720 (766)
                      ++.++-+.|.
T Consensus       147 Ll~~AC~kG~  156 (172)
T 1wy6_A          147 LLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHTTC
T ss_pred             HHHHHHHhhh
Confidence            7777777763

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=93.41  E-value=2.7  Score=36.95  Aligned_cols=102  Identities=13%  Similarity=0.136  Sum_probs=68.1

Q ss_pred             HHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChh
Q 004244          227 RGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLK  306 (766)
Q Consensus       227 ~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  306 (766)
                      ....+.|+++.|.++.+++      .+...|..|.......|+++-|.+.|.+...         +..+.-.|.-.|+.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHH
Confidence            3445678888888887765      2567788888888888888888888877642         334444555667776


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 004244          307 ETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAE  349 (766)
Q Consensus       307 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  349 (766)
                      .-.++-+.....|      -++.....+.-.|+++++.+++.+
T Consensus        78 ~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           78 KLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6665555554443      144455556667888888877754

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=93.33  E-value=0.0015  Score=66.57  Aligned_cols=448  Identities=13%  Similarity=0.086  Sum_probs=246.7

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhCCCCCCHHHHHH
Q 004244          145 SSAVIDLVVKSYSHLNMIDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKSRVSPNVYTYNV  224 (766)
Q Consensus       145 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  224 (766)
                      .+.+|+.|.++..+.|++.+|++.|=+      .-|+..|..++.+..+.|..   ++-.+.+.-.++.  .-+...=+.
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIk------A~Dps~y~eVi~~A~~~~~~---edLv~yL~MaRk~--~ke~~IDte  121 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNW---EELVKYLQMARKK--ARESYVETE  121 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCC------CSCCCSSSHHHHHTTTSSCC---TTHHHHHHTTSTT--CCSTTTTHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHh------CCChHHHHHHHHHHHhCCCH---HHHHHHHHHHHHH--hcccccHHH
Confidence            567899999999999999998876632      24777788888888888843   5555555444433  233444467


Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCC
Q 004244          225 LIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGR  304 (766)
Q Consensus       225 li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~  304 (766)
                      |+-+|.+.+++.+-.+++       -.||+.-...+.+-|...|.++.|.-+|..+..         |..|...+.+.|+
T Consensus       122 Li~ayAk~~rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN---------~akLAstLV~L~~  185 (624)
T 3lvg_A          122 LIFALAKTNRLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGE  185 (624)
T ss_dssp             HHHHHHTSCSSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCC---------CTTTSSSSSSCSG
T ss_pred             HHHHHHhhCcHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCcc---------HHHHHHHHHHHHH
Confidence            888888888876533322       236666677788888888888888877765532         3445555667788


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004244          305 LKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQ  384 (766)
Q Consensus       305 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  384 (766)
                      +.+|.+.-++.      -++.||-.+-.+|...+++.-|...--.++-.   +  .....++..|-..|.+++-+.+++.
T Consensus       186 yq~AVdaArKA------ns~ktWKeV~~ACvd~~EfrLAqicGLniIvh---a--deL~elv~~YE~~G~f~ELIsLlEa  254 (624)
T 3lvg_A          186 YQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH---A--DELEELINYYQDRGYFEELITMLEA  254 (624)
T ss_dssp             GGSSTTTTTTC------CSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---S--SCCSGGGSSSSTTCCCTTSTTTHHH
T ss_pred             HHHHHHHHHhc------CChhHHHHHHHHHhCchHHHHHHHhcchhccc---H--HHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            77776543322      35668888888999999888776655444432   1  1223466778888999999998888


Q ss_pred             HHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004244          385 MHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKN-GFMPSI-------VTYNALIKGHCTGGRVEDAVGVLHGMA  456 (766)
Q Consensus       385 m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-g~~~~~-------~~~~~ll~~~~~~g~~~~A~~~~~~~~  456 (766)
                      -... -+.....|+-|.-.|++- +.++..+.++..-.+ ++ |..       ..|.-++-.|++-.+++.|...   |.
T Consensus       255 glgl-ErAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNi-pKviracE~ahLW~ElvfLY~~ydE~DnA~lt---Mi  328 (624)
T 3lvg_A          255 ALGL-ERAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNI-PKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MM  328 (624)
T ss_dssp             HTTS-TTCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCC-TTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHT---TT
T ss_pred             HhCC-CchhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccH-HHHHHHHHHHhhHHHHHHHHhcchhHHHHHHH---HH
Confidence            7643 234667777777777765 344444444433221 11 111       1233444444444444433221   11


Q ss_pred             HC-------C-------CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 004244          457 RK-------G-------LAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELF  522 (766)
Q Consensus       457 ~~-------~-------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  522 (766)
                      ++       +       -..+...|-.-|..|....- ..--+++.-+..+ +.+.     ..++.+.+.|+..-....+
T Consensus       329 ~h~~~Aw~h~~Fkdii~KVaN~EiyYKAi~FYL~e~P-~lL~DLL~vL~pr-lDh~-----RvV~~~~k~~~LpLIkpYL  401 (624)
T 3lvg_A          329 NHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEFKP-LLLNDLLMVLSPR-LDHT-----RAVNYFSKVKQLPLVKPYL  401 (624)
T ss_dssp             SCHHHHCCGGGGTTTGGGCSCSHHHHHHHHHHTTSCC-TTSHHHHHHHCTT-CCST-----TTHHHHHTTTCGGGGTGGG
T ss_pred             hCChhhccHHHHHHHHHHcchHHHHHHHHHHHHHhCh-HHHHHHHHhcccc-CChH-----HHHHHHHhcCCchhhHHHH
Confidence            10       0       01123333333333332211 0001111111000 0000     1122223333333322222


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHH------------HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004244          523 QEMLSRGMSPDEFTYTTLINAYCTEGDIPQALR------------LHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKK  590 (766)
Q Consensus       523 ~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~------------~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  590 (766)
                      ...+.   .-+...=.++-+.|....+++.-+.            +-+++.++   +-...-......|.++++|++++.
T Consensus       402 ~~Vq~---~N~~aVNeAln~L~IEEEDy~~LR~SId~ydNFD~i~LA~rLEkH---eL~eFRrIAA~LYkkn~rw~qsi~  475 (624)
T 3lvg_A          402 RSVQN---HNNKSVNESLNNLFITEEDYQALRTSIDAYDNFDNISLAQRLEKH---ELIEFRRIAAYLFKGNNRWKQSVE  475 (624)
T ss_dssp             TSCCC---SCCHHHHHHHHHHHHHTTCCHHHHHTTSSCCCSCTTHHHHHHHTC---SSHHHHHHHHHHHHTTCHHHHHSS
T ss_pred             HHHHH---hhHHHHHHHHHHHHhhhhhHHHHHHHHHHhccccHHHHHHHHhhC---chHHHHHHHHHHHHhcccHHHHHH
Confidence            22211   1123333455556666666654332            22233322   222333344455677888888776


Q ss_pred             HHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCCh
Q 004244          591 LLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNV  670 (766)
Q Consensus       591 l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  670 (766)
                      +.++=   +      .|.-.+               ......|+.+-|.++++-..+.|   +...|.+.+..|...=++
T Consensus       476 l~KkD---k------lykDAi---------------etAa~S~~~elaeeLL~yFv~~g---~~EcF~a~LytCYdLlrp  528 (624)
T 3lvg_A          476 LCKKD---S------LYKDAM---------------QYASESKDTELAEELLQWFLQEE---KRECFGACLFTCYDLLRP  528 (624)
T ss_dssp             CSSTT---C------CTTGGG---------------TTTTTCCCTTHHHHHHHHHHHHC---STHHHHHHHHHTSSSSSC
T ss_pred             HHHhc---c------cHHHHH---------------HHHHHcCCHHHHHHHHHHHHHcC---chHHHHHHHHHHhhccCh
Confidence            54321   1      222223               55667788888888888887755   455666777777777777


Q ss_pred             HHHHHH
Q 004244          671 QKAYDL  676 (766)
Q Consensus       671 ~~A~~~  676 (766)
                      +-++++
T Consensus       529 DvVlEl  534 (624)
T 3lvg_A          529 DVVLET  534 (624)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            777665

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=92.28  E-value=2.7  Score=34.74  Aligned_cols=74  Identities=8%  Similarity=0.019  Sum_probs=58.4

Q ss_pred             CCCCCHHHHHHHHHHHhccCCh---HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 004244          649 NHMPNEAVYDIIIHGHSKVGNV---QKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLS  722 (766)
Q Consensus       649 ~~~p~~~~~~~l~~~~~~~g~~---~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  722 (766)
                      +..|+..+--.+.+++.++.+.   .+++.+++++.+.+..-....+-.++-++.+.|++++|.++.+.+++..|.+
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N  111 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNN  111 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTC
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCC
Confidence            4457888877888888888765   5789999998876521234677788889999999999999999999998443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=91.61  E-value=0.0025  Score=64.99  Aligned_cols=118  Identities=15%  Similarity=0.165  Sum_probs=84.2

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 004244          219 VYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIING  298 (766)
Q Consensus       219 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~  298 (766)
                      ...|..|..+..+.+++.+|++.|   ++.   .|...|..+|....+.|.+++-.+.+.-..+..  .+...=+.++-+
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsy---IkA---~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~a  125 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSY---IKA---DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFA  125 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSS---CCC---SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHH---HhC---CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHH
Confidence            446788888888888888876544   222   266678888888888899888888776555442  244455678888


Q ss_pred             HHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 004244          299 LCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMV  351 (766)
Q Consensus       299 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  351 (766)
                      |++.+++.+-.+++       -.||..-...+.+-|...|.++.|.-+|..+.
T Consensus       126 yAk~~rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~is  171 (624)
T 3lvg_A          126 LAKTNRLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS  171 (624)
T ss_dssp             HHTSCSSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSC
T ss_pred             HHhhCcHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCc
Confidence            88888876644332       12666667778888888898888888876553

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.55  E-value=8.1  Score=40.22  Aligned_cols=192  Identities=13%  Similarity=0.069  Sum_probs=119.6

Q ss_pred             cCCHHHHHHHHHHHHHC-----CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCH
Q 004244          512 QRRITEACELFQEMLSR-----GMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQK-GFLPDVVTYSVLINGLNKQART  585 (766)
Q Consensus       512 ~g~~~~A~~~~~~m~~~-----~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-g~~p~~~~~~~li~~~~~~g~~  585 (766)
                      .|++++|++.+-.+.+.     +..........++..|...|+++...+.+..+.++ |..+  .....++..       
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk--~ai~~~V~~-------   99 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLK--LSIQYMIQK-------   99 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSH--HHHHHHHHH-------
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhH--HHHHHHHHH-------
Confidence            37889998888776642     33445667888999999999999988887766644 3222  222233322       


Q ss_pred             HHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhh----------hhhHHHHHhhhhhcCCHHHHHHHHHHHHh--CCCCCC
Q 004244          586 MEAKKLLLKLFYDESVPSDVIYNTLIENCTNIE----------FQNVAALLKGFCMKGLMNEADRVFELMLQ--RNHMPN  653 (766)
Q Consensus       586 ~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~p~  653 (766)
                        +...+...    ..++..+...++.......          ......|...|...|++.+|..++..+..  .|..+.
T Consensus       100 --~~~~l~~~----~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~  173 (445)
T 4b4t_P          100 --VMEYLKSS----KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEM  173 (445)
T ss_dssp             --HHHHHHHH----CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCH
T ss_pred             --HHHHHhcC----CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccH
Confidence              22333332    2234444444443322211          11234677888888999999998888763  332221


Q ss_pred             ---HHHHHHHHHHHhccCChHHHHHHHHHHHH----cCCCCCH--HHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 004244          654 ---EAVYDIIIHGHSKVGNVQKAYDLYKKMVR----SGFVPHT--VTIIVLVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       654 ---~~~~~~l~~~~~~~g~~~~A~~~~~~m~~----~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                         ...+...++.|...+++.+|..+++++..    ....|+.  ..+...+..+...+++.+|-..|..+...
T Consensus       174 ~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~  247 (445)
T 4b4t_P          174 SEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQT  247 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence               34566777888888999998888888642    2222222  34445666777788888888887777665

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=91.48  E-value=1.3  Score=37.41  Aligned_cols=31  Identities=10%  Similarity=-0.068  Sum_probs=17.8

Q ss_pred             CCHHHHHHHHHHHHhcCCh------hhHHHHHHHHHh
Q 004244          217 PNVYTYNVLIRGFCGVGDL------EMGLRFFSEMEK  247 (766)
Q Consensus       217 ~~~~~~~~li~~~~~~g~~------~~A~~~~~~m~~  247 (766)
                      -|..+|-..+..+-+.|+.      ++.+++|++...
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia   47 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE   47 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH
Confidence            3455555555555555665      555566666554

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=91.45  E-value=3.9  Score=34.27  Aligned_cols=73  Identities=8%  Similarity=0.018  Sum_probs=57.9

Q ss_pred             CCCCHHHHHHHHHHHhccCCh---HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 004244          650 HMPNEAVYDIIIHGHSKVGNV---QKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLS  722 (766)
Q Consensus       650 ~~p~~~~~~~l~~~~~~~g~~---~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  722 (766)
                      ..|+..+-..+.+++.++.+.   .+++.+++.+...+..-.....-.++-++.+.|++++|.++.+.+++..|.+
T Consensus        35 ~~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n  110 (144)
T 1y8m_A           35 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNN  110 (144)
T ss_dssp             TTSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCC
T ss_pred             CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCc
Confidence            357888878888999988765   5789999998875422234666678889999999999999999999998433

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=91.15  E-value=4.9  Score=33.65  Aligned_cols=70  Identities=9%  Similarity=-0.036  Sum_probs=58.9

Q ss_pred             CCCHHHHHHHHHHHHhcCCh---HHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          686 VPHTVTIIVLVKALHTAGMN---EELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       686 ~p~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      .|+..+-..+++++.++.+.   .+++.+++.+.+.++...-.....|+-++.+.|++++|.++.+.+.+..+
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP  108 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHER  108 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCC
Confidence            57778888899999988765   57899999999987556677778899999999999999999998887643

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=90.40  E-value=3  Score=34.48  Aligned_cols=71  Identities=10%  Similarity=-0.012  Sum_probs=59.3

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCh---HHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          684 GFVPHTVTIIVLVKALHTAGMN---EELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       684 ~~~p~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      +-.|+..+-..+++++.++.+.   .+++.+++.+.+.++...-..+..|+-++.+.|++++|.++.+.+.+..
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~e  108 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  108 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhC
Confidence            3467778888899999988765   5789999999988754567778889999999999999999999988764

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=90.08  E-value=4.4  Score=41.37  Aligned_cols=69  Identities=14%  Similarity=0.134  Sum_probs=55.1

Q ss_pred             HHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHH-----HcCCCCCHHHHH
Q 004244          623 AALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMV-----RSGFVPHTVTII  693 (766)
Q Consensus       623 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~-----~~~~~p~~~~~~  693 (766)
                      ..++..+...|+.++|+..+..+...  .| +...|..++.+|.+.|+..+|++.|+++.     +.|+.|...+-.
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~--~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFE--HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            34457788899999999998888864  35 78889999999999999999999988864     358888876543

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=89.80  E-value=8.7  Score=38.97  Aligned_cols=57  Identities=11%  Similarity=-0.013  Sum_probs=25.6

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHHhcCChHHHHHHHHHHH
Q 004244          660 IIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-----VTIIVLVKALHTAGMNEELSQVIENIL  716 (766)
Q Consensus       660 l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~  716 (766)
                      ++..|...|++.+|.+++.++.+.--..|.     ..+..-+..+...|+..++...+.++.
T Consensus       105 L~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~  166 (394)
T 3txn_A          105 LIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSAR  166 (394)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            444555555555555555554421001111     233333444455555555555555544

