Citrus Sinensis ID: 004744

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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--
Protein Sequence
MPKIQRLPFQNFTLRVVKSRAAASLHTLINPNSGSTEASLNSNQEQVSSSGSVSDSLLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDDAF
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHHcccHHHHHHHHccccccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHcHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccHHHHHHHHHHccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHcHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHccccccccHHHHHHHHHHHccHcHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHccccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccc
Coil and Loop (DISEMBL)
mpkiqrlpfqnftLRVVKSRAAASLHtlinpnsgsteaslnsnqeqvsssgsvsdSLLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFIDFIalnfpnvkhssMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFvstyspcgsnslIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCemeqkgvypdtvtYNTLINAYCREGFLEEAFQLMNsmsgkglkpgvfTYNSLINGLCKKGRCDRAKEVLDEMLqmglspdtatYNTLLVESCRKENMSEAEEIFCEMsrrgvapdiVSFSTLIGIFSRNGQLDRALMYFREMksaglvpdnVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMlergvfpdfytfttlihghckdgnmnkaLNLFdimtqksikpdivtYNTLIDGFCKVGEMEKANKLWADMISrkispnyisYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKgycrsgdaskADEFLSKMVsegvdpdsisynTLINGFVREENMDKAFALVSKMenqglvpdviTYNVILTGfcrqgrmhdSELILWRMIEkglnpdrstyTTLINGHVSQNNLKEAFRFHDemlqrgfvpddaf
Flexible Loop (DISEMBL)
mpkiqrlpfqnFTLRVVKSRAAASLHTLINPNSGSTEASLNSNQEQVSSSGSVSDSLLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFvstyspcgsnsliFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLqmglspdtatYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVsegvdpdsisYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQrgfvpddaf
Low Complexity Region (SEG)
MPKIQRLPFQNFTLRVVKSRAAASLHTLINPNSGSTEASLnsnqeqvsssgsvsdsllveKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDDAF
Disordered region (IsUnstruct)
********FQNFTLRVVKSRA***********************************LLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDA*****FLSKMV**GVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEM***********
Disordered Region (DISOPRED)
*****RLPFQNFTLR*V***AA*****LIN**SGSTEASLNSNQEQ**S*GSVSDSLLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDDAF
Disordered Region (DISEMBL)
MPKIQRLPFQNFTLRVVKSRAAASLHTLINPNS*********************DSLLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDDAF
Disordered Region (DISPRO)
MPKIQRLPFQNFTLRVVKSRAAASLHTLINPNSGSTEASLNSNQEQVSSSGSVSDSLLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVP****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPKIQRLPFQNFTLRVVKSRAAASLHTLINPNSGSTEASLNSNQEQVSSSGSVSDSLLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDDAF
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	732	2.2.26 [Sep-21-2011]
Q9LFC5	729	Pentatricopeptide repeat-	yes	no	0.922	0.925	0.626	0.0
Q0WVK7	741	Pentatricopeptide repeat-	no	no	0.875	0.865	0.314	1e-105
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.887	0.870	0.309	2e-96
Q9FJE6	907	Putative pentatricopeptid	no	no	0.881	0.711	0.321	1e-94
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.713	0.843	0.334	2e-93
Q9LVQ5	1096	Pentatricopeptide repeat-	no	no	0.823	0.550	0.293	1e-91
Q9ZQF1	627	Pentatricopeptide repeat-	no	no	0.804	0.939	0.335	2e-89
Q9CA58	763	Putative pentatricopeptid	no	no	0.829	0.795	0.297	2e-89
Q9ASZ8	621	Pentatricopeptide repeat-	no	no	0.692	0.816	0.326	7e-89
Q76C99	791	Protein Rf1, mitochondria	N/A	no	0.814	0.753	0.289	2e-87

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

 Score =  914 bits (2361), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 425/678 (62%), Positives = 542/678 (79%), Gaps = 3/678 (0%)

Query: 57  LLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFIDFIALNFPNVKH 116
            LVEKI  +LKQGN N++R++  RLN + +VEVLYR R++L +GQRF+D +  +FPN KH
Sbjct: 53  FLVEKICFSLKQGN-NNVRNHLIRLNPLAVVEVLYRCRNDLTLGQRFVDQLGFHFPNFKH 111

Query: 117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLV 176
           +S+SLSAMIH LVR  R+SDAQ+ +LRM+R+SGVSRLEIV+S  ST+S CGSN  +FDL+
Sbjct: 112 TSLSLSAMIHILVRSGRLSDAQSCLLRMIRRSGVSRLEIVNSLDSTFSNCGSNDSVFDLL 171

Query: 177 IRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGI 236
           IRTYVQARKLRE  E F LLR+KG   SI+ACN+L+G LV+IGWV+LA  VY E+ RSG+
Sbjct: 172 IRTYVQARKLREAHEAFTLLRSKGFTVSIDACNALIGSLVRIGWVELAWGVYQEISRSGV 231

Query: 237 ELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQ 296
            +NVYTLNIMVNALCKD K++    FL ++++KGVYPD VTYNTLI+AY  +G +EEAF+
Sbjct: 232 GINVYTLNIMVNALCKDGKMEKVGTFLSQVQEKGVYPDIVTYNTLISAYSSKGLMEEAFE 291

Query: 297 LMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESC 356
           LMN+M GKG  PGV+TYN++INGLCK G+ +RAKEV  EML+ GLSPD+ TY +LL+E+C
Sbjct: 292 LMNAMPGKGFSPGVYTYNTVINGLCKHGKYERAKEVFAEMLRSGLSPDSTTYRSLLMEAC 351

Query: 357 RKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNV 416
           +K ++ E E++F +M  R V PD+V FS+++ +F+R+G LD+ALMYF  +K AGL+PDNV
Sbjct: 352 KKGDVVETEKVFSDMRSRDVVPDLVCFSSMMSLFTRSGNLDKALMYFNSVKEAGLIPDNV 411

Query: 417 LYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEM 476
           +YTI+I GYCR G +  A+ +R+EML++GC MDVVTYNTIL+GLC+ KML EAD LFNEM
Sbjct: 412 IYTILIQGYCRKGMISVAMNLRNEMLQQGCAMDVVTYNTILHGLCKRKMLGEADKLFNEM 471

Query: 477 LERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEM 536
            ER +FPD YT T LI GHCK GN+  A+ LF  M +K I+ D+VTYNTL+DGF KVG++
Sbjct: 472 TERALFPDSYTLTILIDGHCKLGNLQNAMELFQKMKEKRIRLDVVTYNTLLDGFGKVGDI 531

Query: 537 EKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTI 596
           + A ++WADM+S++I P  ISY IL+N  CS GH+ EAFR+W EM+ K IKPT++ CN++
Sbjct: 532 DTAKEIWADMVSKEILPTPISYSILVNALCSKGHLAEAFRVWDEMISKNIKPTVMICNSM 591

Query: 597 IKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQ-- 654
           IKGYCRSG+AS  + FL KM+SEG  PD ISYNTLI GFVREENM KAF LV KME +  
Sbjct: 592 IKGYCRSGNASDGESFLEKMISEGFVPDCISYNTLIYGFVREENMSKAFGLVKKMEEEQG 651

Query: 655 GLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEA 714
           GLVPDV TYN IL GFCRQ +M ++E++L +MIE+G+NPDRSTYT +ING VSQ+NL EA
Sbjct: 652 GLVPDVFTYNSILHGFCRQNQMKEAEVVLRKMIERGVNPDRSTYTCMINGFVSQDNLTEA 711

Query: 715 FRFHDEMLQRGFVPDDAF 732
           FR HDEMLQRGF PDD F
Sbjct: 712 FRIHDEMLQRGFSPDDKF 729

Arabidopsis thaliana (taxid: 3702)

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

 Score =  384 bits (985), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 208/661 (31%), Positives = 367/661 (55%), Gaps = 20/661 (3%)

Query: 51  GSVSDSLLVEKI--LLNLKQGNV--NSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFIDF 106
            SV D+  V +I  ++ L++      SL+ Y+ +  +  ++ VL +++ + ++   F D+
Sbjct: 51  ASVRDTEFVHQITNVIKLRRAEPLRRSLKPYECKFKTDHLIWVLMKIKCDYRLVLDFFDW 110

Query: 107 IALNFPNVKHSSM-SLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVS---- 161
                 + + S++ SL  +IH  V  + +  AQ+LI     +    +L + DSFV     
Sbjct: 111 AR----SRRDSNLESLCIVIHLAVASKDLKVAQSLISSFWERP---KLNVTDSFVQFFDL 163