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=88.85  E-value=36  Score=38.66  Aligned_cols=313  Identities=12%  Similarity=0.071  Sum_probs=163.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-------CCCHHHHHHHH
Q 004244          401 INGFSQHGFLDEAYRLLNEMTKNGFMPSI--VTYNALIKGHCTGGRVEDAVGVLHGMARKGL-------APDVVSYSTII  471 (766)
Q Consensus       401 i~~~~~~g~~~~A~~l~~~m~~~g~~~~~--~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~-------~~~~~~~~~li  471 (766)
                      .-|....|+.++++.+++.....+-..+.  ..-..+.-+....|..+++..++.......-       .+....-.++.
T Consensus       381 SLGlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLG  460 (963)
T 4ady_A          381 SLGVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLG  460 (963)
T ss_dssp             HHHHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHH
T ss_pred             HhhhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHH
Confidence            44567788888888888776542111222  2333344455566666677777776655311       11122333444


Q ss_pred             HHHHccCC-HHHHHHHHHHHHHCCCCCCHHH--HH--HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004244          472 SGFSRSQE-LDKAFDTKREMVEKGVLPDTIT--YS--SLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCT  546 (766)
Q Consensus       472 ~~~~~~g~-~~~A~~~~~~m~~~~~~p~~~~--~~--~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~  546 (766)
                      -+..-.|. -+++.+.+..+....   +...  ..  +|.-.++-.|+.+....++..+.+.. ..+..-.-.+.-++..
T Consensus       461 LGla~~GS~~eev~e~L~~~L~dd---~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~  536 (963)
T 4ady_A          461 IGLAAMGSANIEVYEALKEVLYND---SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALIN  536 (963)
T ss_dssp             HHHHSTTCCCHHHHHHHHHHHHTC---CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHT
T ss_pred             HHHHhcCCCCHHHHHHHHHHHhcC---CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhh
Confidence            44444443 245666666666542   2221  22  23333456688888888888777642 2222222333344557


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHH
Q 004244          547 EGDIPQALRLHDEMIQKGFLPDVVTYS--VLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAA  624 (766)
Q Consensus       547 ~g~~~~A~~~~~~~~~~g~~p~~~~~~--~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~  624 (766)
                      .|+.+.+..+.+.+... ..|....-.  ++.-+|+..|+.....+++..+... .. +.+--.++++            
T Consensus       537 ~g~~e~~~~li~~L~~~-~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d-~~-d~VRraAVia------------  601 (963)
T 4ady_A          537 YGRQELADDLITKMLAS-DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD-SN-DDVRRAAVIA------------  601 (963)
T ss_dssp             TTCGGGGHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC-SC-HHHHHHHHHH------------
T ss_pred             CCChHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC-Cc-HHHHHHHHHH------------
Confidence            78999888888888764 122222222  2334567788887777788888764 12 2222222221            


Q ss_pred             HHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCCh-HHHHHHHHHHHHcCCCCCHHHHHHH--HHHHHh
Q 004244          625 LLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNV-QKAYDLYKKMVRSGFVPHTVTIIVL--VKALHT  701 (766)
Q Consensus       625 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~-~~A~~~~~~m~~~~~~p~~~~~~~l--~~~~~~  701 (766)
                        -+....|+.+.+.++++.+.+.+ .|....-..+.-+..-.|+. .+|++.+..+..   .+|..+-...  .-+...
T Consensus       602 --LGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~---D~d~~Vrq~Ai~ALG~Ig  675 (963)
T 4ady_A          602 --LGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK---DPVDFVRQAAMIALSMIL  675 (963)
T ss_dssp             --HHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT---CSSHHHHHHHHHHHHHHS
T ss_pred             --HHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc---CCCHHHHHHHHHHHHHHh
Confidence              34445566666677776666543 34443333444444445554 688889998873   4555433322  333344


Q ss_pred             cCChHH----HHHHHH---HHHHc-CCCChHHHHHHHHHHHhcCC
Q 004244          702 AGMNEE----LSQVIE---NILRS-CRLSDAELAKVLVEINHKEG  738 (766)
Q Consensus       702 ~g~~~~----A~~~~~---~~~~~-~~~~~~~~~~~l~~~~~~~g  738 (766)
                      .|..+.    ...+.+   +.... ...+....-..++.++...|
T Consensus       676 ~gtnna~~~rva~~l~~L~~~~~dk~~d~~~~fga~iAqGll~aG  720 (963)
T 4ady_A          676 IQQTEKLNPQVADINKNFLSVITNKHQEGLAKFGACVAQGIMNAG  720 (963)
T ss_dssp             TTCCTTTCTTHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHTTG
T ss_pred             cCCccccchHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhcC
Confidence            443332    333333   33322 21233444556666665554

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=88.57  E-value=9.5  Score=45.37  Aligned_cols=124  Identities=12%  Similarity=0.108  Sum_probs=81.7

Q ss_pred             HhhhhhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004244          626 LKGFCMKGLMNEADRVFELMLQRNHMPN----EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHT  701 (766)
Q Consensus       626 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~  701 (766)
                      +..+.+.|.++.++++-+..++.....+    ...|..+..++.+.|++++|...+-.+.+...  -......|+..+|.
T Consensus       906 ~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r~~cLr~LV~~lce  983 (1139)
T 4fhn_B          906 SKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--KKSCLLDFVNQLTK  983 (1139)
T ss_dssp             HHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--CHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--HHHHHHHHHHHHHh
Confidence            3778888999999998887775322212    22578889999999999999999988875433  34667778888887


Q ss_pred             cCChHHH------------HHHHHH-HHHc-CCCChHHHHHHHHHHHhcCCChhHHHHHH-HHHH
Q 004244          702 AGMNEEL------------SQVIEN-ILRS-CRLSDAELAKVLVEINHKEGNMDAVLNVL-TEMA  751 (766)
Q Consensus       702 ~g~~~~A------------~~~~~~-~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~-~~m~  751 (766)
                      .|..++-            ..++.. +... .+...+..|..|...+...|++..|..++ +++.
T Consensus       984 ~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~ 1048 (1139)
T 4fhn_B          984 QGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLS 1048 (1139)
T ss_dssp             HCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             CCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHH
Confidence            7665543            222222 2111 11222345677777777888888776654 4443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=88.16  E-value=4.8  Score=44.69  Aligned_cols=134  Identities=11%  Similarity=0.071  Sum_probs=80.1

Q ss_pred             cHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHCCCCCCHhhHHHHHHHHHHcCCCCcHHHHHHHHHHHhhC------CCCC
Q 004244          145 SSAVIDLVVKSYSHLNM-IDKAVNIVNLAKVHGFMPGVLSYNAILDSVIRSGRNNWVKFAEEVYNEMGKS------RVSP  217 (766)
Q Consensus       145 ~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~~~a~~~~~~m~~~------g~~~  217 (766)
                      +..+.+.|++.+.-.|+ ++.|+.+|+.+.......+.....+++..+.+.+. . --+|.++..+..+.      ..++
T Consensus       247 ~N~L~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~-~-Ev~av~ll~~~l~~~~~~~~~l~~  324 (754)
T 4gns_B          247 NNYLMYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIET-K-ELDMITILNETLDPLLSLLNDLPP  324 (754)
T ss_dssp             SSHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGG-G-HHHHHHHHHHHHHHHHHHHHTCSS
T ss_pred             cHHHHHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhh-h-hHHHHHHHHHHHHHhhhhhhhhcc
Confidence            44566777777777776 58899999988775422222222333433333331 1 13455555544321      1111


Q ss_pred             -CHH----------HHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHh
Q 004244          218 -NVY----------TYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMG  281 (766)
Q Consensus       218 -~~~----------~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~  281 (766)
                       +..          ....-.+-|...|+++-|+++-++....- +.+-.+|..|..+|.+.|+++.|+-.++.++
T Consensus       325 ~~~~~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          325 RDADSARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             cccccccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence             111          11122334556788888888888887752 3457788888888888888888888888774

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.97  E-value=27  Score=36.18  Aligned_cols=257  Identities=12%  Similarity=0.128  Sum_probs=136.2

Q ss_pred             cCCHHHHHHHHHHHHHC-----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCh
Q 004244          477 SQELDKAFDTKREMVEK-----GVLPDTITYSSLIHGLCEQRRITEACELFQEMLSR-GMSPDEFTYTTLINAYCTEGDI  550 (766)
Q Consensus       477 ~g~~~~A~~~~~~m~~~-----~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~l~~~~~~~g~~  550 (766)
                      .|+++.|++.+..+.+.     +..........++..|...|+++...+.+..+... |..  ......+++.       
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql--k~ai~~~V~~-------   99 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL--KLSIQYMIQK-------   99 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS--HHHHHHHHHH-------
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh--HHHHHHHHHH-------
Confidence            47888998887766643     23445667888899999999999988877766543 321  2222233322       


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHH--hcCCH----HHH--HHHHHHHHhC-CCCCcHH-hHHHHhhhhchh---
Q 004244          551 PQALRLHDEMIQKGFLPDVVTYSVLINGLN--KQART----MEA--KKLLLKLFYD-ESVPSDV-IYNTLIENCTNI---  617 (766)
Q Consensus       551 ~~A~~~~~~~~~~g~~p~~~~~~~li~~~~--~~g~~----~~A--~~l~~~~~~~-~~~p~~~-~~~~ll~~~~~~---  617 (766)
                        +...+....    .++..+...++..+.  ..|+.    +.|  ...+.++... |-..... ....+...+...   
T Consensus       100 --~~~~l~~~~----~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~  173 (445)
T 4b4t_P          100 --VMEYLKSSK----SLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEM  173 (445)
T ss_dssp             --HHHHHHHHC----TTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCH
T ss_pred             --HHHHHhcCC----chhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccH
Confidence              222332221    234555555555442  23331    222  1222222221 2111110 111111111110   


Q ss_pred             --hhhhHHHHHhhhhhcCCHHHHHHHHHHHH----hCCCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHcC-CCCC
Q 004244          618 --EFQNVAALLKGFCMKGLMNEADRVFELML----QRNHMPN--EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSG-FVPH  688 (766)
Q Consensus       618 --~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~-~~p~  688 (766)
                        ....+...+..|...+++..|..++.++.    .....|+  ...|...+..+...+++.+|...|.++.+.. ..-|
T Consensus       174 ~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d  253 (445)
T 4b4t_P          174 SEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSD  253 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCC
Confidence              12334456688899999999999998874    2222222  3456777888889999999999988886421 1223


Q ss_pred             HHHHH----HHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcC--CChhHHHHHHH
Q 004244          689 TVTII----VLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKE--GNMDAVLNVLT  748 (766)
Q Consensus       689 ~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~A~~~~~  748 (766)
                      ...+.    .++....-.+....-.....+........+...+..+..+|...  .+|+.+.+.+.
T Consensus       254 ~~~~~~~L~~~v~~~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~  319 (445)
T 4b4t_P          254 EAKWKPVLSHIVYFLVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTNELMRWPIVQKTYE  319 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHCCSSSHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhchHhhhHHHHHHHH
Confidence            32222    22233334444444444554444444334556677777777643  45565555544

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=87.23  E-value=14  Score=43.83  Aligned_cols=87  Identities=11%  Similarity=0.105  Sum_probs=56.7

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 004244          359 VVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPN----EKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNA  434 (766)
Q Consensus       359 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~  434 (766)
                      ..-|..++..+.+.|.++.+.++-+..++.....+    ...|..+...+...|++++|...+-.+.....  -......
T Consensus       899 ~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r~~cLr~  976 (1139)
T 4fhn_B          899 SCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--KKSCLLD  976 (1139)
T ss_dssp             HHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--CHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--HHHHHHH
Confidence            34567777777788888888777766655422212    12467778888888888888888877766533  2345666


Q ss_pred             HHHHHHhcCCHHH
Q 004244          435 LIKGHCTGGRVED  447 (766)
Q Consensus       435 ll~~~~~~g~~~~  447 (766)
                      |+..+|..|..+.
T Consensus       977 LV~~lce~~~~~~  989 (1139)
T 4fhn_B          977 FVNQLTKQGKINQ  989 (1139)
T ss_dssp             HHHHHHHHCCHHH
T ss_pred             HHHHHHhCCChhh
Confidence            6666666665544

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=86.88  E-value=38  Score=36.71  Aligned_cols=117  Identities=10%  Similarity=0.053  Sum_probs=71.9

Q ss_pred             CCHHHHHHHHHHHHhCC-CCCCH--HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHH
Q 004244          633 GLMNEADRVFELMLQRN-HMPNE--AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELS  709 (766)
Q Consensus       633 g~~~~A~~~~~~~~~~~-~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  709 (766)
                      .+.+.|...+....+.. ..+..  ..+..++......+...++...+.+....  .++.......+....+.|+++.|.
T Consensus       228 ~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~e~~~r~Alr~~d~~~a~  305 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR--SQSTSLIERRVRMALGTGDRRGLN  305 (618)
T ss_dssp             HCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT--CCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             cCHHHHHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc--CCChHHHHHHHHHHHHCCCHHHHH
Confidence            37889999998886432 22211  12233333444455456677777765533  233333333334445679999999


Q ss_pred             HHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          710 QVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       710 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      .+++++-... ........-++.++.+.|+.++|..+|.++.+
T Consensus       306 ~~~~~l~~~~-~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          306 TWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHccccc-cccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            9998876543 22233334477888889999999999988764

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=86.34  E-value=26  Score=34.14  Aligned_cols=80  Identities=10%  Similarity=-0.097  Sum_probs=47.3

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc---CChHHHHHHHHHHHHcCCCChHHHH-H
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTA---GMNEELSQVIENILRSCRLSDAELA-K  728 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~~~~~~~~~-~  728 (766)
                      ++.....++..|.+.|++.+|...|-.    |-.-|...+..++.-....   |...+                ...+ .
T Consensus       133 dp~LH~~~a~~~~~e~~~~~A~~H~i~----~~~~s~~~~a~~l~~w~~~~~~~~~~e----------------~dlf~~  192 (312)
T 2wpv_A          133 DPYLHNTIGSKLLEGDFVYEAERYFML----GTHDSMIKYVDLLWDWLCQVDDIEDST----------------VAEFFS  192 (312)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHT----SCHHHHHHHHHHHHHHHHHTTCCCHHH----------------HHHHHH
T ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHh----CCCccHHHHHHHHHHHHHhcCCCCcch----------------HHHHHH
Confidence            778888899999999999998886652    3212344444443333332   33332                2222 2


Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHH
Q 004244          729 VLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       729 ~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      ..+-.|.-.|+...|.++++...+
T Consensus       193 RaVL~yL~l~n~~~A~~~~~~f~~  216 (312)
T 2wpv_A          193 RLVFNYLFISNISFAHESKDIFLE  216 (312)
T ss_dssp             HHHHHHHHTTBHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHH
Confidence            333345567788888877776554

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=85.89  E-value=28  Score=34.16  Aligned_cols=80  Identities=10%  Similarity=-0.029  Sum_probs=50.1

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHH-HHHHH
Q 004244          653 NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAEL-AKVLV  731 (766)
Q Consensus       653 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~l~  731 (766)
                      |+.....++..|.+.+++.+|...|-  .  |-.+....+..++.-+...+.                +.+... ....+
T Consensus       135 dp~LH~~ig~~~~~e~~~~~Ae~H~i--l--g~~~s~~~~a~mL~ew~~~~~----------------~~e~dlfiaRaV  194 (336)
T 3lpz_A          135 DPELHHVVGTLYVEEGEFEAAEKHLV--L--GTKESPEVLARMEYEWYKQDE----------------SHTAPLYCARAV  194 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHT--T--SCTTHHHHHHHHHHHHHHTSC----------------GGGHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHH--h--cCCchHHHHHHHHHHHHHhcC----------------CccHHHHHHHHH
Confidence            77778889999999999999888773  2  444444555544443333332                222222 23444


Q ss_pred             HHHhcCCChhHHHHHHHHHHH
Q 004244          732 EINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       732 ~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      -.|.-.|+...|.++++...+
T Consensus       195 L~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          195 LPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHH
Confidence            556668888888887766554

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=85.82  E-value=2  Score=44.00  Aligned_cols=54  Identities=11%  Similarity=0.020  Sum_probs=26.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHH
Q 004244          695 LVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTE  749 (766)
Q Consensus       695 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  749 (766)
                      ++..+...|+.++|+..++.++..+ |-+...|..++.+|.+.|+..+|++.|++
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~  230 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRR  230 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3444444555555555555555444 33344445555555555555555555444

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=84.72  E-value=3.7  Score=35.49  Aligned_cols=106  Identities=9%  Similarity=0.137  Sum_probs=71.3

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCC-CCCC-------HHHHHHHHHHHhccCChHHHHHHHHHHHHc--CC-----------
Q 004244          627 KGFCMKGLMNEADRVFELMLQRN-HMPN-------EAVYDIIIHGHSKVGNVQKAYDLYKKMVRS--GF-----------  685 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~-~~p~-------~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~--~~-----------  685 (766)
                      ..+...|.++.|+-+.+.+.... .+|+       ..++..+++++...|++.+|...|+++++.  .+           
T Consensus        28 k~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~~~  107 (167)
T 3ffl_A           28 RDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPSTG  107 (167)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC-----------
T ss_pred             HHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCcccccc
Confidence            56677889999988888765311 1233       235677889999999999999999996521  11           


Q ss_pred             -----------CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Q 004244          686 -----------VPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEIN  734 (766)
Q Consensus       686 -----------~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  734 (766)
                                 .++.+.-..+..++.+.|+.++|+..++.+-.+.  -...+-..|++.|
T Consensus       108 ~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~--Rt~kvnm~LakLy  165 (167)
T 3ffl_A          108 NSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQ--RTPKINMLLANLY  165 (167)
T ss_dssp             ---------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGG--CCHHHHHHHHHHC
T ss_pred             ccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchh--cCHHHHHHHHHHh
Confidence                       1112333457888899999999999988865442  2344444555544

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=80.88  E-value=43  Score=32.55  Aligned_cols=26  Identities=19%  Similarity=-0.116  Sum_probs=17.7

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHH
Q 004244          463 DVVSYSTIISGFSRSQELDKAFDTKR  488 (766)
Q Consensus       463 ~~~~~~~li~~~~~~g~~~~A~~~~~  488 (766)
                      ++.....+...|.+.|++.+|...|-
T Consensus       133 dp~LH~~~a~~~~~e~~~~~A~~H~i  158 (312)
T 2wpv_A          133 DPYLHNTIGSKLLEGDFVYEAERYFM  158 (312)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHH
Confidence            56666777777777777777766543

---

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	766
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	2e-04

>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 = 42.0 bits (97), Expect = 2e-04
 Identities = 59/366 (16%), Positives = 113/366 (30%), Gaps = 18/366 (4%)

Query: 233 GDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLI-S 291
           GD E   R   ++ +     N      L   + +  R+D +        +K   P L  +
Sbjct: 13  GDFEAAERHCMQLWRQEP-DNTGVLLLLSSIHFQCRRLDRSAHFSTLA-IK-QNPLLAEA 69

Query: 292 YNVIINGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMV 351
           Y+ + N   + G+L+E         R      +   N                   + + 
Sbjct: 70  YSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQ 129

Query: 352 RNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLD 411
            N     V +    +          +A                  ++ L   F+  G + 
Sbjct: 130 YNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPN---FAVAWSNLGCVFNAQGEIW 186

Query: 412 EAYRLLNEMTKNGFMPSIV-TYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTI 470
            A     +       P+ +  Y  L          + AV               V +  +
Sbjct: 187 LAIHHFEKAVT--LDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNL 243

Query: 471 ISGFSRSQELDKAFDTKREMVEKGVLPD-TITYSSLIHGLCEQRRITEACELFQEMLSRG 529
              +     +D A DT R  +E    P     Y +L + L E+  + EA + +   L   
Sbjct: 244 ACVYYEQGLIDLAIDTYRRAIELQ--PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL- 300

Query: 530 MSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPD-VVTYSVLINGLNKQARTMEA 588
                 +   L N    +G+I +A+RL+ + ++    P+    +S L + L +Q +  EA
Sbjct: 301 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEA 358

Query: 589 KKLLLK 594
                +
Sbjct: 359 LMHYKE 364

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	766
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.92
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.91
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.6
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.57
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.23
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.17
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.11
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.1
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.05
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.05
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.02
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.98
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.98
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.94
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.67
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.62
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.61
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.55
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.51
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.5
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.47
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.46
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.42
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.39
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.33
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.32
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.29
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.19
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.15
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.14
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.13
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.11
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.06
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.0
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.95
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.92
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.9
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.89
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.88
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.86
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.81
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.78
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.77
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.67
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.65
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.64
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.58
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.4
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.38
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.24
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.15
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.08
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.06
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.86
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.54
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.23
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.88
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.65
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.56
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.3
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	86.01

>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=99.92  E-value=4.8e-21  Score=200.09  Aligned_cols=381  Identities=16%  Similarity=0.092  Sum_probs=270.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCH
Q 004244          331 LNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFL  410 (766)
Q Consensus       331 i~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  410 (766)
                      ...+.+.|++++|.+.++++.+.. +-+...+..+...|.+.|++++|...|++..+..+ -+..+|..+...+.+.|++
T Consensus         6 a~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNP-LLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHhhhhccc
Confidence            344556667777777776666542 22456666666667777777777777776666532 2456666677777777777


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 004244          411 DEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREM  490 (766)
Q Consensus       411 ~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  490 (766)
                      ++|...+....+.. +.+..............+....+............. ...............+....+...+.+.
T Consensus        84 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          84 QEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             cccccccccccccc-cccccccccccccccccccccccccccccccccccc-cccccccccccccccchhhhhHHHHHHh
Confidence            77777777766643 223333333333444444444444444444443222 3444445555666777777777777776


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHH
Q 004244          491 VEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVV  570 (766)
Q Consensus       491 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  570 (766)
                      ...... +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++.....+ +.+..
T Consensus       162 ~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  238 (388)
T d1w3ba_         162 IETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAV  238 (388)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHH
T ss_pred             hccCcc-hhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHH
Confidence            665422 56677777778888888888888888887764 4456678888888888899999998888887753 45667


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCC
Q 004244          571 TYSVLINGLNKQARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRN  649 (766)
Q Consensus       571 ~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (766)
                      .+..+...+.+.|++++|.+.|++.++.  .|+ ...+..+.               ..+...|++++|++.++......
T Consensus       239 ~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~---------------~~~~~~~~~~~A~~~~~~~~~~~  301 (388)
T d1w3ba_         239 VHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLA---------------NALKEKGSVAEAEDCYNTALRLC  301 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHH---------------HHHHHHSCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHH---------------HHHHHcCCHHHHHHHHHhhhccC
Confidence            7778888888899999999999988874  344 34455554               78888999999999999888742


Q ss_pred             CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHH
Q 004244          650 HMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAK  728 (766)
Q Consensus       650 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  728 (766)
                       +.+...+..++..+.+.|++++|++.++++++.  .|+ ..++..++..+...|++++|+..++++++.+ |.+...|.
T Consensus       302 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~  377 (388)
T d1w3ba_         302 -PTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYS  377 (388)
T ss_dssp             -TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC-TTCHHHHH
T ss_pred             -CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence             347788888999999999999999999998853  454 4678889999999999999999999999987 66788889


Q ss_pred             HHHHHHhcCCC
Q 004244          729 VLVEINHKEGN  739 (766)
Q Consensus       729 ~l~~~~~~~g~  739 (766)
                      .++.+|.+.|+
T Consensus       378 ~lg~~~~~~~D  388 (388)
T d1w3ba_         378 NMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHTCC
T ss_pred             HHHHHHHHcCC
Confidence            99999988875

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.91  E-value=3.4e-20  Score=193.54  Aligned_cols=380  Identities=17%  Similarity=0.101  Sum_probs=245.8

Q ss_pred             HHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHH
Q 004244          297 NGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLN  376 (766)
Q Consensus       297 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  376 (766)
                      ..+.+.|++++|.+.++++.+... -+...+..+...|.+.|++++|...+++.++.. +.+..++..+...|.+.|+++
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~   84 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQEP-DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcccc
Confidence            344455666666666666655321 134455555566666666666666666665542 224556666666666666666


Q ss_pred             HHHHHHHHHHHCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004244          377 RAMEFFDQMHVRELRPNEKTYTTLINGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMA  456 (766)
Q Consensus       377 ~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~  456 (766)
                      +|.+.+....+.... +..............+....+........... .................+....+...+....
T Consensus        85 ~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (388)
T d1w3ba_          85 EAIEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             ccccccccccccccc-cccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHhh
Confidence            666666666655322 33333334444444444444444444443332 2233334444445556666666666666665


Q ss_pred             HCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 004244          457 RKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFT  536 (766)
Q Consensus       457 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  536 (766)
                      .... .+...+..+...+...|++++|...+++..+.... +...+..+...+...|++++|...+++....+ +.+...
T Consensus       163 ~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  239 (388)
T d1w3ba_         163 ETQP-NFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVV  239 (388)
T ss_dssp             HHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHH
T ss_pred             ccCc-chhHHHHhhcccccccCcHHHHHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHH
Confidence            5432 25566666777777777777777777777665432 55667777777788888888888888777654 455666


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhch
Q 004244          537 YTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTN  616 (766)
Q Consensus       537 ~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~  616 (766)
                      +..+...+.+.|++++|...+++.++. .+.+..++..+...+...|++++|.+.++..... .+.+...+..+.     
T Consensus       240 ~~~l~~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~-----  312 (388)
T d1w3ba_         240 HGNLACVYYEQGLIDLAIDTYRRAIEL-QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLA-----  312 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHT-CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHH-----
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHH-----
Confidence            777777788888888888888887765 2445677777888888888888888888877664 233444444444     


Q ss_pred             hhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHH
Q 004244          617 IEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIV  694 (766)
Q Consensus       617 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~  694 (766)
                                ..+...|++++|++.|++.++.  .| +..++..++.+|.+.|++++|++.|+++++  +.|+ ...|..
T Consensus       313 ----------~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~  378 (388)
T d1w3ba_         313 ----------NIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSN  378 (388)
T ss_dssp             ----------HHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHH
T ss_pred             ----------HHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHH
Confidence                      6778888888888888888774  35 577788888888888888888888888884  4565 467778


Q ss_pred             HHHHHHhcCC
Q 004244          695 LVKALHTAGM  704 (766)
Q Consensus       695 l~~~~~~~g~  704 (766)
                      ++.++.+.||
T Consensus       379 lg~~~~~~~D  388 (388)
T d1w3ba_         379 MGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHTCC
T ss_pred             HHHHHHHcCC
Confidence            8888877765

>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=99.60  E-value=9.2e-14  Score=140.35  Aligned_cols=241  Identities=12%  Similarity=0.026  Sum_probs=154.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 004244          507 HGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTM  586 (766)
Q Consensus       507 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~  586 (766)
                      ..+.+.|++++|+..|+++++.. +.+..+|..+..+|...|++++|...+.+.++.. +-+...|..+...+...|+++
T Consensus        27 ~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~  104 (323)
T d1fcha_          27 LRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQR  104 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccccc
Confidence            34455555555555555555543 3334455555555555555555555555555431 223445555555555555555


Q ss_pred             HHHHHHHHHHhCCCCCcHHhHHHHh-hhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHH
Q 004244          587 EAKKLLLKLFYDESVPSDVIYNTLI-ENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHM-PNEAVYDIIIHGH  664 (766)
Q Consensus       587 ~A~~l~~~~~~~~~~p~~~~~~~ll-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-p~~~~~~~l~~~~  664 (766)
                      +|.+.+++....  .|+........ ..............+..+...+...+|.+.+.++.+.... ++..++..++..+
T Consensus       105 ~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~  182 (323)
T d1fcha_         105 QACEILRDWLRY--TPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLF  182 (323)
T ss_dssp             HHHHHHHHHHHT--STTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHH
T ss_pred             ccccchhhHHHh--ccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHH
Confidence            555555555442  22211100000 0000000000011113445567788999999988864322 3677888999999


Q ss_pred             hccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHH
Q 004244          665 SKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVL  744 (766)
Q Consensus       665 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  744 (766)
                      ...|++++|+..+++++... +-+...|..++..+...|++++|+..++++++.+ |.+..++..++.+|.+.|++++|+
T Consensus       183 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~  260 (323)
T d1fcha_         183 NLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAV  260 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999999998653 2345788899999999999999999999999987 667888999999999999999999


Q ss_pred             HHHHHHHHC
Q 004244          745 NVLTEMAKD  753 (766)
Q Consensus       745 ~~~~~m~~~  753 (766)
                      +.|++..+.
T Consensus       261 ~~~~~al~l  269 (323)
T d1fcha_         261 EHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999997763

>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=99.57  E-value=7e-13  Score=133.73  Aligned_cols=270  Identities=14%  Similarity=0.095  Sum_probs=172.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004244          435 LIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRR  514 (766)
Q Consensus       435 ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  514 (766)
                      ....+.+.|++++|...|+.+.+..+. +..+|..+..+|...|++++|...+++..+.... +...|..+...+...|+
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-ccccccccccccccccc
Confidence            344556667777777777776665433 5666666666777777777777777666665432 45566666666666777


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004244          515 ITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLK  594 (766)
Q Consensus       515 ~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~  594 (766)
                      +++|.+.+++.....  |+.............                   ..+.......+..+...+.+.+|.+.+.+
T Consensus       103 ~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  161 (323)
T d1fcha_         103 QRQACEILRDWLRYT--PAYAHLVTPAEEGAG-------------------GAGLGPSKRILGSLLSDSLFLEVKELFLA  161 (323)
T ss_dssp             HHHHHHHHHHHHHTS--TTTGGGCC----------------------------------CTTHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHhc--cchHHHHHhhhhhhh-------------------hcccccchhhHHHHHHhhHHHHHHHHHHH
Confidence            777777666666542  221110000000000                   00001111112233455667788888887


Q ss_pred             HHhCCC-CCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHH
Q 004244          595 LFYDES-VPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQK  672 (766)
Q Consensus       595 ~~~~~~-~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~  672 (766)
                      .+.... .++...+..+.               ..+...|++++|+..+++....  .| +..+|..++.+|.+.|++++
T Consensus       162 al~~~p~~~~~~~~~~l~---------------~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~  224 (323)
T d1fcha_         162 AVRLDPTSIDPDVQCGLG---------------VLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEE  224 (323)
T ss_dssp             HHHHSTTSCCHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhhcccccccchhhH---------------HHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchh
Confidence            765321 23344555554               7788899999999999998874  34 68888999999999999999


Q ss_pred             HHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC----------hHHHHHHHHHHHhcCCChh
Q 004244          673 AYDLYKKMVRSGFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSCRLS----------DAELAKVLVEINHKEGNMD  741 (766)
Q Consensus       673 A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~----------~~~~~~~l~~~~~~~g~~~  741 (766)
                      |++.++++++.  .|+ ..+|..++.++...|++++|+..|+++++..+..          ...+|..+..++...|+.+
T Consensus       225 A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d  302 (323)
T d1fcha_         225 AVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSD  302 (323)
T ss_dssp             HHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGG
T ss_pred             HHHHHHHHHHH--hhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHH
Confidence            99999998864  344 5778889999999999999999999998864221          1235566777777777776