Query: 162 ---TYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKI 218
              TY   GS+  +FD+  +  V    LRE   VF  + N G+  S+++CN  L  L K 
Sbjct: 164 LVYTYKDWGSDPRVFDVFFQVLVDFGLLREARRVFEKMLNYGLVLSVDSCNVYLTRLSKD 223

Query: 219 GW-VDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVT 277
            +    A  V+ E    G+  NV + NI+++ +C+  +I  A   L  ME KG  PD ++
Sbjct: 224 CYKTATAIIVFREFPEVGVCWNVASYNIVIHFVCQLGRIKEAHHLLLLMELKGYTPDVIS 283

Query: 278 YNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEML 337
           Y+T++N YCR G L++ ++L+  M  KGLKP  + Y S+I  LC+  +   A+E   EM+
Sbjct: 284 YSTVVNGYCRFGELDKVWKLIEVMKRKGLKPNSYIYGSIIGLLCRICKLAEAEEAFSEMI 343

Query: 338 QMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLD 397
           + G+ PDT  Y TL+   C++ ++  A + F EM  R + PD+++++ +I  F + G + 
Sbjct: 344 RQGILPDTVVYTTLIDGFCKRGDIRAASKFFYEMHSRDITPDVLTYTAIISGFCQIGDMV 403

Query: 398 RALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTIL 457
            A   F EM   GL PD+V +T +INGYC+ G + +A ++ + M++ GC  +VVTY T++
Sbjct: 404 EAGKLFHEMFCKGLEPDSVTFTELINGYCKAGHMKDAFRVHNHMIQAGCSPNVVTYTTLI 463

Query: 458 NGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIK 517
           +GLC+   L  A++L +EM + G+ P+ +T+ ++++G CK GN+ +A+ L        + 
Sbjct: 464 DGLCKEGDLDSANELLHEMWKIGLQPNIFTYNSIVNGLCKSGNIEEAVKLVGEFEAAGLN 523

Query: 518 PDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRL 577
            D VTY TL+D +CK GEM+KA ++  +M+ + + P  +++ +L+NG+C  G + +  +L
Sbjct: 524 ADTVTYTTLMDAYCKSGEMDKAQEILKEMLGKGLQPTIVTFNVLMNGFCLHGMLEDGEKL 583

Query: 578 WYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVR 637
              M+ KGI P   + N+++K YC   +   A      M S GV PD  +Y  L+ G  +
Sbjct: 584 LNWMLAKGIAPNATTFNSLVKQYCIRNNLKAATAIYKDMCSRGVGPDGKTYENLVKGHCK 643

Query: 638 EENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRST 697
             NM +A+ L  +M+ +G    V TY+V++ GF ++ +  ++  +  +M  +GL  D+  
Sbjct: 644 ARNMKEAWFLFQEMKGKGFSVSVSTYSVLIKGFLKRKKFLEAREVFDQMRREGLAADKEI 703

Query: 698 Y 698
           +
Sbjct: 704 F 704

Arabidopsis thaliana (taxid: 3702)

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

 Score =  354 bits (908), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 212/685 (30%), Positives = 364/685 (53%), Gaps = 35/685 (5%)

Query: 50  SGSVSDSLLVEKILLNLKQGNVNSLRSYQFR-LNSVIIVEVLYRLRDNLQVGQRFIDFIA 108
           + S SDSLL +K L  LK+        YQ   L++    E    L    Q  Q  I    
Sbjct: 16  ASSPSDSLLADKALTFLKR------HPYQLHHLSANFTPEAASNLLLKSQNDQALI-LKF 68

Query: 109 LNFPNVKHSSMSLSA---MIHFLVRGRRISDAQALILRMVRKSGVSRLE--IVDSFVSTY 163
           LN+ N  H   +L      +H L + +    AQ L   +  K+        +  S   TY
Sbjct: 69  LNWAN-PHQFFTLRCKCITLHILTKFKLYKTAQILAEDVAAKTLDDEYASLVFKSLQETY 127

Query: 164 SPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGW-VD 222
             C S S +FDLV+++Y +   + +   +  L +  G    + + N++L   ++    + 
Sbjct: 128 DLCYSTSSVFDLVVKSYSRLSLIDKALSIVHLAQAHGFMPGVLSYNAVLDATIRSKRNIS 187

Query: 223 LAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLI 282
            A  V+ E++ S +  NV+T NI++   C    ID A     +ME KG  P+ VTYNTLI
Sbjct: 188 FAENVFKEMLESQVSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLI 247

Query: 283 NAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLS 342
           + YC+   +++ F+L+ SM+ KGL+P + +YN +INGLC++GR      VL EM + G S
Sbjct: 248 DGYCKLRKIDDGFKLLRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNRRGYS 307

Query: 343 PDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMY 402
            D  TYNTL+   C++ N  +A  +  EM R G+ P ++++++LI    + G ++RA+ +
Sbjct: 308 LDEVTYNTLIKGYCKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEF 367

Query: 403 FREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCR 462
             +M+  GL P+   YT +++G+ + G++ EA ++  EM + G    VVTYN ++NG C 
Sbjct: 368 LDQMRVRGLCPNERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCV 427

Query: 463 AKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVT 522
              + +A  +  +M E+G+ PD  +++T++ G C+  ++++AL +   M +K IKPD +T
Sbjct: 428 TGKMEDAIAVLEDMKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTIT 487

Query: 523 YNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMV 582
           Y++LI GFC+    ++A  L+ +M+   + P+  +Y  LIN YC  G + +A +L  EMV
Sbjct: 488 YSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEKALQLHNEMV 547

Query: 583 GKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMD 642
            KG+ P +V+ + +I G  +     +A   L K+  E   P  ++Y+TLI      EN  
Sbjct: 548 EKGVLPDVVTYSVLINGLNKQSRTREAKRLLLKLFYEESVPSDVTYHTLI------EN-- 599

Query: 643 KAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLI 702
                 S +E + +V        ++ GFC +G M +++ +   M+ K   PD + Y  +I
Sbjct: 600 -----CSNIEFKSVVS-------LIKGFCMKGMMTEADQVFESMLGKNHKPDGTAYNIMI 647

Query: 703 NGHVSQNNLKEAFRFHDEMLQRGFV 727
           +GH    ++++A+  + EM++ GF+
Sbjct: 648 HGHCRAGDIRKAYTLYKEMVKSGFL 672

Arabidopsis thaliana (taxid: 3702)

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

 Score =  348 bits (892), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 211/657 (32%), Positives = 358/657 (54%), Gaps = 12/657 (1%)

Query: 80  RLNSVIIVEVLYRLRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQA 139
           RL +V + E+L    D+ ++G RF +F+ L+     HS+ S   +IH LV+      A +
Sbjct: 67  RLKTVHVEEILIGTIDDPKLGLRFFNFLGLH-RGFDHSTASFCILIHALVKANLFWPASS 125

Query: 140 LILRMVRKSGVSRLEIVDSFVSTYSPCG-SNSLIFDLVIRTYVQARKLREGSEVFRLLRN 198
           L+  ++ ++     ++ +   S Y  C  S+S  FDL+I+ YV++R++ +G  VF+++  
Sbjct: 126 LLQTLLLRALKPS-DVFNVLFSCYEKCKLSSSSSFDLLIQHYVRSRRVLDGVLVFKMMIT 184

Query: 199 K-GICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKID 257
           K  +   +   ++LL GLVK     LA E++ ++V  GI  +VY    ++ +LC+   + 
Sbjct: 185 KVSLLPEVRTLSALLHGLVKFRHFGLAMELFNDMVSVGIRPDVYIYTGVIRSLCELKDLS 244

Query: 258 SAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLI 317
            AK  +  ME  G   + V YN LI+  C++  + EA  +   ++GK LKP V TY +L+
Sbjct: 245 RAKEMIAHMEATGCDVNIVPYNVLIDGLCKKQKVWEAVGIKKDLAGKDLKPDVVTYCTLV 304

Query: 318 NGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKE-NMSEAEEIFCEMSRRGV 376
            GLCK    +   E++DEML +  SP  A  ++L VE  RK   + EA  +   +   GV
Sbjct: 305 YGLCKVQEFEIGLEMMDEMLCLRFSPSEAAVSSL-VEGLRKRGKIEEALNLVKRVVDFGV 363

Query: 377 APDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALK 436
           +P++  ++ LI    +  +   A + F  M   GL P++V Y+I+I+ +CR G +  AL 
Sbjct: 364 SPNLFVYNALIDSLCKGRKFHEAELLFDRMGKIGLRPNDVTYSILIDMFCRRGKLDTALS 423

Query: 437 MRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHC 496
              EM++ G  + V  YN+++NG C+   ++ A+    EM+ + + P   T+T+L+ G+C
Sbjct: 424 FLGEMVDTGLKLSVYPYNSLINGHCKFGDISAAEGFMAEMINKKLEPTVVTYTSLMGGYC 483