Q ss_pred             HHHHH
Q 004244          742 AVLNV  746 (766)
Q Consensus       742 ~A~~~  746 (766)
                      .+...
T Consensus       303 ~~~~~  307 (323)
T d1fcha_         303 AYGAA  307 (323)
T ss_dssp             GHHHH
T ss_pred             HHHHH
Confidence            55433

>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=99.23  E-value=3.5e-09  Score=107.20  Aligned_cols=299  Identities=11%  Similarity=0.021  Sum_probs=189.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHHCC----CC-CCHHHHHHHHH
Q 004244          437 KGHCTGGRVEDAVGVLHGMARKGLAPD----VVSYSTIISGFSRSQELDKAFDTKREMVEKG----VL-PDTITYSSLIH  507 (766)
Q Consensus       437 ~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~----~~-p~~~~~~~li~  507 (766)
                      ..+...|++++|+.++++..+.....+    ...+..+...|...|++++|...+++..+..    .. .....+..+..
T Consensus        20 ~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   99 (366)
T d1hz4a_          20 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE   99 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHH
Confidence            344556666666666666655422211    2345555566666677777777666655421    00 01233455566


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC----CCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHC----CCCCCHHHHHHHH
Q 004244          508 GLCEQRRITEACELFQEMLSR----GMSPD---EFTYTTLINAYCTEGDIPQALRLHDEMIQK----GFLPDVVTYSVLI  576 (766)
Q Consensus       508 ~~~~~g~~~~A~~~~~~m~~~----~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g~~p~~~~~~~li  576 (766)
                      .+...|++..+...+......    +....   ...+..+...+...|+++.+...+......    +.......+....
T Consensus       100 ~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (366)
T d1hz4a_         100 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  179 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHH
Confidence            677778888887777766531    11111   234556667788889999988888877753    2223345556666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC--CCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC--
Q 004244          577 NGLNKQARTMEAKKLLLKLFYD--ESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP--  652 (766)
Q Consensus       577 ~~~~~~g~~~~A~~l~~~~~~~--~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p--  652 (766)
                      ..+...|...++...+.+....  ...........+.           ..+...+...|++++|...+++........  
T Consensus       180 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  248 (366)
T d1hz4a_         180 QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNAN-----------KVRVIYWQMTGDKAAAANWLRHTAKPEFANNH  248 (366)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHH-----------HHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCG
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHH-----------HHHHHHHHhcccHHHHHHHHHHHHHhccccch
Confidence            6777888888888887766532  1111111111110           111267888999999999999887543222  


Q ss_pred             -CHHHHHHHHHHHhccCChHHHHHHHHHHHH----cCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcC----CC-
Q 004244          653 -NEAVYDIIIHGHSKVGNVQKAYDLYKKMVR----SGFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRSC----RL-  721 (766)
Q Consensus       653 -~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~----~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~~-  721 (766)
                       ....+..++.++...|++++|.+.+++++.    .+..|+. ..+..++..+...|++++|...++++++..    .. 
T Consensus       249 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~  328 (366)
T d1hz4a_         249 FLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFIS  328 (366)
T ss_dssp             GGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHH
Confidence             244566788999999999999999998863    3444544 577788999999999999999999988752    11 


Q ss_pred             ---ChHHHHHHHHHHHhcCCChhHHHHH
Q 004244          722 ---SDAELAKVLVEINHKEGNMDAVLNV  746 (766)
Q Consensus       722 ---~~~~~~~~l~~~~~~~g~~~~A~~~  746 (766)
                         ........+...+...|+.+++.+-
T Consensus       329 ~~~~~~~~~~~~~~~l~~~~~l~e~e~~  356 (366)
T d1hz4a_         329 HFVIEGEAMAQQLRQLIQLNTLPELEQH  356 (366)
T ss_dssp             HHHTTHHHHHHHHHHHHHTTCSCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcCCChHHHHH
Confidence               1223445566777888888888654

>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=99.17  E-value=7.2e-09  Score=104.82  Aligned_cols=271  Identities=13%  Similarity=0.003  Sum_probs=194.7

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHHH
Q 004244          467 YSTIISGFSRSQELDKAFDTKREMVEKGVLPD----TITYSSLIHGLCEQRRITEACELFQEMLSRGM-SPD----EFTY  537 (766)
Q Consensus       467 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~----~~~~  537 (766)
                      .......+...|++++|++.+++..+.....+    ...+..+...+...|++++|...+++..+... .++    ...+
T Consensus        15 ~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   94 (366)
T d1hz4a_          15 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   94 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            33345667899999999999999987643322    24677788899999999999999998875311 112    2355


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHC----CCCC--C-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCc----HHh
Q 004244          538 TTLINAYCTEGDIPQALRLHDEMIQK----GFLP--D-VVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPS----DVI  606 (766)
Q Consensus       538 ~~l~~~~~~~g~~~~A~~~~~~~~~~----g~~p--~-~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~----~~~  606 (766)
                      ..+...+...|++..+...+.+....    +...  . ...+..+...+...|+++.+...+.+.........    ...
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            66777889999999999999877642    1111  1 23555677788899999999999998876422211    112


Q ss_pred             HHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHh---C-CCCC--CHHHHHHHHHHHhccCChHHHHHHHHHH
Q 004244          607 YNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQ---R-NHMP--NEAVYDIIIHGHSKVGNVQKAYDLYKKM  680 (766)
Q Consensus       607 ~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~-~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~m  680 (766)
                      +....               ..+...|+..++...+.+...   . +..+  ....+..+...+...|++++|.+.+++.
T Consensus       175 ~~~~~---------------~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  239 (366)
T d1hz4a_         175 LAMLI---------------QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHT  239 (366)
T ss_dssp             HHHHH---------------HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHHH---------------HHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            22222               567788999999988877653   1 1111  2344566777888999999999999987


Q ss_pred             HHcCCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHHc----C-CCChHHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          681 VRSGFVPH---TVTIIVLVKALHTAGMNEELSQVIENILRS----C-RLSDAELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       681 ~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                      .+.....+   ...+..++..+...|++++|...+++++..    + .+.....+..++.+|...|++++|.+.+++..+
T Consensus       240 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         240 AKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             CCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            64322211   245567888999999999999999998753    2 233466788899999999999999999988654

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.11  E-value=3.5e-09  Score=105.01  Aligned_cols=236  Identities=10%  Similarity=0.091  Sum_probs=144.4

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004244          464 VVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQR-RITEACELFQEMLSRGMSPDEFTYTTLIN  542 (766)
Q Consensus       464 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~~~~~l~~  542 (766)
                      ...++.+...+.+.+..++|++.++++++..+. +...|+....++...| ++++|+..++..++.. +-+..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhH
Confidence            345666666777777888888888888877544 6667777777777665 4788888888877764 556777777777


Q ss_pred             HHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-cHHhHHHHhhhhchhhhhh
Q 004244          543 AYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVP-SDVIYNTLIENCTNIEFQN  621 (766)
Q Consensus       543 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p-~~~~~~~ll~~~~~~~~~~  621 (766)
                      .+.+.|++++|+..++.+++. -+.+...|..+...+.+.|++++|++.++++++.  .| +...|+.+...        
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~-dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~--------  189 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQ-DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFV--------  189 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHH--------
T ss_pred             HHHhhccHHHHHHHHhhhhhh-hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHH--------
Confidence            788888888888888888765 2456777777777777888888888888887773  33 33344433300        


Q ss_pred             HHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHH
Q 004244          622 VAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVP-HTVTIIVLVKAL  699 (766)
Q Consensus       622 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~l~~~~  699 (766)
                       ..-+..+...+.+++|++.+.++++.  .| +...|+.+...+.. ...+++.+.+++..+....+ +...+..++..+
T Consensus       190 -l~~~~~~~~~~~~~~ai~~~~~al~~--~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y  265 (315)
T d2h6fa1         190 -ISNTTGYNDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIY  265 (315)
T ss_dssp             -HHHTTCSCSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             -HHHccccchhhhhHHhHHHHHHHHHh--CCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHH
Confidence             00001122233356777777777764  34 56666666655443 33566667776665432222 223344444444


Q ss_pred             Hh--cCChHHHHHHHHHHH
Q 004244          700 HT--AGMNEELSQVIENIL  716 (766)
Q Consensus       700 ~~--~g~~~~A~~~~~~~~  716 (766)
                      ..  .++.+.+...++++.
T Consensus       266 ~~~~~~~~~~~~~~~~ka~  284 (315)
T d2h6fa1         266 EDMLENQCDNKEDILNKAL  284 (315)
T ss_dssp             HHHHHTTCSSHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHH
Confidence            32  234444444444443

>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=99.10  E-value=1.2e-08  Score=101.02  Aligned_cols=213  Identities=9%  Similarity=0.059  Sum_probs=135.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004244          431 TYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQ-ELDKAFDTKREMVEKGVLPDTITYSSLIHGL  509 (766)
Q Consensus       431 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  509 (766)
                      .++.+...+.+.+..++|+..++.+++.++. +..+|+....++...| ++++|+..+++..+.... +..+|..+...+
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~~~  122 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhHHH
Confidence            3444555566667777777777777776443 5666676666666654 477777777777766544 566777777777


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-----
Q 004244          510 CEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQAR-----  584 (766)
Q Consensus       510 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~-----  584 (766)
                      .+.|++++|+..++++++.. +.+...|..+...+.+.|++++|++.++.+++.. +.+...|+.+...+.+.++     
T Consensus       123 ~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~~  200 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRA  200 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchhh
Confidence            77777777777777777764 5566777777777777777777777777777652 3455666666555555444     


Q ss_pred             -HHHHHHHHHHHHhCCCCC-cHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHH
Q 004244          585 -TMEAKKLLLKLFYDESVP-SDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIII  661 (766)
Q Consensus       585 -~~~A~~l~~~~~~~~~~p-~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~  661 (766)
                       +++|++.+.+.++.  .| +...|..+.               ..+ .....+++.+.++...+....+ +...+..++
T Consensus       201 ~~~~ai~~~~~al~~--~P~~~~~~~~l~---------------~ll-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~  262 (315)
T d2h6fa1         201 VLEREVQYTLEMIKL--VPHNESAWNYLK---------------GIL-QDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLV  262 (315)
T ss_dssp             HHHHHHHHHHHHHHH--STTCHHHHHHHH---------------HHH-TTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHH
T ss_pred             hhHHhHHHHHHHHHh--CCCchHHHHHHH---------------HHH-HhcChHHHHHHHHHHHHhCCCcCCHHHHHHHH
Confidence             56777777777763  34 344444433               233 3344566777777666532222 445555555


Q ss_pred             HHHh
Q 004244          662 HGHS  665 (766)
Q Consensus       662 ~~~~  665 (766)
                      ..|.
T Consensus       263 ~~y~  266 (315)
T d2h6fa1         263 DIYE  266 (315)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5553

>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=99.05  E-value=2.5e-08  Score=98.55  Aligned_cols=223  Identities=10%  Similarity=0.057  Sum_probs=124.0

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC--------------CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004244          480 LDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQR--------------RITEACELFQEMLSRGMSPDEFTYTTLINAYC  545 (766)
Q Consensus       480 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g--------------~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~  545 (766)
                      .+.+..+|+++...- .-+...|...+.-+...+              ..++|..+|++.++...+.+...|...+..+.
T Consensus        32 ~~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            455666777776642 224555655554443322              23566666666665433444555566666666


Q ss_pred             hcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHH
Q 004244          546 TEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAAL  625 (766)
Q Consensus       546 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l  625 (766)
                      +.|+++.|..+++.+++.........|..++..+.+.|+.++|.++|+++++.... +...|.....             
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~-------------  176 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAAL-------------  176 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHH-------------
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHH-------------
Confidence            66777777777766665422222345666666666666677777777666654221 1222211110             


Q ss_pred             HhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcC-CCCC--HHHHHHHHHHHHhc
Q 004244          626 LKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSG-FVPH--TVTIIVLVKALHTA  702 (766)
Q Consensus       626 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~-~~p~--~~~~~~l~~~~~~~  702 (766)
                       .-+...|+.+.|..+|+.+.+. .+.+...|...+..+...|+.++|..+|++.++.. ..|+  ...|...+.--...
T Consensus       177 -~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~  254 (308)
T d2onda1         177 -MEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNI  254 (308)
T ss_dssp             -HHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHH
T ss_pred             -HHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHc
Confidence             1223346666677666666653 12255666666666666667777777776666432 2332  23555556555666


Q ss_pred             CChHHHHHHHHHHHHcC
Q 004244          703 GMNEELSQVIENILRSC  719 (766)
Q Consensus       703 g~~~~A~~~~~~~~~~~  719 (766)
                      |+.+.+..+++++.+.-
T Consensus       255 G~~~~~~~~~~r~~~~~  271 (308)
T d2onda1         255 GDLASILKVEKRRFTAF  271 (308)
T ss_dssp             SCHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHC
Confidence            66666666666666653

>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=99.05  E-value=3.4e-08  Score=97.65  Aligned_cols=187  Identities=10%  Similarity=0.038  Sum_probs=112.9

Q ss_pred             ChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCChhHHHHHHH
Q 004244          234 DLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVIINGLCKEGRLKETKGILN  313 (766)
Q Consensus       234 ~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  313 (766)
                      ..++|..+|++..+...+.+...|...+..+.+.|++++|..+|+++...........|...+....+.|++++|.++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            34666777777766544455566666777777777777777777776654322223456666666667777777777777


Q ss_pred             HHHHCCCCCCHHHHHHHHHH-HHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CC
Q 004244          314 EISRKGLVPDEVTYNTLLNG-YCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRE-LR  391 (766)
Q Consensus       314 ~m~~~g~~p~~~~~~~li~~-~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~  391 (766)
                      ++.+.+.. +...|...... +...|+.+.|..+|+.+.+. .+.+...|...++.+.+.|+++.|..+|++..... ..
T Consensus       159 ~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         159 KAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            77664422 22233322222 23346677777777776664 23356666677777777777777777777766542 22


Q ss_pred             CC--HhHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004244          392 PN--EKTYTTLINGFSQHGFLDEAYRLLNEMTK  422 (766)
Q Consensus       392 ~~--~~~~~~li~~~~~~g~~~~A~~l~~~m~~  422 (766)
                      |+  ...|...+..-...|+.+.+.++++++.+
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            22  33566666665666777776666666654

>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=99.02  E-value=1.3e-09  Score=109.63  Aligned_cols=264  Identities=9%  Similarity=-0.005  Sum_probs=175.2

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHH----------HHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-
Q 004244          445 VEDAVGVLHGMARKGLAPDVVSYSTIIS----------GFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQR-  513 (766)
Q Consensus       445 ~~~A~~~~~~~~~~~~~~~~~~~~~li~----------~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-  513 (766)
                      .++|..+++.+.+..+. +...|+..-.          .+...|++++|+..++...+..+. +...|..+..++...+ 
T Consensus        45 ~~~al~~~~~~l~~~P~-~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~  122 (334)
T d1dcea1          45 DESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPE  122 (334)
T ss_dssp             SHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSS
T ss_pred             cHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhcc
Confidence            35666666666554322 3333332221          123345567788888887776543 6666776666666654 


Q ss_pred             -CHHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004244          514 -RITEACELFQEMLSRGMSPDEFTYT-TLINAYCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKL  591 (766)
Q Consensus       514 -~~~~A~~~~~~m~~~~~~p~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l  591 (766)
                       +.++|...++++.+.. +++...+. .....+...|..++|+..++.+++.. +-+...|..+...+.+.|++++|...
T Consensus       123 ~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~  200 (334)
T d1dcea1         123 PNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (334)
T ss_dssp             CCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHH
Confidence             4788888888887764 44555543 34456667788888888888887763 45677788888888888888777655


Q ss_pred             HHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChH
Q 004244          592 LLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQ  671 (766)
Q Consensus       592 ~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  671 (766)
                      +.+....  .|+..   ...               ..+...+..+++...+....... +++...+..++..+...|+.+
T Consensus       201 ~~~~~~~--~~~~~---~~~---------------~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~  259 (334)
T d1dcea1         201 GRLPENV--LLKEL---ELV---------------QNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSEL  259 (334)
T ss_dssp             CSSCHHH--HHHHH---HHH---------------HHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHH
T ss_pred             HHHhHHh--HHHHH---HHH---------------HHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHH
Confidence            5443321  11111   111               33445566777888888877643 235556667777888889999


Q ss_pred             HHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhc
Q 004244          672 KAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHK  736 (766)
Q Consensus       672 ~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  736 (766)
                      +|++.+.+..+.  .|+. .++..++..+...|+.++|+++++++++.+ |.....|..|...+.-
T Consensus       260 ~a~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld-P~~~~y~~~L~~~~~~  322 (334)
T d1dcea1         260 ESCKELQELEPE--NKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD-PMRAAYLDDLRSKFLL  322 (334)
T ss_dssp             HHHHHHHHHCTT--CHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh--CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-cccHHHHHHHHHHHhH
Confidence            999999988743  3443 677788889999999999999999999998 5667788777766653

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.98  E-value=2.1e-08  Score=96.41  Aligned_cols=96  Identities=11%  Similarity=-0.103  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004244          466 SYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYC  545 (766)
Q Consensus       466 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~  545 (766)
                      +|..+...|.+.|++++|+..|++.++..+. ++.+|..+..++.+.|++++|+..|+++++.. +.+..++..+..+|.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHH
Confidence            3444444555555555555555555544322 44455555555555555555555555555442 223344445555555


Q ss_pred             hcCChHHHHHHHHHHHHC
Q 004244          546 TEGDIPQALRLHDEMIQK  563 (766)
Q Consensus       546 ~~g~~~~A~~~~~~~~~~  563 (766)
                      ..|++++|.+.++..++.
T Consensus       117 ~~g~~~~A~~~~~~al~~  134 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQD  134 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhh
Confidence            555555555555555543

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.98  E-value=1.2e-08  Score=98.16  Aligned_cols=221  Identities=10%  Similarity=-0.033  Sum_probs=147.2

Q ss_pred             CHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 004244          479 ELDKAFDTKREMVEKGVLP---DTITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALR  555 (766)
Q Consensus       479 ~~~~A~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  555 (766)
                      +.+.|+.-+++........   ...++..+...|.+.|++++|+..|++.++.. +-+..+|..+..+|.+.|++++|++
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhh
Confidence            3455556666666542211   23466777889999999999999999999875 5678899999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCH
Q 004244          556 LHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLM  635 (766)
Q Consensus       556 ~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~  635 (766)
                      .|+++++.. +.+..++..+..++...|++++|.+.+++.++.  .|+.......+.              ..+.+.+..
T Consensus        93 ~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~--------------~~~~~~~~~  155 (259)
T d1xnfa_          93 AFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLY--------------LAEQKLDEK  155 (259)
T ss_dssp             HHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH--------------HHHHHHCHH
T ss_pred             hhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh--ccccHHHHHHHH--------------HHHHHhhhH
Confidence            999999863 445678888999999999999999999999874  343322222221              344555555


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCC----hHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHH
Q 004244          636 NEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGN----VQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQ  710 (766)
Q Consensus       636 ~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~----~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~  710 (766)
                      +.+..+........  ++...++ ++..+.....    .+.+...+.....  ..|+. .+|..++..+...|++++|+.
T Consensus       156 ~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~  230 (259)
T d1xnfa_         156 QAKEVLKQHFEKSD--KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTS--LAEHLSETNFYLGKYYLSLGDLDSATA  230 (259)
T ss_dssp             HHHHHHHHHHHHSC--CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHH--HHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhhccc--hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhh--cCcccHHHHHHHHHHHHHCCCHHHHHH
Confidence            55555555555532  2222222 2222222222    2222222222221  12332 567778899999999999999


Q ss_pred             HHHHHHHcCCCC
Q 004244          711 VIENILRSCRLS  722 (766)
Q Consensus       711 ~~~~~~~~~~~~  722 (766)
                      .+++++..+|.+
T Consensus       231 ~~~~al~~~p~~  242 (259)
T d1xnfa_         231 LFKLAVANNVHN  242 (259)
T ss_dssp             HHHHHHTTCCTT
T ss_pred             HHHHHHHcCCCC
Confidence            999999987443

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.94  E-value=3.1e-09  Score=106.87  Aligned_cols=262  Identities=5%  Similarity=-0.084  Sum_probs=188.2

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH----------HHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 004244          468 STIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHG----------LCEQRRITEACELFQEMLSRGMSPDEFTY  537 (766)
Q Consensus       468 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~----------~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  537 (766)
                      ..++....+.+..++|++++++..+..+. +...|+..-..          +...|++++|+..++...+.. +.+...|
T Consensus        33 ~~~~~~~~~~~~~~~al~~~~~~l~~~P~-~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~  110 (334)
T d1dcea1          33 QAVFQKRQAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTW  110 (334)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHH
Confidence            33334444444558999999999886533 44455433322          223445789999999998864 5567777


Q ss_pred             HHHHHHHHhcC--ChHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhh
Q 004244          538 TTLINAYCTEG--DIPQALRLHDEMIQKGFLPDVVTYS-VLINGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENC  614 (766)
Q Consensus       538 ~~l~~~~~~~g--~~~~A~~~~~~~~~~g~~p~~~~~~-~li~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~  614 (766)
                      ..+..++...+  ++++|...++.+.+.. +++...+. .....+...|.+++|+..+++++... +-+...|..+.   
T Consensus       111 ~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~---  185 (334)
T d1dcea1         111 HHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRS---  185 (334)
T ss_dssp             HHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHH---
T ss_pred             HHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHH---
Confidence            77777777665  4889999999998762 44566654 44466778899999999999998752 22445555555   


Q ss_pred             chhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 004244          615 TNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIV  694 (766)
Q Consensus       615 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  694 (766)
                                  ..+...|++++|...++...+.  .|+   ...+...+...+..+++...+.+.+... +++...+..
T Consensus       186 ------------~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~  247 (334)
T d1dcea1         186 ------------CLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCEL  247 (334)
T ss_dssp             ------------HHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCC
T ss_pred             ------------HHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHH
Confidence                        7788888888887666555442  121   1223444566788888999888887543 344455666


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          695 LVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       695 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      ++..+...|+.++|...+.+..+.+ |.+...+..++.+|...|+.++|.+.+++..+.++
T Consensus       248 l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP  307 (334)
T d1dcea1         248 SVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDP  307 (334)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCG
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCc
Confidence            7778888899999999999999887 66788899999999999999999999999988653

>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=98.67  E-value=2.5e-07  Score=83.62  Aligned_cols=126  Identities=11%  Similarity=-0.038  Sum_probs=104.9

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNE  706 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~  706 (766)
                      ..+...|++++|++.|.++    .+|++.+|..++.+|...|++++|++.|++.++.. +-+...|..++.++.+.|+++
T Consensus        13 ~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~   87 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYD   87 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHH
Confidence            4567899999999999864    34688899999999999999999999999999653 334578889999999999999


Q ss_pred             HHHHHHHHHHHcCCC---------------ChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC
Q 004244          707 ELSQVIENILRSCRL---------------SDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGLLP  757 (766)
Q Consensus       707 ~A~~~~~~~~~~~~~---------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  757 (766)
                      +|+..+++++...+.               ....++..++.++.+.|++++|.+.+++..+....+
T Consensus        88 ~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          88 LAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            999999999875321               124677889999999999999999999887765544

>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=98.62  E-value=2.9e-05  Score=73.96  Aligned_cols=115  Identities=11%  Similarity=-0.023  Sum_probs=57.9

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cC
Q 004244          632 KGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSK----VGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHT----AG  703 (766)
Q Consensus       632 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~g  703 (766)
                      ......|...+......   .+...+..+...+..    ..+...+...++...+.|   +...+..++..+..    ..
T Consensus       123 ~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~  196 (265)
T d1ouva_         123 TRDFKKAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATK  196 (265)
T ss_dssp             CCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCC
T ss_pred             cchhHHHHHHhhhhhcc---cccchhhhhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCccccc
Confidence            34445555555554442   244445555555543    333455555555555433   33334444444433    34


Q ss_pred             ChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhc----CCChhHHHHHHHHHHHCCC
Q 004244          704 MNEELSQVIENILRSCRLSDAELAKVLVEINHK----EGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       704 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~  755 (766)
                      +.++|+.+|+++.+.+   ++..+..|+.+|.+    ..+.++|.++|++..+.|.
T Consensus       197 d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         197 NFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             chhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            5666666666666554   23344455655553    2356666666666655553

>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=98.61  E-value=5.2e-07  Score=73.94  Aligned_cols=103  Identities=20%  Similarity=0.146  Sum_probs=87.8

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  705 (766)
                      ..+...|++++|+..|+++++.  .| +...|..++.+|.+.|++++|++.++++++.. +.+...|..++.++...|++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            6788899999999999999985  35 78889999999999999999999999999764 45668889999999999999


Q ss_pred             HHHHHHHHHHHHcCCCChHHHHHHHHHH
Q 004244          706 EELSQVIENILRSCRLSDAELAKVLVEI  733 (766)
Q Consensus       706 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~  733 (766)
                      ++|+..++++++.. |.+..++..+.++
T Consensus        88 ~~A~~~~~~a~~~~-p~~~~~~~~l~~l  114 (117)
T d1elwa_          88 EEAKRTYEEGLKHE-ANNPQLKEGLQNM  114 (117)
T ss_dssp             HHHHHHHHHHHTTC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            99999999999988 5566666665554

>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=98.55  E-value=8.8e-07  Score=77.30  Aligned_cols=116  Identities=9%  Similarity=-0.012  Sum_probs=95.6

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  705 (766)
                      ..|.+.|++++|+..|+++++.  .| +...|..++.+|...|++++|++.|+++++.. +-+..+|..++.++...|++
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            6788999999999999999985  35 78899999999999999999999999999653 33447899999999999999


Q ss_pred             HHHHHHHHHHHHcCCCChHHHHHHHHHH--HhcCCChhHHHHH
Q 004244          706 EELSQVIENILRSCRLSDAELAKVLVEI--NHKEGNMDAVLNV  746 (766)
Q Consensus       706 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~  746 (766)
                      ++|...+++++..+ |.+..++..+..+  ....+.+++|...
T Consensus        95 ~eA~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          95 RAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999998 5556665555544  3444556666544

>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=98.51  E-value=4.5e-07  Score=82.86  Aligned_cols=92  Identities=10%  Similarity=0.024  Sum_probs=63.7

Q ss_pred             HHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHh
Q 004244          624 ALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIVLVKALHT  701 (766)
Q Consensus       624 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~  701 (766)
                      ..-..+.+.|++++|+..|+++++.  .| ++..|..++.+|.+.|++++|+..|+++++  +.|+ ..+|..++.++..
T Consensus         9 ~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~lg~~~~~   84 (201)
T d2c2la1           9 EQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFLGQCQLE   84 (201)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHHHHHHHHH
Confidence            3345667777777777777777763  24 666777777777777777777777777763  3454 3566677777777


Q ss_pred             cCChHHHHHHHHHHHHcC
Q 004244          702 AGMNEELSQVIENILRSC  719 (766)
Q Consensus       702 ~g~~~~A~~~~~~~~~~~  719 (766)
                      .|++++|+..++++++..
T Consensus        85 l~~~~~A~~~~~~al~l~  102 (201)
T d2c2la1          85 MESYDEAIANLQRAYSLA  102 (201)
T ss_dssp             TTCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhC
Confidence            777777777777777654

>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=98.50  E-value=3.1e-06  Score=76.16  Aligned_cols=124  Identities=10%  Similarity=-0.074  Sum_probs=94.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHH
Q 004244          577 NGLNKQARTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEA  655 (766)
Q Consensus       577 ~~~~~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~  655 (766)
                      ..+...|++++|++.|.++    ..|+..+|..+.               ..|...|++++|++.|++.++.  .| +..
T Consensus        13 ~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG---------------~~~~~~g~~~~A~~~~~kAl~l--dp~~~~   71 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAV----QDPHSRICFNIG---------------CMYTILKNMTEAEKAFTRSINR--DKHLAV   71 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHH--CTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHH---------------HHHHHcCCchhHHHHHHHHHHH--hhhhhh
Confidence            3456788888888888765    345666666665               7888888888888888888874  35 677


Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcC--------------CCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 004244          656 VYDIIIHGHSKVGNVQKAYDLYKKMVRSG--------------FVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSCR  720 (766)
Q Consensus       656 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~--------------~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  720 (766)
                      .|..++.+|.+.|++++|++.|++.+...              ..++ ..++..++.++...|++++|.+.++++++..+
T Consensus        72 a~~~~g~~~~~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          72 AYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             hHHHHHHHHHhhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            88888888888999999988888877431              0111 24566778888999999999999999998764


Q ss_pred             C
Q 004244          721 L  721 (766)
Q Consensus       721 ~  721 (766)
                      .
T Consensus       152 ~  152 (192)
T d1hh8a_         152 E  152 (192)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=98.47  E-value=9.9e-07  Score=72.20  Aligned_cols=95  Identities=11%  Similarity=-0.061  Sum_probs=84.5

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCC
Q 004244          659 IIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEG  738 (766)
Q Consensus       659 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  738 (766)
                      .-+..+.+.|++++|+..|+++++.. +-+...|..++.++...|++++|+..++++++.+ |.+...|..++.++...|
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHcc
Confidence            34677889999999999999999653 4455789999999999999999999999999998 677888999999999999


Q ss_pred             ChhHHHHHHHHHHHCCC
Q 004244          739 NMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       739 ~~~~A~~~~~~m~~~~~  755 (766)
                      ++++|+..+++..+..+
T Consensus        86 ~~~~A~~~~~~a~~~~p  102 (117)
T d1elwa_          86 RFEEAKRTYEEGLKHEA  102 (117)
T ss_dssp             CHHHHHHHHHHHHTTCT
T ss_pred             CHHHHHHHHHHHHHhCC
Confidence            99999999999987653

>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=98.46  E-value=0.00022  Score=67.57  Aligned_cols=226  Identities=8%  Similarity=-0.052  Sum_probs=127.2

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004244          465 VSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDTITYSSLIHGLCE----QRRITEACELFQEMLSRGMSPDEFTYTTL  540 (766)
Q Consensus       465 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  540 (766)
                      ..+..|...+.+.+++++|++.|++..+.|   |...+..|...|..    ..+...|...++.....+   +......+
T Consensus         3 ~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l   76 (265)
T d1ouva_           3 KELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLL   76 (265)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhcc
Confidence            344445555555666666666666665554   44444445555544    446666666666665554   22223333


Q ss_pred             HHHHHh----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----hcCCHHHHHHHHHHHHhCCCCCcHHhHHHHhh
Q 004244          541 INAYCT----EGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLN----KQARTMEAKKLLLKLFYDESVPSDVIYNTLIE  612 (766)
Q Consensus       541 ~~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~----~~g~~~~A~~l~~~~~~~~~~p~~~~~~~ll~  612 (766)
                      ...+..    ..+.+.|...++...+.|.   ......+...+.    .......|...+......   .+...+..+..
T Consensus        77 ~~~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~  150 (265)
T d1ouva_          77 GNLYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGS  150 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHH
T ss_pred             ccccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhh
Confidence            333322    3456666666666666542   222222222222    244555666666665542   23333333331