Query: 497 KDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYI 556
             G +NKAL L+  MT K I P I T+ TL+ G  + G +  A KL+ +M    + PN +
Sbjct: 484 SKGKINKALRLYHEMTGKGIAPSIYTFTTLLSGLFRAGLIRDAVKLFNEMAEWNVKPNRV 543

Query: 557 SYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKM 616
           +Y ++I GYC  G +++AF    EM  KGI P   S   +I G C +G AS+A  F+  +
Sbjct: 544 TYNVMIEGYCEEGDMSKAFEFLKEMTEKGIVPDTYSYRPLIHGLCLTGQASEAKVFVDGL 603

Query: 617 VSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRM 676
                + + I Y  L++GF RE  +++A ++  +M  +G+  D++ Y V++ G  +    
Sbjct: 604 HKGNCELNEICYTGLLHGFCREGKLEEALSVCQEMVQRGVDLDLVCYGVLIDGSLKH--- 660

Query: 677 HDSEL---ILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDD 730
            D +L   +L  M ++GL PD   YT++I+      + KEAF   D M+  G VP++
Sbjct: 661 KDRKLFFGLLKEMHDRGLKPDDVIYTSMIDAKSKTGDFKEAFGIWDLMINEGCVPNE 717

Arabidopsis thaliana (taxid: 3702)

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

 Score =  343 bits (880), Expect = 2e-93,   Method: Compositional matrix adjust.
 Identities = 175/523 (33%), Positives = 295/523 (56%)

Query: 209 NSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQ 268
           N L   + +    DL       +  +GIE ++YT+ IM+N  C+  K+  A   L    +
Sbjct: 74  NRLCSAVARTKQYDLVLGFCKGMELNGIEHDMYTMTIMINCYCRKKKLLFAFSVLGRAWK 133

Query: 269 KGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDR 328
            G  PDT+T++TL+N +C EG + EA  L++ M     +P + T ++LINGLC KGR   
Sbjct: 134 LGYEPDTITFSTLVNGFCLEGRVSEAVALVDRMVEMKQRPDLVTVSTLINGLCLKGRVSE 193

Query: 329 AKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIG 388
           A  ++D M++ G  PD  TY  +L   C+  N + A ++F +M  R +   +V +S +I 
Sbjct: 194 ALVLIDRMVEYGFQPDEVTYGPVLNRLCKSGNSALALDLFRKMEERNIKASVVQYSIVID 253

Query: 389 IFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVM 448
              ++G  D AL  F EM+  G+  D V Y+ +I G C +G   +  KM  EM+ +  + 
Sbjct: 254 SLCKDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIP 313

Query: 449 DVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLF 508
           DVVT++ +++   +   L EA +L+NEM+ RG+ PD  T+ +LI G CK+  +++A  +F
Sbjct: 314 DVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMF 373

Query: 509 DIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSM 568
           D+M  K  +PDIVTY+ LI+ +CK   ++   +L+ ++ S+ + PN I+Y  L+ G+C  
Sbjct: 374 DLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQS 433

Query: 569 GHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISY 628
           G +  A  L+ EMV +G+ P++V+   ++ G C +G+ +KA E   KM    +      Y
Sbjct: 434 GKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIY 493

Query: 629 NTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIE 688
           N +I+G      +D A++L   + ++G+ PDV+TYNV++ G C++G + +++++  +M E
Sbjct: 494 NIIIHGMCNASKVDDAWSLFCSLSDKGVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKE 553

Query: 689 KGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDDA 731
            G  PD  TY  LI  H+  + L  +    +EM   GF  D +
Sbjct: 554 DGCTPDDFTYNILIRAHLGGSGLISSVELIEEMKVCGFSADSS 596

Arabidopsis thaliana (taxid: 3702)

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

 Score =  338 bits (866), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 188/640 (29%), Positives = 330/640 (51%), Gaps = 37/640 (5%)

Query: 126 HFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARK 185
           H LVR R    A+ ++  +   SG S   +  + ++TY  C SN  ++D++IR Y++   
Sbjct: 80  HILVRARMYDPARHILKELSLMSGKSSF-VFGALMTTYRLCNSNPSVYDILIRVYLREGM 138

Query: 186 LREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNI 245
           +++  E+FRL+   G   S+  CN++LG +VK G          E+++  I  +V T NI
Sbjct: 139 IQDSLEIFRLMGLYGFNPSVYTCNAILGSVVKSGEDVSVWSFLKEMLKRKICPDVATFNI 198

Query: 246 MVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKG 305
           ++N LC +   + +   + +ME+ G  P  VTYNT+++ YC++G  + A +L++ M  KG
Sbjct: 199 LINVLCAEGSFEKSSYLMQKMEKSGYAPTIVTYNTVLHWYCKKGRFKAAIELLDHMKSKG 258

Query: 306 -----------------------------------LKPGVFTYNSLINGLCKKGRCDRAK 330
                                              + P   TYN+LING   +G+   A 
Sbjct: 259 VDADVCTYNMLIHDLCRSNRIAKGYLLLRDMRKRMIHPNEVTYNTLINGFSNEGKVLIAS 318

Query: 331 EVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIF 390
           ++L+EML  GLSP+  T+N L+     + N  EA ++F  M  +G+ P  VS+  L+   
Sbjct: 319 QLLNEMLSFGLSPNHVTFNALIDGHISEGNFKEALKMFYMMEAKGLTPSEVSYGVLLDGL 378

Query: 391 SRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDV 450
            +N + D A  ++  MK  G+    + YT +I+G C+NGF+ EA+ + +EM + G   D+
Sbjct: 379 CKNAEFDLARGFYMRMKRNGVCVGRITYTGMIDGLCKNGFLDEAVVLLNEMSKDGIDPDI 438

Query: 451 VTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDI 510
           VTY+ ++NG C+      A ++   +   G+ P+   ++TLI+  C+ G + +A+ +++ 
Sbjct: 439 VTYSALINGFCKVGRFKTAKEIVCRIYRVGLSPNGIIYSTLIYNCCRMGCLKEAIRIYEA 498

Query: 511 MTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGH 570
           M  +    D  T+N L+   CK G++ +A +    M S  I PN +S+  LINGY + G 
Sbjct: 499 MILEGHTRDHFTFNVLVTSLCKAGKVAEAEEFMRCMTSDGILPNTVSFDCLINGYGNSGE 558

Query: 571 VTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNT 630
             +AF ++ EM   G  PT  +  +++KG C+ G   +A++FL  + +     D++ YNT
Sbjct: 559 GLKAFSVFDEMTKVGHHPTFFTYGSLLKGLCKGGHLREAEKFLKSLHAVPAAVDTVMYNT 618

Query: 631 LINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKG 690
           L+    +  N+ KA +L  +M  + ++PD  TY  +++G CR+G+   + L       +G
Sbjct: 619 LLTAMCKSGNLAKAVSLFGEMVQRSILPDSYTYTSLISGLCRKGKTVIAILFAKEAEARG 678

Query: 691 -LNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPD 729
            + P++  YT  ++G       K    F ++M   G  PD
Sbjct: 679 NVLPNKVMYTCFVDGMFKAGQWKAGIYFREQMDNLGHTPD 718

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZQF1|PP152_ARATH Pentatricopeptide repeat-containing protein At2g15630, mitochondrial OS=Arabidopsis thaliana GN=At2g15630 PE=3 SV=1

 Score =  331 bits (848), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 203/605 (33%), Positives = 330/605 (54%), Gaps = 16/605 (2%)

Query: 35  STEASLNSNQEQVSSSGSVSDSLLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLR 94
           S  A+  S+  Q S+  SV   +  E +L +++    + +     +L   ++   L  L 
Sbjct: 23  SPAAARLSSLAQTSTPESVLPPITSEILLESIRSSQWHIVEHVADKLTPSLVSTTLLSLV 82

Query: 95  DNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLE 154
               +   F++ I L   + +   +++ A+I  L   + ++    L+  +V     S   
Sbjct: 83  KTPNLAFNFVNHIDLYRLDFQTQCLAI-AVISKLSSPKPVTQ---LLKEVVTSRKNSIRN 138

Query: 155 IVDSFVSTYSPCGSNS-LIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLG 213
           + D  V  +    + S ++FDL++R   Q R + E  E F L++ KG       CN +L 
Sbjct: 139 LFDELVLAHDRLETKSTILFDLLVRCCCQLRMVDEAIECFYLMKEKGFYPKTETCNHILT 198

Query: 214 GLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYP 273
            L ++  ++ A   YA++ R  I+ NVYT NIM+N LCK+ K+  AK FL  ME  G+ P
Sbjct: 199 LLSRLNRIENAWVFYADMYRMEIKSNVYTFNIMINVLCKEGKLKKAKGFLGIMEVFGIKP 258

Query: 274 DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVL 333
             VTYNTL+  +   G +E A  +++ M  KG +P + TYN +++ +C +GR   A EVL
Sbjct: 259 TIVTYNTLVQGFSLRGRIEGARLIISEMKSKGFQPDMQTYNPILSWMCNEGR---ASEVL 315

Query: 334 DEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFC---EMSRRGVAPDIVSFSTLI-GI 389
            EM ++GL PD+ +YN +L+  C   N  + E  F    EM ++G+ P   +++TLI G+
Sbjct: 316 REMKEIGLVPDSVSYN-ILIRGC--SNNGDLEMAFAYRDEMVKQGMVPTFYTYNTLIHGL 372

Query: 390 FSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMD 449
           F  N +++ A +  RE++  G+V D+V Y I+INGYC++G   +A  + DEM+  G    
Sbjct: 373 FMEN-KIEAAEILIREIREKGIVLDSVTYNILINGYCQHGDAKKAFALHDEMMTDGIQPT 431

Query: 450 VVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFD 509
             TY +++  LCR     EAD+LF +++ +G+ PD     TL+ GHC  GNM++A +L  
Sbjct: 432 QFTYTSLIYVLCRKNKTREADELFEKVVGKGMKPDLVMMNTLMDGHCAIGNMDRAFSLLK 491

Query: 510 IMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMG 569
            M   SI PD VTYN L+ G C  G+ E+A +L  +M  R I P++ISY  LI+GY   G
Sbjct: 492 EMDMMSINPDDVTYNCLMRGLCGEGKFEEARELMGEMKRRGIKPDHISYNTLISGYSKKG 551

Query: 570 HVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYN 629
               AF +  EM+  G  PTL++ N ++KG  ++ +   A+E L +M SEG+ P+  S+ 
Sbjct: 552 DTKHAFMVRDEMLSLGFNPTLLTYNALLKGLSKNQEGELAEELLREMKSEGIVPNDSSFC 611

Query: 630 TLING 634
           ++I  
Sbjct: 612 SVIEA 616

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CA58|PP120_ARATH Putative pentatricopeptide repeat-containing protein At1g74580 OS=Arabidopsis thaliana GN=At1g74580 PE=3 SV=1

 Score =  330 bits (847), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 186/625 (29%), Positives = 323/625 (51%), Gaps = 18/625 (2%)

Query: 106 FIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSP 165
           F  ++F + + +  S +A++  LV       A  + +RM R  G++           YS 
Sbjct: 99  FERMDFYDCEPTVFSYNAIMSVLVDSGYFDQAHKVYMRM-RDRGITP--------DVYS- 148

Query: 166 CGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAR 225
                  F + ++++ +  +      +   + ++G   ++ A  +++GG  +  +     
Sbjct: 149 -------FTIRMKSFCKTSRPHAALRLLNNMSSQGCEMNVVAYCTVVGGFYEENFKAEGY 201

Query: 226 EVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAY 285
           E++ +++ SG+ L + T N ++  LCK   +   +  L ++ ++GV P+  TYN  I   
Sbjct: 202 ELFGKMLASGVSLCLSTFNKLLRVLCKKGDVKECEKLLDKVIKRGVLPNLFTYNLFIQGL 261

Query: 286 CREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDT 345
           C+ G L+ A +++  +  +G KP V TYN+LI GLCK  +   A+  L +M+  GL PD+
Sbjct: 262 CQRGELDGAVRMVGCLIEQGPKPDVITYNNLIYGLCKNSKFQEAEVYLGKMVNEGLEPDS 321

Query: 346 ATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFRE 405
            TYNTL+   C+   +  AE I  +    G  PD  ++ +LI      G+ +RAL  F E
Sbjct: 322 YTYNTLIAGYCKGGMVQLAERIVGDAVFNGFVPDQFTYRSLIDGLCHEGETNRALALFNE 381

Query: 406 MKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKM 465
               G+ P+ +LY  +I G    G +LEA ++ +EM EKG + +V T+N ++NGLC+   
Sbjct: 382 ALGKGIKPNVILYNTLIKGLSNQGMILEAAQLANEMSEKGLIPEVQTFNILVNGLCKMGC 441

Query: 466 LTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNT 525
           +++AD L   M+ +G FPD +TF  LIHG+     M  AL + D+M    + PD+ TYN+
Sbjct: 442 VSDADGLVKVMISKGYFPDIFTFNILIHGYSTQLKMENALEILDVMLDNGVDPDVYTYNS 501

Query: 526 LIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKG 585
           L++G CK  + E   + +  M+ +  +PN  ++ IL+   C    + EA  L  EM  K 
Sbjct: 502 LLNGLCKTSKFEDVMETYKTMVEKGCAPNLFTFNILLESLCRYRKLDEALGLLEEMKNKS 561

Query: 586 IKPTLVSCNTIIKGYCRSGDASKADEFLSKM-VSEGVDPDSISYNTLINGFVREENMDKA 644
           + P  V+  T+I G+C++GD   A     KM  +  V   + +YN +I+ F  + N+  A
Sbjct: 562 VNPDAVTFGTLIDGFCKNGDLDGAYTLFRKMEEAYKVSSSTPTYNIIIHAFTEKLNVTMA 621

Query: 645 FALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLING 704
             L  +M ++ L PD  TY +++ GFC+ G ++     L  M+E G  P  +T   +IN 
Sbjct: 622 EKLFQEMVDRCLGPDGYTYRLMVDGFCKTGNVNLGYKFLLEMMENGFIPSLTTLGRVINC 681

Query: 705 HVSQNNLKEAFRFHDEMLQRGFVPD 729
              ++ + EA      M+Q+G VP+
Sbjct: 682 LCVEDRVYEAAGIIHRMVQKGLVPE 706

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ASZ8|PPR37_ARATH Pentatricopeptide repeat-containing protein At1g12620 OS=Arabidopsis thaliana GN=At1g12620 PE=2 SV=1

 Score =  328 bits (842), Expect = 7e-89,   Method: Compositional matrix adjust.
 Identities = 166/508 (32%), Positives = 290/508 (57%)

Query: 222 DLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTL 281
           DL  ++  ++   GI  N+YTL+IM+N  C+  K+  A   + ++ + G  PDTVT++TL
Sbjct: 89  DLVLDLCKQMELKGIAHNLYTLSIMINCCCRCRKLSLAFSAMGKIIKLGYEPDTVTFSTL 148

Query: 282 INAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGL 341
           IN  C EG + EA +L++ M   G KP + T N+L+NGLC  G+   A  ++D M++ G 
Sbjct: 149 INGLCLEGRVSEALELVDRMVEMGHKPTLITLNALVNGLCLNGKVSDAVLLIDRMVETGF 208

Query: 342 SPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALM 401
            P+  TY  +L   C+    + A E+  +M  R +  D V +S +I    ++G LD A  
Sbjct: 209 QPNEVTYGPVLKVMCKSGQTALAMELLRKMEERKIKLDAVKYSIIIDGLCKDGSLDNAFN 268

Query: 402 YFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLC 461
            F EM+  G   D ++YT +I G+C  G   +  K+  +M+++    DVV ++ +++   
Sbjct: 269 LFNEMEIKGFKADIIIYTTLIRGFCYAGRWDDGAKLLRDMIKRKITPDVVAFSALIDCFV 328

Query: 462 RAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIV 521
           +   L EA++L  EM++RG+ PD  T+T+LI G CK+  ++KA ++ D+M  K   P+I 
Sbjct: 329 KEGKLREAEELHKEMIQRGISPDTVTYTSLIDGFCKENQLDKANHMLDLMVSKGCGPNIR 388

Query: 522 TYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEM 581
           T+N LI+G+CK   ++   +L+  M  R +  + ++Y  LI G+C +G +  A  L+ EM
Sbjct: 389 TFNILINGYCKANLIDDGLELFRKMSLRGVVADTVTYNTLIQGFCELGKLEVAKELFQEM 448

Query: 582 VGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENM 641
           V + ++P +VS   ++ G C +G+  KA E   K+    ++ D   YN +I+G      +
Sbjct: 449 VSRRVRPDIVSYKILLDGLCDNGEPEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKV 508

Query: 642 DKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTL 701
           D A+ L   +  +G+ PDV TYN+++ G C++G + +++L+  +M E G +P+  TY  L
Sbjct: 509 DDAWDLFCSLPLKGVKPDVKTYNIMIGGLCKKGSLSEADLLFRKMEEDGHSPNGCTYNIL 568