Q ss_pred             hhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHcCCCCC
Q 004244          613 NCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSK----VGNVQKAYDLYKKMVRSGFVPH  688 (766)
Q Consensus       613 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~~p~  688 (766)
                      .+           ........+...+...++...+.|   +......+...|..    ..+.++|+.+|++..+.|   +
T Consensus       151 ~~-----------~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~  213 (265)
T d1ouva_         151 LY-----------DAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---N  213 (265)
T ss_dssp             HH-----------HHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---C
T ss_pred             hh-----------ccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---C
Confidence            00           012224566777788888777754   55666666666654    567889999999888766   3


Q ss_pred             HHHHHHHHHHHHh----cCChHHHHHHHHHHHHcC
Q 004244          689 TVTIIVLVKALHT----AGMNEELSQVIENILRSC  719 (766)
Q Consensus       689 ~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  719 (766)
                      +..+..|+..+..    ..+.++|..+|+++.+.|
T Consensus       214 ~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         214 GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCc
Confidence            4456666666654    347888999999998887

>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=98.42  E-value=2e-06  Score=83.61  Aligned_cols=202  Identities=10%  Similarity=-0.014  Sum_probs=130.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CcHHhHHHHhhh
Q 004244          540 LINAYCTEGDIPQALRLHDEMIQK----GFLP-DVVTYSVLINGLNKQARTMEAKKLLLKLFYDESV-PSDVIYNTLIEN  613 (766)
Q Consensus       540 l~~~~~~~g~~~~A~~~~~~~~~~----g~~p-~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~-p~~~~~~~ll~~  613 (766)
                      ..+.|...|++++|.+.|.+..+.    +-++ ...+|..+..+|.+.|++++|.+.+++....... .+.......   
T Consensus        43 aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~---  119 (290)
T d1qqea_          43 AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF---  119 (290)
T ss_dssp             HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH---
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH---
Confidence            356678888888888888877652    2112 2357788888888999999999998877642100 111110010   


Q ss_pred             hchhhhhhHHHHHhhhh-hcCCHHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCC
Q 004244          614 CTNIEFQNVAALLKGFC-MKGLMNEADRVFELMLQ----RNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVP  687 (766)
Q Consensus       614 ~~~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~----~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p  687 (766)
                              +..+...|. ..|++++|++.+++..+    .+..+ ...++..++..+...|++++|++.++++.......
T Consensus       120 --------~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~  191 (290)
T d1qqea_         120 --------KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGN  191 (290)
T ss_dssp             --------HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSC
T ss_pred             --------HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccc
Confidence                    111224554 46999999999998864    22112 24567889999999999999999999988542111


Q ss_pred             C-----H-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC----hHHHHHHHHHHHhc--CCChhHHHHHHHHHHH
Q 004244          688 H-----T-VTIIVLVKALHTAGMNEELSQVIENILRSCRLS----DAELAKVLVEINHK--EGNMDAVLNVLTEMAK  752 (766)
Q Consensus       688 ~-----~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~~~l~~~~~~--~g~~~~A~~~~~~m~~  752 (766)
                      .     . ..+...+..+...|+.+.|...+++..+.++..    +......++.++..  .+.+++|+..|+++.+
T Consensus       192 ~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~  268 (290)
T d1qqea_         192 RLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (290)
T ss_dssp             TTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             hhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhh
Confidence            1     1 223445556678899999999999998876322    12344556666554  4568888888765443

>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=98.39  E-value=1e-06  Score=71.45  Aligned_cols=92  Identities=12%  Similarity=-0.030  Sum_probs=77.9

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcC
Q 004244          658 DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKE  737 (766)
Q Consensus       658 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  737 (766)
                      ...+..+.+.|++++|+..++++++.. +-+...|..++.++.+.|++++|+..++++++.+ |.+..++..++.+|...
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHC
Confidence            345677888999999999999998653 2346888889999999999999999999999998 66788888999999999


Q ss_pred             CChhHHHHHHHHHH
Q 004244          738 GNMDAVLNVLTEMA  751 (766)
Q Consensus       738 g~~~~A~~~~~~m~  751 (766)
                      |++++|.+.+++..
T Consensus        98 g~~~~A~~~l~~~l  111 (112)
T d1hxia_          98 HNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999998753

>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=98.33  E-value=2.9e-06  Score=73.86  Aligned_cols=95  Identities=9%  Similarity=-0.067  Sum_probs=84.5

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcC
Q 004244          658 DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKE  737 (766)
Q Consensus       658 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  737 (766)
                      ..-+..|.+.|++++|++.|+++++.. +-+...|..++.++...|++++|+..++++++.+ |.+..+|..++.++...
T Consensus        14 ~~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~   91 (159)
T d1a17a_          14 KTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMAL   91 (159)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHc
Confidence            345667889999999999999999763 3445888999999999999999999999999998 67788899999999999


Q ss_pred             CChhHHHHHHHHHHHCC
Q 004244          738 GNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       738 g~~~~A~~~~~~m~~~~  754 (766)
                      |++++|.+.+++.....
T Consensus        92 g~~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          92 GKFRAALRDYETVVKVK  108 (159)
T ss_dssp             TCHHHHHHHHHHHHHHS
T ss_pred             CCHHHHHHHHHHHHHcC
Confidence            99999999999988765

>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=98.32  E-value=5e-07  Score=82.55  Aligned_cols=102  Identities=9%  Similarity=-0.089  Sum_probs=91.1

Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHH
Q 004244          651 MPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVL  730 (766)
Q Consensus       651 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  730 (766)
                      .|+...+...+..+.+.|++++|++.|+++++.. +.+...|..++.+|.+.|++++|+..++++++.+ |....+|..+
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~l   78 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFL   78 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHH
Confidence            3777888888999999999999999999998653 4456888999999999999999999999999998 6678889999


Q ss_pred             HHHHhcCCChhHHHHHHHHHHHCC
Q 004244          731 VEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       731 ~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      +.+|.+.|++++|+..+++..+..
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~l~  102 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYSLA  102 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC
Confidence            999999999999999999987654

>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=98.29  E-value=2.3e-06  Score=70.17  Aligned_cols=103  Identities=9%  Similarity=0.040  Sum_probs=81.7

Q ss_pred             HHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCC---hHHHHHHHHHHHHcCCCCCH-HHHHHHHHHH
Q 004244          624 ALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGN---VQKAYDLYKKMVRSGFVPHT-VTIIVLVKAL  699 (766)
Q Consensus       624 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~  699 (766)
                      .|++.+...+++++|.+.|++.+..+ +.++.++..++.++.+.++   +++|++++++++.....|+. .++..++.+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            34477888999999999999999853 2378899999999987655   45799999999854433332 4778899999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCChHHHHH
Q 004244          700 HTAGMNEELSQVIENILRSCRLSDAELAK  728 (766)
Q Consensus       700 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  728 (766)
                      .+.|++++|+.+++++++.+ |.+.....
T Consensus        83 ~~~g~~~~A~~~~~~aL~~~-P~~~~A~~  110 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQTE-PQNNQAKE  110 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHhC-cCCHHHHH
Confidence            99999999999999999998 44444443

>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=98.19  E-value=3.7e-05  Score=74.27  Aligned_cols=127  Identities=11%  Similarity=0.024  Sum_probs=62.0

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCC-----CChHHHHHH
Q 004244          296 INGLCKEGRLKETKGILNEISRK----GLVPD-EVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLS-----PNVVTYTSL  365 (766)
Q Consensus       296 i~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~-----~~~~~~~~l  365 (766)
                      ...|-..|++++|.+.|.+..+.    +-.++ ..+|..+..+|.+.|++++|.+.++...+....     ....++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            34455666667766666666542    11111 234555666666666666666666654432000     012233344


Q ss_pred             HHHHHh-cCCHHHHHHHHHHHHHC----CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004244          366 INSMCK-SGNLNRAMEFFDQMHVR----ELRP-NEKTYTTLINGFSQHGFLDEAYRLLNEMTK  422 (766)
Q Consensus       366 i~~~~~-~g~~~~A~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  422 (766)
                      ...|.. .|++++|.+.+++..+.    +.++ -..++..+...+...|++++|...++++..
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~  186 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIK  186 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHH
Confidence            444432 36666666666554321    1011 122344455555555555555555555544

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.15  E-value=3.7e-06  Score=68.85  Aligned_cols=96  Identities=10%  Similarity=0.078  Sum_probs=80.7

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHcCCCCh-HHHHHHHHHH
Q 004244          658 DIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGM---NEELSQVIENILRSCRLSD-AELAKVLVEI  733 (766)
Q Consensus       658 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~-~~~~~~l~~~  733 (766)
                      ..++..+...+++++|.+.|++.++.+ +.+..++..++.++.+.++   .++|+.+++++++.++.++ ..++..|+.+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            457788889999999999999999764 4566888899999987655   4579999999998874443 4578899999


Q ss_pred             HhcCCChhHHHHHHHHHHHCC
Q 004244          734 NHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       734 ~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      |.+.|++++|.+.|+++.+..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhHHHHHHHHHHHHhC
Confidence            999999999999999998865

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.14  E-value=0.0017  Score=62.63  Aligned_cols=145  Identities=11%  Similarity=0.133  Sum_probs=92.9

Q ss_pred             CCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCChhHHHHHHHHHhhCCCCCCHHHHHHH
Q 004244          216 SPNVYTYNVLIRGFCGVGDLEMGLRFFSEMEKNNCLANVVTYNTLIDGYCKLGRIDDAFKLLRDMGLKGIEPNLISYNVI  295 (766)
Q Consensus       216 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~l  295 (766)
                      .||..--..+++-|.+.|.++.|..++..+..         |..++..+.+.++++.|.+.+.+..      +..+|..+
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~   75 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEV   75 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHH
Confidence            36666667778888899999999999987654         7778888889999999988887652      56788888


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCH
Q 004244          296 INGLCKEGRLKETKGILNEISRKGLVPDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNL  375 (766)
Q Consensus       296 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  375 (766)
                      ...+.+.....-+     .+.......+......++..|-..|.+++...+++..... -..+...++-++..|++.+ .
T Consensus        76 ~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-~  148 (336)
T d1b89a_          76 CFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-P  148 (336)
T ss_dssp             HHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-H
T ss_pred             HHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-h
Confidence            8888776655443     2223333345666677888899999999999998877643 2457778888888888864 3


Q ss_pred             HHHHHHH
Q 004244          376 NRAMEFF  382 (766)
Q Consensus       376 ~~A~~~~  382 (766)
                      ++-.+.+
T Consensus       149 ~kl~e~l  155 (336)
T d1b89a_         149 QKMREHL  155 (336)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            3333333

>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=98.13  E-value=2.4e-05  Score=68.54  Aligned_cols=114  Identities=11%  Similarity=-0.012  Sum_probs=90.2

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCC-CCC-------------HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNH-MPN-------------EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTI  692 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~-~p~-------------~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  692 (766)
                      ..+.+.|++++|+..|.+.++... .+.             ..+|+.++.+|.+.|++++|+..+++.++.. +.+...+
T Consensus        21 ~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~   99 (170)
T d1p5qa1          21 TVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGL   99 (170)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhh
Confidence            578899999999999999885311 111             2456778899999999999999999999653 3356888


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhH
Q 004244          693 IVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDA  742 (766)
Q Consensus       693 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  742 (766)
                      ..++.++...|++++|+..|+++++.+ |.+..+...+..+.-+.+...+
T Consensus       100 ~~~g~~~~~~g~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~~~~~~~~~  148 (170)
T d1p5qa1         100 SRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLA  148 (170)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHH
Confidence            899999999999999999999999998 5667777777766655444443

>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=98.11  E-value=7.7e-06  Score=66.01  Aligned_cols=87  Identities=11%  Similarity=0.008  Sum_probs=77.4

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMN  705 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~  705 (766)
                      ..+.+.|++++|+..|+++++.  .| ++.+|..++.++.+.|++++|+..++++++.. +.+..+|..++..+...|++
T Consensus        24 ~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          24 LSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHhhhccc--ccccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCH
Confidence            5678899999999999999985  35 78999999999999999999999999999653 33468899999999999999


Q ss_pred             HHHHHHHHHHH
Q 004244          706 EELSQVIENIL  716 (766)
Q Consensus       706 ~~A~~~~~~~~  716 (766)
                      ++|.+.+++.+
T Consensus       101 ~~A~~~l~~~l  111 (112)
T d1hxia_         101 NAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999999875

>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=98.06  E-value=1.1e-05  Score=67.03  Aligned_cols=94  Identities=11%  Similarity=0.023  Sum_probs=68.0

Q ss_pred             HHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCC-CCC-----HHHHHHHHHH
Q 004244          625 LLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGF-VPH-----TVTIIVLVKA  698 (766)
Q Consensus       625 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~-~p~-----~~~~~~l~~~  698 (766)
                      +-..+...|++++|+..|++.++.+ +.+...|..++.+|.+.|++++|++.++++++... .++     ..+|..++..
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            3456778888888888888888743 12677888888888888888888888888774210 011     1356667777


Q ss_pred             HHhcCChHHHHHHHHHHHHcC
Q 004244          699 LHTAGMNEELSQVIENILRSC  719 (766)
Q Consensus       699 ~~~~g~~~~A~~~~~~~~~~~  719 (766)
                      +...+++++|+.++++.+...
T Consensus        89 ~~~~~~~~~A~~~~~kal~~~  109 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLAEH  109 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhCCHHHHHHHHHHHHhcC
Confidence            778888888888888887765

>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=98.00  E-value=3.1e-05  Score=67.86  Aligned_cols=99  Identities=10%  Similarity=-0.063  Sum_probs=82.6

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcC-CCCC-------------HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 004244          656 VYDIIIHGHSKVGNVQKAYDLYKKMVRSG-FVPH-------------TVTIIVLVKALHTAGMNEELSQVIENILRSCRL  721 (766)
Q Consensus       656 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~-~~p~-------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  721 (766)
                      .+...+..+.+.|++++|++.|+++++.- ..+.             ..+|..++.++.+.|++++|+..++++++.+ |
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p   93 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-S   93 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-c
Confidence            44556778999999999999999988531 1111             1446668888999999999999999999998 6


Q ss_pred             ChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          722 SDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       722 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      .++.++..++.+|...|++++|...|++..+.++
T Consensus        94 ~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P  127 (170)
T d1p5qa1          94 NNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP  127 (170)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             cchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            7788999999999999999999999999988653

>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=97.95  E-value=0.0083  Score=57.62  Aligned_cols=136  Identities=12%  Similarity=0.129  Sum_probs=71.6

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHhHHHHHH
Q 004244          322 PDEVTYNTLLNGYCKEGNLHQALVLHAEMVRNGLSPNVVTYTSLINSMCKSGNLNRAMEFFDQMHVRELRPNEKTYTTLI  401 (766)
Q Consensus       322 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li  401 (766)
                      ||..-...+.+.|.+.|.++.|..+|..+.         -|..++..+.+.++++.|.+++.+..      +..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHH
Confidence            444444555666667777777777776432         24556666667777777776665442      555666666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 004244          402 NGFSQHGFLDEAYRLLNEMTKNGFMPSIVTYNALIKGHCTGGRVEDAVGVLHGMARKGLAPDVVSYSTIISGFSRSQ  478 (766)
Q Consensus       402 ~~~~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  478 (766)
                      ..+.+.....-+     .+.......+......++..|-..|..++...+++..... -..+...++.++..|++.+
T Consensus        77 ~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          77 FACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC
T ss_pred             HHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC
Confidence            666665554332     2222223334445556677777777777777777766543 2346666777777777654