Query: 702 INGHVSQNNLKEAFRFHDEMLQRGFVPD 729
           I  H+ + +  ++ +  +E+ + GF  D
Sbjct: 569 IRAHLGEGDATKSAKLIEEIKRCGFSVD 596

Arabidopsis thaliana (taxid: 3702)

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

 Score =  324 bits (830), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 178/615 (28%), Positives = 325/615 (52%), Gaps = 19/615 (3%)

Query: 118 SMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVI 177
           +++ + ++  L   +R SDA  ++LR + + G                C  N   +++++
Sbjct: 122 AIAFTPLLKGLCADKRTSDAMDIVLRRMTELG----------------CIPNVFSYNILL 165

Query: 178 RTYVQARKLREGSEVFRLL---RNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRS 234
           +      + +E  E+  ++   R  G    + +  +++ G  K G  D A   Y E++  
Sbjct: 166 KGLCDENRSQEALELLHMMADDRGGGSPPDVVSYTTVINGFFKEGDSDKAYSTYHEMLDR 225

Query: 235 GIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEA 294
           GI  +V T N ++ ALCK   +D A   L  M + GV PD +TYN++++ YC  G  +EA
Sbjct: 226 GILPDVVTYNSIIAALCKAQAMDKAMEVLNTMVKNGVMPDCMTYNSILHGYCSSGQPKEA 285

Query: 295 FQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVE 354
              +  M   G++P V TY+ L++ LCK GRC  A+++ D M + GL P+  TY TLL  
Sbjct: 286 IGFLKKMRSDGVEPDVVTYSLLMDYLCKNGRCMEARKIFDSMTKRGLKPEITTYGTLLQG 345

Query: 355 SCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPD 414
              K  + E   +   M R G+ PD   FS LI  +++ G++D+A++ F +M+  GL P+
Sbjct: 346 YATKGALVEMHGLLDLMVRNGIHPDHYVFSILICAYAKQGKVDQAMLVFSKMRQQGLNPN 405

Query: 415 NVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFN 474
            V Y  +I   C++G V +A+   ++M+++G     + YN++++GLC       A++L  
Sbjct: 406 AVTYGAVIGILCKSGRVEDAMLYFEQMIDEGLSPGNIVYNSLIHGLCTCNKWERAEELIL 465

Query: 475 EMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVG 534
           EML+RG+  +   F ++I  HCK+G + ++  LF++M +  +KP+++TYNTLI+G+C  G
Sbjct: 466 EMLDRGICLNTIFFNSIIDSHCKEGRVIESEKLFELMVRIGVKPNVITYNTLINGYCLAG 525

Query: 535 EMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCN 594
           +M++A KL + M+S  + PN ++Y  LINGYC +  + +A  L+ EM   G+ P +++ N
Sbjct: 526 KMDEAMKLLSGMVSVGLKPNTVTYSTLINGYCKISRMEDALVLFKEMESSGVSPDIITYN 585

Query: 595 TIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQ 654
            I++G  ++   + A E   ++   G   +  +YN +++G  + +  D A  +   +   
Sbjct: 586 IILQGLFQTRRTAAAKELYVRITESGTQIELSTYNIILHGLCKNKLTDDALQMFQNLCLM 645

Query: 655 GLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEA 714
            L  +  T+N+++    + GR  +++ +       GL P+  TY  +    + Q  L+E 
Sbjct: 646 DLKLEARTFNIMIDALLKVGRNDEAKDLFVAFSSNGLVPNYWTYRLMAENIIGQGLLEEL 705

Query: 715 FRFHDEMLQRGFVPD 729
            +    M   G   D
Sbjct: 706 DQLFLSMEDNGCTVD 720

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

Oryza sativa subsp. indica (taxid: 39946)

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	732
359479250	746	PREDICTED: pentatricopeptide repeat-cont	0.993	0.974	0.698	0.0
147840312	850	hypothetical protein VITISV_001389 [Viti	0.993	0.855	0.697	0.0
224059754	610	predicted protein [Populus trichocarpa]	0.831	0.998	0.740	0.0
255572227	677	pentatricopeptide repeat-containing prot	0.825	0.892	0.745	0.0
449442579	749	PREDICTED: pentatricopeptide repeat-cont	0.995	0.973	0.617	0.0
296083846	589	unnamed protein product [Vitis vinifera]	0.804	1.0	0.740	0.0
449476143	749	PREDICTED: LOW QUALITY PROTEIN: pentatri	0.995	0.973	0.617	0.0
297806115	719	pentatricopeptide repeat-containing prot	0.922	0.938	0.629	0.0
357494043	716	Pentatricopeptide repeat-containing prot	0.920	0.941	0.630	0.0
15240891	729	pentatricopeptide repeat-containing prot	0.922	0.925	0.626	0.0

>gi|359479250|ref|XP_002275790.2| PREDICTED: pentatricopeptide repeat-containing protein At5g01110-like [Vitis vinifera]

 Score = 1079 bits (2790), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 520/744 (69%), Positives = 626/744 (84%), Gaps = 17/744 (2%)

Query: 5   QRLPFQNFTLRVVKSRAAASLHTLI------NPNSG---------STEASLN-SNQEQVS 48
           QR  FQ  TLR + +R  +SLHT        NPNS           T  +LN S+ E  +
Sbjct: 4   QRSFFQKSTLRTL-TRKTSSLHTKTLLSSAPNPNSSYGIPALQTLETSTTLNPSSVEDPN 62

Query: 49  SSGSVSDSLLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFIDFIA 108
            S S+SDS L EK+LLNLKQG +NSLR+  FRL+SV++V+VLY+ R+NLQ+GQRFID I 
Sbjct: 63  QSTSLSDSFLTEKVLLNLKQGKLNSLRNLLFRLDSVVVVDVLYKCRENLQLGQRFIDSIT 122

Query: 109 LNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGS 168
            N PN KHS  S SAMIH LVR RR+ DAQA+ILRMVRKSGVSR+EIV+S V TY  CGS
Sbjct: 123 SNCPNFKHSLQSFSAMIHILVRSRRLPDAQAVILRMVRKSGVSRVEIVESLVLTYGNCGS 182

Query: 169 NSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVY 228
           N L+FDL++RTYVQARKLREG E FR+L++KG+C SINACNSLLGGLVK+GWVDLA E+Y
Sbjct: 183 NPLVFDLLVRTYVQARKLREGCEAFRVLKSKGLCVSINACNSLLGGLVKVGWVDLAWEIY 242

Query: 229 AEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCRE 288
            EVVRSG+++NVYTLNIM+NALCK+ KI++ K FL +ME+KGV+PD VTYNTLINAYCR+
Sbjct: 243 QEVVRSGVQVNVYTLNIMINALCKNQKIENTKSFLSDMEEKGVFPDVVTYNTLINAYCRQ 302

Query: 289 GFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATY 348
           G LEEAF+LM+SMSGKGLKP VFTYN++INGLCK G+  RAK VLDEML++G+SPDTATY
Sbjct: 303 GLLEEAFELMDSMSGKGLKPCVFTYNAIINGLCKTGKYLRAKGVLDEMLKIGMSPDTATY 362

Query: 349 NTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKS 408
           N LLVE CR +NM +AE IF EM  +GV PD+VSFS LIG+ S+NG LD+AL YFR+MK+
Sbjct: 363 NILLVECCRNDNMMDAERIFDEMPSQGVVPDLVSFSALIGLLSKNGCLDQALKYFRDMKN 422

Query: 409 AGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTE 468
           AGL PDNV+YTI+I G+CRNG + EALK+RDEMLE+GCV+DVVTYNTILNGLC+ KML+E
Sbjct: 423 AGLAPDNVIYTILIGGFCRNGVMSEALKVRDEMLEQGCVLDVVTYNTILNGLCKEKMLSE 482

Query: 469 ADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLID 528
           AD+LF EM ERGVFPDFYTFTTLI+G+ KDGNMNKA+ LF++M Q+++KPD+VTYNTLID
Sbjct: 483 ADELFTEMTERGVFPDFYTFTTLINGYSKDGNMNKAVTLFEMMIQRNLKPDVVTYNTLID 542

Query: 529 GFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKP 588
           GFCK  EMEK N+LW DMISR+I PN+ISYGILINGYC+MG V+EAFRLW EMV KG + 
Sbjct: 543 GFCKGSEMEKVNELWNDMISRRIYPNHISYGILINGYCNMGCVSEAFRLWDEMVEKGFEA 602

Query: 589 TLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALV 648
           T+++CNTI+KGYCR+G+A KADEFLS M+ +G+ PD I+YNTLINGF++EENMD+AFALV
Sbjct: 603 TIITCNTIVKGYCRAGNAVKADEFLSNMLLKGIVPDGITYNTLINGFIKEENMDRAFALV 662