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.92  E-value=0.00015  Score=61.94  Aligned_cols=105  Identities=15%  Similarity=0.026  Sum_probs=80.1

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCC----CC-----------HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHM----PN-----------EAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVT  691 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~----p~-----------~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  691 (766)
                      ..+.+.|++++|+..|.++++.-..    ++           ..+|..++.+|.+.|++++|++.++++++.. +.+..+
T Consensus        25 ~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka  103 (153)
T d2fbna1          25 NEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKA  103 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhh
Confidence            6678899999999999998852111    11           2356678888889999999999999988653 335588


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHH
Q 004244          692 IIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEI  733 (766)
Q Consensus       692 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  733 (766)
                      |..++.++...|++++|+..|+++++.+ |.+..+...+..+
T Consensus       104 ~~~~g~~~~~lg~~~~A~~~~~~al~l~-P~n~~~~~~l~~~  144 (153)
T d2fbna1         104 LYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELC  144 (153)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHH
T ss_pred             hHHhHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            8889999999999999999999999988 4555555544443

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.90  E-value=2.7e-06  Score=89.48  Aligned_cols=225  Identities=8%  Similarity=-0.068  Sum_probs=123.7

Q ss_pred             HHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHH
Q 004244          482 KAFDTKREMVEKGVLPD-TITYSSLIHGLCEQRRITEACELFQEMLSRGMSPDEF-TYTTLINAYCTEGDIPQALRLHDE  559 (766)
Q Consensus       482 ~A~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~  559 (766)
                      +|.+.|++..+.  .|| ...+..+..++...|++++|   |++++..  .|+.. .++.. ..+. ...+..+.+.++.
T Consensus         4 eA~q~~~qA~~l--~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~--dp~~a~~~~~e-~~Lw-~~~y~~~ie~~r~   74 (497)
T d1ya0a1           4 QSAQYLRQAEVL--KADMTDSKLGPAEVWTSRQALQDL---YQKMLVT--DLEYALDKKVE-QDLW-NHAFKNQITTLQG   74 (497)
T ss_dssp             HHHHHHHHHHHH--HGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHH--CHHHHHHHTHH-HHHH-HHHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHc--CCCCHHHHhhHHHHHHHHchHHHH---HHHHHHc--ChhhHHHHhHH-HHHH-HHHHHHHHHHHHH
Confidence            677888888764  233 34556667777778888776   6666544  22211 11111 1111 1124556677777


Q ss_pred             HHHCCCCCCHHHHHHHHHH--HHhcCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHH
Q 004244          560 MIQKGFLPDVVTYSVLING--LNKQARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMN  636 (766)
Q Consensus       560 ~~~~g~~p~~~~~~~li~~--~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~  636 (766)
                      ..+....++..........  ....+.++.|+..+.+...  ..|+ ...+..+.               ..+.+.|+.+
T Consensus        75 ~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~--l~~~~~~~~~~lg---------------~~~~~~~~~~  137 (497)
T d1ya0a1          75 QAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFN--VDLPCRVKSSQLG---------------IISNKQTHTS  137 (497)
T ss_dssp             HHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC-------------------------------------------
T ss_pred             hcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CChhhHHHHHHhH---------------HHHHhCCCHH
Confidence            6654333333222221112  1234555555555544433  3333 33333333               6778889999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHH
Q 004244          637 EADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQVIENI  715 (766)
Q Consensus       637 ~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~  715 (766)
                      +|...++.....  . ...++..+++.+...|++++|+..|+++++.  .|+. ..|+.++..+...|+..+|+.+|.++
T Consensus       138 ~A~~~~~~al~~--~-~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ra  212 (497)
T d1ya0a1         138 AIVKPQSSSCSY--I-CQHCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRS  212 (497)
T ss_dssp             -----CCHHHHH--H-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCC--C-HHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999888777652  1 2356778899999999999999999999854  4554 78899999999999999999999999


Q ss_pred             HHcCCCChHHHHHHHHHHHhcCC
Q 004244          716 LRSCRLSDAELAKVLVEINHKEG  738 (766)
Q Consensus       716 ~~~~~~~~~~~~~~l~~~~~~~g  738 (766)
                      +... ++...++..|...+.+..
T Consensus       213 l~~~-~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         213 IAVK-FPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HSSS-BCCHHHHHHHHHHHHHHT
T ss_pred             HhCC-CCCHHHHHHHHHHHHHhh
Confidence            9887 456777777877776543

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.89  E-value=5.1e-05  Score=66.36  Aligned_cols=109  Identities=12%  Similarity=0.049  Sum_probs=84.3

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhC--------------CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQR--------------NHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVT  691 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~--------------~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  691 (766)
                      ..+...|++++|+..|.++++.              ...| ....|..++.++.+.|++++|+..++++++.. +.+...
T Consensus        35 ~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a  113 (169)
T d1ihga1          35 NTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKA  113 (169)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhH
Confidence            6678899999999999877531              1123 44567778889999999999999999999542 334578


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcC
Q 004244          692 IIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKE  737 (766)
Q Consensus       692 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  737 (766)
                      |..++.++...|++++|+..|+++++.+ |.+..+...+..+..+.
T Consensus       114 ~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~~~~l  158 (169)
T d1ihga1         114 LYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKI  158 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHH
Confidence            8899999999999999999999999998 55666666666655433

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.88  E-value=8.4e-05  Score=63.60  Aligned_cols=99  Identities=11%  Similarity=-0.047  Sum_probs=81.7

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCC----CCC-----------HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 004244          656 VYDIIIHGHSKVGNVQKAYDLYKKMVRSGF----VPH-----------TVTIIVLVKALHTAGMNEELSQVIENILRSCR  720 (766)
Q Consensus       656 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~----~p~-----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  720 (766)
                      .+..-+..+.+.|++++|+..|.+++..-.    .++           ..++..++.++.+.|++++|+..++++++.+ 
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-   97 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-   97 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-
Confidence            344556778899999999999999885311    111           1356678889999999999999999999998 


Q ss_pred             CChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          721 LSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       721 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      |.+..+|..++.+|...|++++|...|++..+.++
T Consensus        98 p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P  132 (153)
T d2fbna1          98 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP  132 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST
T ss_pred             chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            67788999999999999999999999999887653

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.86  E-value=0.00036  Score=60.63  Aligned_cols=94  Identities=12%  Similarity=0.005  Sum_probs=66.2

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Q 004244          655 AVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELAKVLVEIN  734 (766)
Q Consensus       655 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  734 (766)
                      .+|..+..+|.+.|++++|+..++++++.. +.+..+|..++.++...|++++|+..++++++.+ |.+..+...+..+.
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~  142 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIFMCQ  142 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            346667778888888888888888888643 3445778888888888899999999999988887 45566666666655


Q ss_pred             hcCCChhH-HHHHHHHH
Q 004244          735 HKEGNMDA-VLNVLTEM  750 (766)
Q Consensus       735 ~~~g~~~~-A~~~~~~m  750 (766)
                      ...+...+ ..+.+.+|
T Consensus       143 ~~~~~~~e~~kk~~~~~  159 (168)
T d1kt1a1         143 KKAKEHNERDRRTYANM  159 (168)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHH
Confidence            54443332 33444443

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.81  E-value=7.5e-05  Score=61.64  Aligned_cols=98  Identities=11%  Similarity=0.055  Sum_probs=82.9

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCh------HHHHHH
Q 004244          656 VYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENILRSCRLSD------AELAKV  729 (766)
Q Consensus       656 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~------~~~~~~  729 (766)
                      .+..++..+.+.|++++|++.|+++++.. +.+...+..++.++...|++++|+..++++++.++...      ..+|..
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            35568889999999999999999999763 34568888999999999999999999999998753221      467889


Q ss_pred             HHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          730 LVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       730 l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      ++..+...|++++|++.+++.....
T Consensus        85 lg~~~~~~~~~~~A~~~~~kal~~~  109 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKSLAEH  109 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcC
Confidence            9999999999999999998876543

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.78  E-value=6.1e-06  Score=86.75  Aligned_cols=225  Identities=16%  Similarity=0.040  Sum_probs=123.8

Q ss_pred             HHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHH
Q 004244          447 DAVGVLHGMARKGLAPD-VVSYSTIISGFSRSQELDKAFDTKREMVEKGVLPDT-ITYSSLIHGLCEQRRITEACELFQE  524 (766)
Q Consensus       447 ~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~  524 (766)
                      +|.+.|++..+.  +|+ ...+..+..+|...|++++|   |++++..+  |+. ...+  +....-...+..+.+.++.
T Consensus         4 eA~q~~~qA~~l--~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~d--p~~a~~~~--~e~~Lw~~~y~~~ie~~r~   74 (497)
T d1ya0a1           4 QSAQYLRQAEVL--KADMTDSKLGPAEVWTSRQALQDL---YQKMLVTD--LEYALDKK--VEQDLWNHAFKNQITTLQG   74 (497)
T ss_dssp             HHHHHHHHHHHH--HGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHC--HHHHHHHT--HHHHHHHHHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHc--CCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcC--hhhHHHHh--HHHHHHHHHHHHHHHHHHH
Confidence            678888888764  233 34566677778888888876   66666542  211 1111  1111111224567777777


Q ss_pred             HHHCCCCCCHHHHHHHHHH--HHhcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 004244          525 MLSRGMSPDEFTYTTLINA--YCTEGDIPQALRLHDEMIQKGFLPDVVTYSVLINGLNKQARTMEAKKLLLKLFYDESVP  602 (766)
Q Consensus       525 m~~~~~~p~~~~~~~l~~~--~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~~~~~~~~p  602 (766)
                      ..+....++..-.......  +...+.++.|+..+....+. -+++...+..+...+.+.|+.++|...+.+...    +
T Consensus        75 ~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~----~  149 (497)
T d1ya0a1          75 QAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNV-DLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCS----Y  149 (497)
T ss_dssp             HHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHH----H
T ss_pred             hcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhC----C
Confidence            7765434443322222222  22345555555555444432 134556777788888899999999988877654    2


Q ss_pred             cH-HhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHH
Q 004244          603 SD-VIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKM  680 (766)
Q Consensus       603 ~~-~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m  680 (766)
                      +. ..+..+.               +.+...|++++|+..|+++.+.  .| +..+|+.++..+...|+..+|+..|.+.
T Consensus       150 ~~~~~~~~LG---------------~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ra  212 (497)
T d1ya0a1         150 ICQHCLVHLG---------------DIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRS  212 (497)
T ss_dssp             HHHHHHHHHH---------------HHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHH---------------HHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            22 2233333               8889999999999999999984  46 6789999999999999999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcC
Q 004244          681 VRSGFVPHTVTIIVLVKALHTAG  703 (766)
Q Consensus       681 ~~~~~~p~~~~~~~l~~~~~~~g  703 (766)
                      +... +|-..++..|...+.+..
T Consensus       213 l~~~-~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         213 IAVK-FPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HSSS-BCCHHHHHHHHHHHHHHT
T ss_pred             HhCC-CCCHHHHHHHHHHHHHhh
Confidence            9653 566678888877766544

>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=97.77  E-value=0.00013  Score=63.96  Aligned_cols=124  Identities=10%  Similarity=0.041  Sum_probs=81.1

Q ss_pred             hHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 004244          621 NVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALH  700 (766)
Q Consensus       621 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~  700 (766)
                      ............|++++|...|.+.+...  +....     .. ...+.|  +...-..+..    -....+..++..+.
T Consensus        13 ~~~~~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~l-----~~-~~~~~w--~~~~r~~l~~----~~~~a~~~la~~~~   78 (179)
T d2ff4a2          13 AEKTAGVHAAAAGRFEQASRHLSAALREW--RGPVL-----DD-LRDFQF--VEPFATALVE----DKVLAHTAKAEAEI   78 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CSSTT-----GG-GTTSTT--HHHHHHHHHH----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccccc-----cc-CcchHH--HHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            33444456778899999999998888642  21100     00 011111  1111111110    11245667788888


Q ss_pred             hcCChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHH-----CCCCCCC
Q 004244          701 TAGMNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAK-----DGLLPNS  759 (766)
Q Consensus       701 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-----~~~~~~~  759 (766)
                      ..|++++|+..++++++.+ |.+...|..++.+|.+.|++++|++.|+++.+     .|+.|++
T Consensus        79 ~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~  141 (179)
T d2ff4a2          79 ACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP  141 (179)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH
T ss_pred             HCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCH
Confidence            8999999999999999888 66778888899999999999999988888643     5777764

>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=97.67  E-value=0.00011  Score=62.02  Aligned_cols=118  Identities=12%  Similarity=0.042  Sum_probs=87.6

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhcc----------CChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKV----------GNVQKAYDLYKKMVRSGFVPHTVTIIVL  695 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~----------g~~~~A~~~~~~m~~~~~~p~~~~~~~l  695 (766)
                      +.|-+.+.+++|+..|+..++.  .| ++.++..++.++...          +.+++|++.|+++++.. +.+..+|..+
T Consensus         5 ~~~~r~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~l   81 (145)
T d1zu2a1           5 TEFDRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCI   81 (145)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhH
Confidence            3456677899999999999984  46 788888888888743          45688999999998653 3345788888


Q ss_pred             HHHHHhcC-----------ChHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          696 VKALHTAG-----------MNEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       696 ~~~~~~~g-----------~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      +.++...|           ++++|...|+++++.+ |.+...+..|...       .+|.+++.+..+.|+
T Consensus        82 G~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~-P~~~~~~~~L~~~-------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          82 GNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ-PDNTHYLKSLEMT-------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH-------HTHHHHHHHHHHSSS
T ss_pred             HHHHHHcccchhhHHHHHHhHHHhhhhhhcccccC-CCHHHHHHHHHHH-------HHHHHHHHHHHHHhc
Confidence            88887665           3688999999999998 4445554444433       466777777777664

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.65  E-value=0.00015  Score=63.31  Aligned_cols=96  Identities=14%  Similarity=-0.008  Sum_probs=79.3

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHc--------------CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 004244          658 DIIIHGHSKVGNVQKAYDLYKKMVRS--------------GFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSCRLS  722 (766)
Q Consensus       658 ~~l~~~~~~~g~~~~A~~~~~~m~~~--------------~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  722 (766)
                      ...+..+.+.|++++|++.|.++++.              .+.|. ...+..++.++.+.|++++|+..++++++.+ |.
T Consensus        31 ~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~  109 (169)
T d1ihga1          31 KNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PS  109 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hh
Confidence            34566678899999999999887531              11222 2456678889999999999999999999998 67


Q ss_pred             hHHHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          723 DAELAKVLVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       723 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      ++..|..++.+|...|++++|++.|++..+..
T Consensus       110 ~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~  141 (169)
T d1ihga1         110 NTKALYRRAQGWQGLKEYDQALADLKKAQEIA  141 (169)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            88999999999999999999999999988764

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.64  E-value=0.00045  Score=59.92  Aligned_cols=96  Identities=9%  Similarity=-0.062  Sum_probs=72.8

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHc---CCCCC-----------HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCh
Q 004244          658 DIIIHGHSKVGNVQKAYDLYKKMVRS---GFVPH-----------TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSD  723 (766)
Q Consensus       658 ~~l~~~~~~~g~~~~A~~~~~~m~~~---~~~p~-----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  723 (766)
                      ...+..+.+.|++++|+..|++++..   ...++           ...|..++.++.+.|++++|+..++++++.+ |.+
T Consensus        19 ~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~   97 (168)
T d1kt1a1          19 KEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SAN   97 (168)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cch
Confidence            34455566666666666666665421   11111           1345567888999999999999999999998 677