Query: 649 SKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQ 708
           +KMEN GL+PDVITYNVIL GF RQGRM ++ELI+ +MIE+G+NPDRSTYT+LINGHV+Q
Sbjct: 663 NKMENSGLLPDVITYNVILNGFSRQGRMQEAELIMLKMIERGVNPDRSTYTSLINGHVTQ 722

Query: 709 NNLKEAFRFHDEMLQRGFVPDDAF 732
           NNLKEAFR HDEMLQRGFVPDD F
Sbjct: 723 NNLKEAFRVHDEMLQRGFVPDDKF 746

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147840312|emb|CAN63985.1| hypothetical protein VITISV_001389 [Vitis vinifera]

 Score = 1074 bits (2777), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 519/744 (69%), Positives = 625/744 (84%), Gaps = 17/744 (2%)

Query: 5   QRLPFQNFTLRVVKSRAAASLHTLI------NPNSG---------STEASLN-SNQEQVS 48
           QR  FQ  TLR + +R  +SLHT        NPNS           T  +LN S+ E  +
Sbjct: 108 QRSFFQKSTLRTL-TRKTSSLHTKTLLSSAPNPNSSYGIPALQTLETSTTLNPSSVEDPN 166

Query: 49  SSGSVSDSLLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFIDFIA 108
            S S+SDS L EK+LLNLKQG +NSLR+  FRL+SV++V+VLY+ R+NLQ+GQRFID I 
Sbjct: 167 QSTSLSDSFLTEKVLLNLKQGKLNSLRNLLFRLDSVVVVDVLYKCRENLQLGQRFIDSIT 226

Query: 109 LNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGS 168
            N PN KHS  S SAMIH LVR RR+ DAQA+ILRMVRKSGVSR+EIV+S V TY  CGS
Sbjct: 227 SNCPNFKHSLQSFSAMIHILVRSRRLPDAQAVILRMVRKSGVSRVEIVESLVLTYGNCGS 286

Query: 169 NSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVY 228
           N L+FDL++RTYVQARKLREG E FR+L++KG+C SINACNSLLGGLVK+GWVDLA E+Y
Sbjct: 287 NPLVFDLLVRTYVQARKLREGCEAFRVLKSKGLCVSINACNSLLGGLVKVGWVDLAWEIY 346

Query: 229 AEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCRE 288
            EVVRSG+++NVYTLNIM+NALCK+ KI++ K FL +ME+KGV+PD VTYNTLINAYCR+
Sbjct: 347 QEVVRSGVQVNVYTLNIMINALCKNQKIENTKSFLSDMEEKGVFPDVVTYNTLINAYCRQ 406

Query: 289 GFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATY 348
           G LEEAF+LM+SMSGKGLKP VFTYN++INGLCK G+  RAK VLDEML++G+SPDTATY
Sbjct: 407 GLLEEAFELMDSMSGKGLKPCVFTYNAIINGLCKTGKYLRAKGVLDEMLKIGMSPDTATY 466

Query: 349 NTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKS 408
           N LLVE CR +NM +AE IF EM  +GV PD+VSFS LIG+ S+NG LD+AL YFR+MK+
Sbjct: 467 NILLVECCRNDNMMDAERIFDEMPSQGVVPDLVSFSALIGLLSKNGCLDQALKYFRDMKN 526

Query: 409 AGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTE 468
           AGL PDNV+YTI+I G+CRNG + EALK+RDEMLE+GC +DVVTYNTILNGLC+ KML+E
Sbjct: 527 AGLAPDNVIYTILIGGFCRNGVMSEALKVRDEMLEQGCXLDVVTYNTILNGLCKEKMLSE 586

Query: 469 ADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLID 528
           AD+LF EM ERGVFPDFYTFTTLI+G+ KDGNMNKA+ LF++M Q+++KPD+VTYNTLID
Sbjct: 587 ADELFTEMTERGVFPDFYTFTTLINGYXKDGNMNKAVTLFEMMIQRNLKPDVVTYNTLID 646

Query: 529 GFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKP 588
           GFCK  EMEK N+LW DMISR+I PN+ISYGILINGYC+MG V+EAFRLW EMV KG + 
Sbjct: 647 GFCKGSEMEKVNELWNDMISRRIYPNHISYGILINGYCNMGCVSEAFRLWDEMVEKGFEA 706

Query: 589 TLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALV 648
           T+++CNTI+KGYCR+G+A KADEFLS M+ +G+ PD I+YNTLINGF++EENMD+AFALV
Sbjct: 707 TIITCNTIVKGYCRAGNAVKADEFLSNMLLKGIVPDGITYNTLINGFIKEENMDRAFALV 766

Query: 649 SKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQ 708
           +KMEN GL+PDVITYNVIL GF RQGRM ++ELI+ +MIE+G+NPDRSTYT+LINGHV+Q
Sbjct: 767 NKMENSGLLPDVITYNVILNGFSRQGRMQEAELIMLKMIERGVNPDRSTYTSLINGHVTQ 826

Query: 709 NNLKEAFRFHDEMLQRGFVPDDAF 732
           NNLKEAFR HDEMLQRGFVPDD F
Sbjct: 827 NNLKEAFRVHDEMLQRGFVPDDKF 850

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224059754|ref|XP_002299984.1| predicted protein [Populus trichocarpa] gi|222847242|gb|EEE84789.1| predicted protein [Populus trichocarpa]

 Score =  977 bits (2526), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 452/610 (74%), Positives = 536/610 (87%), Gaps = 1/610 (0%)

Query: 124 MIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTY-SPCGSNSLIFDLVIRTYVQ 182
           M+H  VR RR+SDAQALILRM+R+SGVSR+E+V++ VS+    CG+N+L+FDL+IRTYVQ
Sbjct: 1   MVHVFVRSRRLSDAQALILRMIRRSGVSRVEVVEALVSSMCGNCGTNNLVFDLLIRTYVQ 60

Query: 183 ARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYT 242
           ARKLREG+E FR+LR+KG   SINACNSLLGGLVKI WV+LA EV+ EVVRSGIELNVYT
Sbjct: 61  ARKLREGTEAFRILRSKGYLVSINACNSLLGGLVKIDWVELAWEVHREVVRSGIELNVYT 120

Query: 243 LNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMS 302
           LNIMVNALCKD K D  K FL EME  G+Y D VTYNTLI AYCREG LEEAF++MNSM+
Sbjct: 121 LNIMVNALCKDGKFDDVKSFLSEMEGNGIYADMVTYNTLIGAYCREGLLEEAFEIMNSMA 180

Query: 303 GKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMS 362
            KGLKP +FTYN++INGLCKKGR  RAK +L EML +GLSPDT TYNTLLVESCR++N S
Sbjct: 181 DKGLKPSLFTYNAIINGLCKKGRYARAKGILIEMLNIGLSPDTTTYNTLLVESCRRDNFS 240

Query: 363 EAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIII 422
           EA+EIF EM R+GV PD+VSFS+LI +FSRN  LD+AL+YFR+MK  GLVPDNV+YT+++
Sbjct: 241 EAKEIFGEMLRQGVVPDLVSFSSLIAVFSRNRHLDQALVYFRDMKKFGLVPDNVIYTVLM 300

Query: 423 NGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVF 482
           +GYCRNG +LEALK+RDEMLE+GCV+DV+ YNTILNGLC+ KMLT+AD LF+EM+ERG  
Sbjct: 301 HGYCRNGNMLEALKIRDEMLEQGCVLDVIAYNTILNGLCKEKMLTDADKLFDEMVERGAL 360

Query: 483 PDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKL 542
           PDFYTFTTLIHGHC+DGNM KAL+LF  MTQ++IKPDIV YNTLIDGFCKVGEMEKA++L
Sbjct: 361 PDFYTFTTLIHGHCQDGNMTKALSLFGTMTQRNIKPDIVAYNTLIDGFCKVGEMEKASEL 420

Query: 543 WADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCR 602
           W  MISRKI PN+I+YGILIN YCS+GHV+EAFRLW  M+ KGIKPTLV+CNT+IKGYCR
Sbjct: 421 WDGMISRKIFPNHITYGILINAYCSVGHVSEAFRLWDVMIEKGIKPTLVTCNTVIKGYCR 480

Query: 603 SGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVIT 662
           SGD+SKADEFL +M+++GV PD ISYNTLINGFVRE+NMDKAF  ++KME +GL+PD+IT
Sbjct: 481 SGDSSKADEFLGRMIAKGVAPDHISYNTLINGFVREDNMDKAFLWINKMEKEGLLPDIIT 540

Query: 663 YNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEML 722
           YNV++ GFCRQGRM ++EL+L +MIEKG+NPDRSTYT LINGHV+Q+NL EAFRFHDEML
Sbjct: 541 YNVVMNGFCRQGRMQEAELVLRKMIEKGINPDRSTYTALINGHVTQDNLNEAFRFHDEML 600

Query: 723 QRGFVPDDAF 732
           QRGF PDD F
Sbjct: 601 QRGFAPDDVF 610

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255572227|ref|XP_002527053.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223533615|gb|EEF35353.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  966 bits (2497), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 450/604 (74%), Positives = 532/604 (88%)

Query: 129 VRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLRE 188
           VR +R+SDAQ LILRM+R+SGVSR+EIV+S +S  S CG ++L+FDL+IR+YVQARKL E
Sbjct: 74  VRSKRLSDAQTLILRMIRRSGVSRVEIVESLISMSSTCGVDNLVFDLLIRSYVQARKLNE 133

Query: 189 GSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVN 248
           G++ F++LR KG   SINACNSLLGGLVK+GWVDLA EVY E+ RSGIELNVYTLNIMVN
Sbjct: 134 GTDTFKILRRKGFLVSINACNSLLGGLVKMGWVDLAWEVYNEIARSGIELNVYTLNIMVN 193

Query: 249 ALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKP 308
           ALCKDHKID  K FL +MEQKG++ D VTYNTLINAYCREG L EAF++MNSMSGKGLKP
Sbjct: 194 ALCKDHKIDDVKPFLIDMEQKGIFADIVTYNTLINAYCREGLLGEAFEVMNSMSGKGLKP 253

Query: 309 GVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIF 368
            +FTYN++INGLCKKGR  RAK V +EML +GLSPDT TYNTLLVESCR  N  EA++IF
Sbjct: 254 TLFTYNAVINGLCKKGRYVRAKGVFNEMLSIGLSPDTTTYNTLLVESCRNNNFLEAKDIF 313

Query: 369 CEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRN 428
            +M  RGV+PD++SFS+LIG+ SRNG LD+ALMYFR+MK++GLVPDNV+YTI+INGYCRN
Sbjct: 314 SDMLHRGVSPDLISFSSLIGVSSRNGHLDQALMYFRDMKTSGLVPDNVIYTILINGYCRN 373

Query: 429 GFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTF 488
           G + EAL++RD+MLE+GC +DVV YNTILNGLC+ K+L +A+ LF+EM+ERGV PDF TF
Sbjct: 374 GMMSEALEIRDKMLEQGCALDVVAYNTILNGLCKKKLLADANALFDEMVERGVVPDFCTF 433

Query: 489 TTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMIS 548
           TTLIHGHCK+GNM KAL+LF IMTQK+IKPDIVTYN LIDGFCK  EMEKAN+LW +MIS
Sbjct: 434 TTLIHGHCKEGNMGKALSLFGIMTQKNIKPDIVTYNILIDGFCKTTEMEKANELWNEMIS 493

Query: 549 RKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASK 608
           RKI PN+ISY IL+NGYC++G V+EAFRLW EM+ KGIKPTLV+CNT+IKGYCRSGD SK
Sbjct: 494 RKIFPNHISYAILVNGYCNLGFVSEAFRLWDEMIRKGIKPTLVTCNTVIKGYCRSGDLSK 553

Query: 609 ADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILT 668
           ADEFL KM+SEGV PDSI+YNTLINGFV+ E MDKAF L++KME +GL PDV+TYNVIL 
Sbjct: 554 ADEFLGKMISEGVGPDSITYNTLINGFVKGEYMDKAFFLINKMETKGLQPDVVTYNVILN 613

Query: 669 GFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVP 728
           GFCRQGRM ++ELIL +MIE+G++PDRSTYTTLING+VSQ+NLKEAFRFHDEMLQRGFVP
Sbjct: 614 GFCRQGRMQEAELILRKMIERGIDPDRSTYTTLINGYVSQDNLKEAFRFHDEMLQRGFVP 673

Query: 729 DDAF 732
           DD F
Sbjct: 674 DDDF 677

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449442579|ref|XP_004139059.1| PREDICTED: pentatricopeptide repeat-containing protein At5g01110-like [Cucumis sativus]

 Score =  946 bits (2445), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 461/747 (61%), Positives = 594/747 (79%), Gaps = 18/747 (2%)

Query: 4   IQRLPFQNFTLR--VVKSRAAAS------------LHTLINPNSGSTE----ASLNSNQE 45
           + RLP  N T R  ++ S+  +S            LHT+ +P++ +       S  +   
Sbjct: 3   VHRLPLPNSTFRSGILSSKFTSSTPLLPAIFNSFTLHTIYSPSNTALRFLQTHSAPAPPH 62

Query: 46  QVSSSGSVSDSLLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFID 105
            VSSS S SDS L+EKIL  LKQ NV+ LR    RL+  ++++VL+R R +L +G +FI 
Sbjct: 63  PVSSSLSPSDSFLLEKILFTLKQNNVSYLRDSLLRLSPSLLLQVLFRCRGDLHLGLKFIG 122

Query: 106 FIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSP 165
            ++ +FPN KHSS+SLSAM+HFLVRGRR+S+AQA ILRMVRKSGVSR+++V+S +ST   
Sbjct: 123 LVSYHFPNFKHSSLSLSAMVHFLVRGRRLSEAQACILRMVRKSGVSRVKVVESLISTCFY 182

Query: 166 CGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAR 225
            GS  LI+DL++RTYVQA+KLREGSE F++LR KG+  SINACN LLGGLV+ GWVDLA 
Sbjct: 183 FGSVGLIYDLLVRTYVQAKKLREGSEAFQILRRKGVSVSINACNKLLGGLVRTGWVDLAW 242

Query: 226 EVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAY 285
           E+Y EVVR GIELNVYTLNIMVNALCKD K ++   FL +ME KGV+ D VTYNTLINAY
Sbjct: 243 EIYGEVVRGGIELNVYTLNIMVNALCKDRKFENVMFFLSDMEGKGVFADIVTYNTLINAY 302

Query: 286 CREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDT 345
           CREG +EEAFQL+NS S +G++PG+ TYN+++ GLCK G+ DRAK+VL EMLQ+GL+P+ 
Sbjct: 303 CREGLVEEAFQLLNSFSSRGMEPGLLTYNAILYGLCKIGKYDRAKDVLIEMLQLGLTPNA 362

Query: 346 ATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFRE 405
           ATYNTLLVE CR++N+ EA+EIF EMSRRGV PD+VSFS+LIG+ +RNG L +ALM+FRE
Sbjct: 363 ATYNTLLVEICRRDNILEAQEIFDEMSRRGVLPDLVSFSSLIGVLARNGHLYQALMHFRE 422

Query: 406 MKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKM 465
           M+ +G+VPDNV+YTI+I+G+CRNG + +ALKMRDEML +GC MDVVTYNT LNGLC+ KM
Sbjct: 423 MERSGIVPDNVIYTILIDGFCRNGALSDALKMRDEMLARGCFMDVVTYNTFLNGLCKKKM 482

Query: 466 LTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNT 525
             +AD LFNEM+ERG+ PDFYTFTTLI G+CKDGNM+KALNLF+ M + ++KPD VTYNT
Sbjct: 483 FADADMLFNEMVERGMVPDFYTFTTLIRGYCKDGNMDKALNLFEAMVRTNLKPDKVTYNT 542

Query: 526 LIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKG 585
           LIDGFCK GEM +A +LW DMI + I P++ISYG ++NG+CS G + EA  L  +M+ KG
Sbjct: 543 LIDGFCKAGEMGRAKELWDDMIRKDIIPDHISYGTVLNGFCSSGLLPEALNLCDQMLEKG 602

Query: 586 IKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAF 645
           I+P LV+CNT+IKGYCRSGD  KA E+LSKM+S G+ PDS SYNTLI+G+++E N++KAF
Sbjct: 603 IRPNLVTCNTLIKGYCRSGDMPKAYEYLSKMISNGIIPDSFSYNTLIDGYLKEANLEKAF 662

Query: 646 ALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGH 705
            L+++ME +GL  ++ITYN+IL GFC +G+M ++E +L +MIE G+NPD +TY++LINGH
Sbjct: 663 ILINEMEKRGLQFNIITYNLILNGFCAEGKMQEAEQVLRKMIEIGINPDGATYSSLINGH 722

Query: 706 VSQNNLKEAFRFHDEMLQRGFVPDDAF 732
           VSQ+N+KEAFRFHDEMLQRG VPDD F
Sbjct: 723 VSQDNMKEAFRFHDEMLQRGLVPDDRF 749

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296083846|emb|CBI24234.3| unnamed protein product [Vitis vinifera]