Q ss_pred             HHHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 004244          724 AELAKVLVEINHKEGNMDAVLNVLTEMAKDG  754 (766)
Q Consensus       724 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  754 (766)
                      ..+|..++.+|...|++++|.+.++++.+..
T Consensus        98 ~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          98 EKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            8899999999999999999999999998765

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.58  E-value=5.2e-05  Score=71.31  Aligned_cols=123  Identities=10%  Similarity=0.083  Sum_probs=91.3

Q ss_pred             hhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChH
Q 004244          629 FCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNE  706 (766)
Q Consensus       629 ~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~  706 (766)
                      ..+.|++++|+..+++.++.  .| |...+..++..|+..|++++|.+.++++.+.  .|+. ..+..+...+...+..+
T Consensus         6 aL~~G~l~eAl~~l~~al~~--~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccH
Confidence            45689999999999999985  35 8899999999999999999999999999864  5665 45555555555544444


Q ss_pred             HHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          707 ELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       707 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      ++.....+......+++...+...+..+...|+.++|.+.++++.+...
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p  130 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQ  130 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC
Confidence            4433322222223344556666677888999999999999999887653

>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=97.40  E-value=0.00039  Score=59.51  Aligned_cols=97  Identities=10%  Similarity=0.034  Sum_probs=64.7

Q ss_pred             HHHHH--HHHHhccCChHHHHHHHHHHHHcC-CCCC----------HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC--
Q 004244          656 VYDII--IHGHSKVGNVQKAYDLYKKMVRSG-FVPH----------TVTIIVLVKALHTAGMNEELSQVIENILRSCR--  720 (766)
Q Consensus       656 ~~~~l--~~~~~~~g~~~~A~~~~~~m~~~~-~~p~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--  720 (766)
                      +|..+  +..+.+.|++++|++.|++.++.. -.|+          ..+|..++.++.+.|++++|...++++++..+  
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~   88 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   88 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccc
Confidence            44444  445566788888888888876421 0121          24667778888888888888888888775411  


Q ss_pred             ----CC----hHHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 004244          721 ----LS----DAELAKVLVEINHKEGNMDAVLNVLTEMAK  752 (766)
Q Consensus       721 ----~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  752 (766)
                          +.    ...+++.++.+|...|++++|++.|++..+
T Consensus        89 ~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          89 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                11    133567788888888888888888887654

>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=97.38  E-value=0.003  Score=54.97  Aligned_cols=65  Identities=14%  Similarity=0.144  Sum_probs=50.8

Q ss_pred             HHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHH-----HcCCCCCHHH
Q 004244          625 LLKGFCMKGLMNEADRVFELMLQRNHMP-NEAVYDIIIHGHSKVGNVQKAYDLYKKMV-----RSGFVPHTVT  691 (766)
Q Consensus       625 l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~-----~~~~~p~~~~  691 (766)
                      +...+...|++++|+..++++++.  .| +...|..++.+|.+.|+.++|++.|+++.     +.|+.|...+
T Consensus        73 la~~~~~~g~~~~Al~~~~~al~~--~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          73 KAEAEIACGRASAVIAELEALTFE--HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHCCCchHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            337788888888888888888874  35 77888888888888888888888888863     3577887654

>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=97.24  E-value=0.0016  Score=49.81  Aligned_cols=77  Identities=8%  Similarity=-0.118  Sum_probs=58.9

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHc-----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCChHHHH
Q 004244          654 EAVYDIIIHGHSKVGNVQKAYDLYKKMVRS-----GFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSCRLSDAELA  727 (766)
Q Consensus       654 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~-----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  727 (766)
                      ...+..++..+.+.|++++|+..|+++++.     ...++ ..++..++.++.+.|++++|+..++++++.+ |.+..++
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~-P~~~~a~   83 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD-PEHQRAN   83 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC-cCCHHHH
Confidence            344456788899999999999999988742     11222 3678889999999999999999999999998 5556666


Q ss_pred             HHHH
Q 004244          728 KVLV  731 (766)
Q Consensus       728 ~~l~  731 (766)
                      ..+.
T Consensus        84 ~Nl~   87 (95)
T d1tjca_          84 GNLK   87 (95)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5553

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.15  E-value=0.00028  Score=66.08  Aligned_cols=122  Identities=13%  Similarity=0.096  Sum_probs=84.3

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCc-HHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCC-CHHH
Q 004244          579 LNKQARTMEAKKLLLKLFYDESVPS-DVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMP-NEAV  656 (766)
Q Consensus       579 ~~~~g~~~~A~~l~~~~~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~  656 (766)
                      ..+.|++++|+..+++.++.  .|+ ...+..+.               ..++..|++++|.+.++...+.  .| +...
T Consensus         6 aL~~G~l~eAl~~l~~al~~--~P~d~~ar~~La---------------~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~   66 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKA--SPKDASLRSSFI---------------ELLCIDGDFERADEQLMQSIKL--FPEYLPG   66 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHH---------------HHHHHHTCHHHHHHHHHHHHHH--CGGGHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHH---------------HHHHHCCCHHHHHHHHHHHHHh--CCCcHHH
Confidence            34789999999999999985  454 45555555               8999999999999999999984  46 4556


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 004244          657 YDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPH-TVTIIVLVKALHTAGMNEELSQVIENILRSCR  720 (766)
Q Consensus       657 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  720 (766)
                      +..+...+...+..+++..-.......+ .|+ ...+...+..+...|+.++|...++++.+..+
T Consensus        67 ~~~l~~ll~a~~~~~~a~~~~~~~~~~~-~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p  130 (264)
T d1zbpa1          67 ASQLRHLVKAAQARKDFAQGAATAKVLG-ENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQ  130 (264)
T ss_dssp             HHHHHHHHHHHHHHHHHTTSCCCEECCC-SCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHhccccHHHHHHhhhhhccc-CchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC
Confidence            6666655544444444332222111111 232 24444556778889999999999999998863

>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=97.08  E-value=0.0028  Score=53.83  Aligned_cols=92  Identities=13%  Similarity=0.118  Sum_probs=72.2

Q ss_pred             hhhhhcCCHHHHHHHHHHHHhCCC-CCC----------HHHHHHHHHHHhccCChHHHHHHHHHHHHc-----CCCCCH-
Q 004244          627 KGFCMKGLMNEADRVFELMLQRNH-MPN----------EAVYDIIIHGHSKVGNVQKAYDLYKKMVRS-----GFVPHT-  689 (766)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~-~p~----------~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~-----~~~p~~-  689 (766)
                      ..+...|++++|+..|++.++... .|+          ...|+.++.+|.+.|++++|++.+++.++.     ...++. 
T Consensus        17 ~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~   96 (156)
T d2hr2a1          17 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEG   96 (156)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccccccccccc
Confidence            567788999999999999985211 111          467889999999999999999999998742     112221 


Q ss_pred             ----HHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 004244          690 ----VTIIVLVKALHTAGMNEELSQVIENILRS  718 (766)
Q Consensus       690 ----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  718 (766)
                          ..+..++.++...|++++|+..|+++++.
T Consensus        97 ~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          97 KLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             chhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence                34667889999999999999999999876

>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=97.06  E-value=0.00071  Score=56.84  Aligned_cols=58  Identities=12%  Similarity=0.059  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-----------CHHHHHHHHHHHHhCCCCCcHHhHHHHh
Q 004244          551 PQALRLHDEMIQKGFLPDVVTYSVLINGLNKQA-----------RTMEAKKLLLKLFYDESVPSDVIYNTLI  611 (766)
Q Consensus       551 ~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g-----------~~~~A~~l~~~~~~~~~~p~~~~~~~ll  611 (766)
                      ++|+..+++.++.. +.+..+|..+..+|...|           .+++|.+.|++.++  +.|+...+...+
T Consensus        58 ~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L  126 (145)
T d1zu2a1          58 QEAITKFEEALLID-PKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSL  126 (145)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhc-chhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHH
Confidence            44555555544431 233444444444443332           36788888888887  577777666655

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.86  E-value=0.0029  Score=48.36  Aligned_cols=67  Identities=15%  Similarity=0.094  Sum_probs=56.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC------CChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          689 TVTIIVLVKALHTAGMNEELSQVIENILRSCR------LSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       689 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      ...+..++..+.+.|++++|+.+++++++..+      +....++..|+.++.+.|++++|++.++++.+..+
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P   77 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDP   77 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCc
Confidence            34455788999999999999999999987632      22467899999999999999999999999988653

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.54  E-value=0.027  Score=45.86  Aligned_cols=113  Identities=11%  Similarity=-0.038  Sum_probs=83.6

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCChHHH
Q 004244          633 GLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHT----AGMNEEL  708 (766)
Q Consensus       633 g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~g~~~~A  708 (766)
                      .++++|++.|++..+.|.   ......+.  .....+.++|++++++..+.|   +...+..|...+..    ..+.++|
T Consensus         7 kd~~~A~~~~~kaa~~g~---~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNE---MFGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTC---TTHHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHCCC---hhhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHH
Confidence            478899999999998763   22233333  344578899999999998776   34455556666654    4678999


Q ss_pred             HHHHHHHHHcCCCChHHHHHHHHHHHhc----CCChhHHHHHHHHHHHCCCC
Q 004244          709 SQVIENILRSCRLSDAELAKVLVEINHK----EGNMDAVLNVLTEMAKDGLL  756 (766)
Q Consensus       709 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~~  756 (766)
                      ..+++++.+.+   ++.....|+..|..    ..+.++|.+++++..+.|..
T Consensus        79 ~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~~  127 (133)
T d1klxa_          79 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  127 (133)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCCH
Confidence            99999999876   24455668877775    46899999999999988763

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.23  E-value=0.064  Score=43.45  Aligned_cols=110  Identities=10%  Similarity=-0.044  Sum_probs=78.2

Q ss_pred             CHHHHHHHHHHHHhCCCCCcHHhHHHHhhhhchhhhhhHHHHHhhhhhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004244          584 RTMEAKKLLLKLFYDESVPSDVIYNTLIENCTNIEFQNVAALLKGFCMKGLMNEADRVFELMLQRNHMPNEAVYDIIIHG  663 (766)
Q Consensus       584 ~~~~A~~l~~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  663 (766)
                      ++++|+++|++..+.|.. .  ....+.                 .....+.++|++.+++..+.|   ++.....|...
T Consensus         8 d~~~A~~~~~kaa~~g~~-~--a~~~l~-----------------~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~   64 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM-F--GCLSLV-----------------SNSQINKQKLFQYLSKACELN---SGNGCRFLGDF   64 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT-T--HHHHHH-----------------TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh-h--hhhhhc-----------------cccccCHHHHHHHHhhhhccc---chhhhhhHHHh
Confidence            567888888888776532 1  122222                 223568899999999999876   55666667776


Q ss_pred             Hhc----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcC
Q 004244          664 HSK----VGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHT----AGMNEELSQVIENILRSC  719 (766)
Q Consensus       664 ~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  719 (766)
                      |..    ..+.++|+++|++..+.|   ++.....|...+..    ..+.++|..+++++.+.+
T Consensus        65 y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          65 YENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             hhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            654    456899999999998876   33445556666654    468999999999999987

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.88  E-value=0.12  Score=40.38  Aligned_cols=86  Identities=6%  Similarity=0.029  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCC---hHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChHHHHH
Q 004244          636 NEADRVFELMLQR-NHMPNEAVYDIIIHGHSKVGN---VQKAYDLYKKMVRSGFVPHT-VTIIVLVKALHTAGMNEELSQ  710 (766)
Q Consensus       636 ~~A~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~  710 (766)
                      ++-..+-++.... +..|+..+-...++++.++.+   .++|+.+++++.+.+ +.+. ..+..|+-++.+.|++++|..
T Consensus        16 ~el~~~~~q~~~e~~~~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~   94 (124)
T d2pqrb1          16 QQLEILRQQVVSEGGPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKR   94 (124)
T ss_dssp             HHHHHHHHHHHHTTGGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHH
Confidence            3444444444444 234577777778888887654   578999999988643 2233 677788889999999999999


Q ss_pred             HHHHHHHcCCCC
Q 004244          711 VIENILRSCRLS  722 (766)
Q Consensus       711 ~~~~~~~~~~~~  722 (766)
                      +++++++..|..
T Consensus        95 ~~~~~L~ieP~n  106 (124)
T d2pqrb1          95 YVDTLFEHERNN  106 (124)
T ss_dssp             HHHHHHHHCTTC
T ss_pred             HHHHHHccCCCc
Confidence            999999998433

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.65  E-value=0.22  Score=38.85  Aligned_cols=70  Identities=9%  Similarity=-0.021  Sum_probs=51.2

Q ss_pred             CCCHHHHHHHHHHHHhcCC---hHHHHHHHHHHHHcCCCChHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 004244          686 VPHTVTIIVLVKALHTAGM---NEELSQVIENILRSCRLSDAELAKVLVEINHKEGNMDAVLNVLTEMAKDGL  755 (766)
Q Consensus       686 ~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  755 (766)
                      .|...+-..+++++.++.+   .++|+.+++++.+.++...-..+..|+-+|.+.|++++|.+.++++.+..+
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP  104 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHER  104 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            3555666777788876644   467888888888776444456777788888888888888888888776543

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=94.56  E-value=0.71  Score=35.50  Aligned_cols=63  Identities=22%  Similarity=0.152  Sum_probs=32.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHCCC
Q 004244          502 YSSLIHGLCEQRRITEACELFQEMLSRGMSPDEFTYTTLINAYCTEGDIPQALRLHDEMIQKGF  565 (766)
Q Consensus       502 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~  565 (766)
                      ....++.+.++|+-++-.++++.+.+.+ ++++...-.+.++|-+.|...++-+++.+..++|.
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            3344445555555555555555554433 45555555555555555555555555555555543

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=94.30  E-value=0.82  Score=35.14  Aligned_cols=83  Identities=6%  Similarity=0.044  Sum_probs=54.3

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 004244          631 MKGLMNEADRVFELMLQRNHMPNEAVYDIIIHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQ  710 (766)
Q Consensus       631 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  710 (766)
                      .+++.......+-.+-     .+....+..++.+.++|+-+.-.++++.+.+.+ +|++.....++.+|.+.|...++.+
T Consensus        68 ~C~Nlk~vv~C~~~~n-----~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~ne  141 (161)
T d1wy6a1          68 KCQNLKSVVECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATT  141 (161)
T ss_dssp             GCSCTHHHHHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hhhcHHHHHHHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHH
Confidence            4555555555543322     234455666777777777777777777766543 6677777777777788888877777


Q ss_pred             HHHHHHHcC
Q 004244          711 VIENILRSC  719 (766)
Q Consensus       711 ~~~~~~~~~  719 (766)
                      ++.++-+.|
T Consensus       142 ll~~ACe~G  150 (161)
T d1wy6a1         142 LLIEACKKG  150 (161)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHHh
Confidence            777777766

>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=86.01  E-value=16  Score=35.41  Aligned_cols=52  Identities=10%  Similarity=-0.071  Sum_probs=29.6

Q ss_pred             HHHHhccCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 004244          661 IHGHSKVGNVQKAYDLYKKMVRSGFVPHTVTIIVLVKALHTAGMNEELSQVIENI  715 (766)
Q Consensus       661 ~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  715 (766)
                      +..+...|...+|...+..+...   .+......++....+.|.++.|+....++
T Consensus       388 a~~L~~~g~~~~A~~e~~~l~~~---~~~~~~~~la~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         388 VRELMYWNLDNTARSEWANLVKS---KSKTEQAQLARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTT---CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHcCCchHHHHHHHHHHhC---CCHHHHHHHHHHHHHCCChhHHHHHHHHH
Confidence            34455666666666666666532   23334445556666667777666655554