 Score =  945 bits (2442), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 436/589 (74%), Positives = 523/589 (88%)

Query: 144 MVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICF 203
           MVRKSGVSR+EIV+S V TY  CGSN L+FDL++RTYVQARKLREG E FR+L++KG+C 
Sbjct: 1   MVRKSGVSRVEIVESLVLTYGNCGSNPLVFDLLVRTYVQARKLREGCEAFRVLKSKGLCV 60

Query: 204 SINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFL 263
           SINACNSLLGGLVK+GWVDLA E+Y EVVRSG+++NVYTLNIM+NALCK+ KI++ K FL
Sbjct: 61  SINACNSLLGGLVKVGWVDLAWEIYQEVVRSGVQVNVYTLNIMINALCKNQKIENTKSFL 120

Query: 264 CEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKK 323
            +ME+KGV+PD VTYNTLINAYCR+G LEEAF+LM+SMSGKGLKP VFTYN++INGLCK 
Sbjct: 121 SDMEEKGVFPDVVTYNTLINAYCRQGLLEEAFELMDSMSGKGLKPCVFTYNAIINGLCKT 180

Query: 324 GRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSF 383
           G+  RAK VLDEML++G+SPDTATYN LLVE CR +NM +AE IF EM  +GV PD+VSF
Sbjct: 181 GKYLRAKGVLDEMLKIGMSPDTATYNILLVECCRNDNMMDAERIFDEMPSQGVVPDLVSF 240

Query: 384 STLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLE 443
           S LIG+ S+NG LD+AL YFR+MK+AGL PDNV+YTI+I G+CRNG + EALK+RDEMLE
Sbjct: 241 SALIGLLSKNGCLDQALKYFRDMKNAGLAPDNVIYTILIGGFCRNGVMSEALKVRDEMLE 300

Query: 444 KGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNK 503
           +GCV+DVVTYNTILNGLC+ KML+EAD+LF EM ERGVFPDFYTFTTLI+G+ KDGNMNK
Sbjct: 301 QGCVLDVVTYNTILNGLCKEKMLSEADELFTEMTERGVFPDFYTFTTLINGYSKDGNMNK 360

Query: 504 ALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILIN 563
           A+ LF++M Q+++KPD+VTYNTLIDGFCK  EMEK N+LW DMISR+I PN+ISYGILIN
Sbjct: 361 AVTLFEMMIQRNLKPDVVTYNTLIDGFCKGSEMEKVNELWNDMISRRIYPNHISYGILIN 420

Query: 564 GYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDP 623
           GYC+MG V+EAFRLW EMV KG + T+++CNTI+KGYCR+G+A KADEFLS M+ +G+ P
Sbjct: 421 GYCNMGCVSEAFRLWDEMVEKGFEATIITCNTIVKGYCRAGNAVKADEFLSNMLLKGIVP 480

Query: 624 DSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELIL 683
           D I+YNTLINGF++EENMD+AFALV+KMEN GL+PDVITYNVIL GF RQGRM ++ELI+
Sbjct: 481 DGITYNTLINGFIKEENMDRAFALVNKMENSGLLPDVITYNVILNGFSRQGRMQEAELIM 540

Query: 684 WRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDDAF 732
            +MIE+G+NPDRSTYT+LINGHV+QNNLKEAFR HDEMLQRGFVPDD F
Sbjct: 541 LKMIERGVNPDRSTYTSLINGHVTQNNLKEAFRVHDEMLQRGFVPDDKF 589

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449476143|ref|XP_004154653.1| PREDICTED: LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At5g01110-like [Cucumis sativus]

 Score =  941 bits (2432), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 461/747 (61%), Positives = 593/747 (79%), Gaps = 18/747 (2%)

Query: 4   IQRLPFQNFTLR--VVKSRAAAS------------LHTLINPNSGSTE----ASLNSNQE 45
           + RLP  N T R  ++ S+  +S            LHT+ +P++ +       S  +   
Sbjct: 3   VHRLPLPNSTFRSGILSSKFTSSTPLLPTIFNSFTLHTIYSPSNTTLRFLQTHSAPAPPH 62

Query: 46  QVSSSGSVSDSLLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFID 105
            VSSS S SDS L+EKIL  LKQ NV+ LR    RL+  ++++VL+R R +L +G +FI 
Sbjct: 63  PVSSSLSPSDSSLLEKILFTLKQNNVSYLRDSLLRLSPSLLLQVLFRCRGDLHLGLKFIG 122

Query: 106 FIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSP 165
            ++ +FPN KHSS SLSAM+HFLVRGRR+S+AQA ILRMVRKSGVSR+++V+S +ST   
Sbjct: 123 LVSYHFPNFKHSSXSLSAMVHFLVRGRRLSEAQACILRMVRKSGVSRVKVVESLISTCFY 182

Query: 166 CGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAR 225
            GS  LI+DL++RTYVQA+KLREGSE F++LR KG+  SINACN LLGGLV+ GWVDLA 
Sbjct: 183 FGSVGLIYDLLVRTYVQAKKLREGSEAFQILRRKGVSVSINACNKLLGGLVRTGWVDLAW 242

Query: 226 EVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAY 285
           E+Y EVVR GIELNVYTLNIMVNALCKD K ++   FL +ME KGV+ D VTYNTLINAY
Sbjct: 243 EIYGEVVRGGIELNVYTLNIMVNALCKDRKFENVMFFLSDMEGKGVFADIVTYNTLINAY 302

Query: 286 CREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDT 345
           CREG +EEAFQL+NS S +G++PG+ TYN+++ GLCK G+ DRAK+VL EMLQ+GL+P+ 
Sbjct: 303 CREGLVEEAFQLLNSFSSRGMEPGLLTYNAILYGLCKIGKYDRAKDVLIEMLQLGLTPNA 362

Query: 346 ATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFRE 405
           ATYNTLLVE CR++N+ EA+EIF EMSRRGV PD+VSFS+LIG+ +RNG L +ALM+FRE
Sbjct: 363 ATYNTLLVEICRRDNILEAQEIFDEMSRRGVLPDLVSFSSLIGVLARNGHLYQALMHFRE 422

Query: 406 MKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKM 465
           M+ +G+VPDNV+YTI+I+G+CRNG + +ALKMRDEML +GC MDVVTYNT LNGLC+ KM
Sbjct: 423 MERSGIVPDNVIYTILIDGFCRNGALSDALKMRDEMLARGCFMDVVTYNTFLNGLCKKKM 482

Query: 466 LTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNT 525
             +AD LFNEM+ERG+ PDFYTFTTLI G+CKDGNM+KALNLF+ M + ++KPD VTYNT
Sbjct: 483 FADADMLFNEMVERGMVPDFYTFTTLIRGYCKDGNMDKALNLFEAMVRTNLKPDKVTYNT 542

Query: 526 LIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKG 585
           LIDGFCK GEM +A +LW DMI + I P++ISYG ++NG+CS G + EA  L  +M+ KG
Sbjct: 543 LIDGFCKAGEMGRAKELWDDMIRKDIIPDHISYGTVLNGFCSSGLLPEALNLCDQMLEKG 602

Query: 586 IKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAF 645
           I+P LV+CNT+IKGYCRSGD  KA E+LSKM+S G+ PDS SYNTLI+G+++E N++KAF
Sbjct: 603 IRPNLVTCNTLIKGYCRSGDMPKAYEYLSKMISNGIIPDSFSYNTLIDGYLKEANLEKAF 662

Query: 646 ALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGH 705
            L+++ME +GL  ++ITYN+IL GFC +G+M ++E +L +MIE G+NPD +TY++LINGH
Sbjct: 663 ILINEMEKRGLQFNIITYNLILNGFCAEGKMQEAEQVLRKMIEIGINPDGATYSSLINGH 722

Query: 706 VSQNNLKEAFRFHDEMLQRGFVPDDAF 732
           VSQ+N+KEAFRFHDEMLQRG VPDD F
Sbjct: 723 VSQDNMKEAFRFHDEMLQRGLVPDDRF 749

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297806115|ref|XP_002870941.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297316778|gb|EFH47200.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  918 bits (2373), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 427/678 (62%), Positives = 543/678 (80%), Gaps = 3/678 (0%)

Query: 57  LLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFIDFIALNFPNVKH 116
            LVEKI  +LKQGN N +R++  RLN + +VEVLYR R++L +GQRF+D +  NFPN KH
Sbjct: 43  FLVEKICFSLKQGNSN-VRNHLIRLNPLAVVEVLYRCRNDLSLGQRFVDQLGFNFPNFKH 101

Query: 117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLV 176
           +S+SLSAMIH LVR  R+SDAQ+ +LRM+R+SGVSR+EIV+S VSTYS CGSN  +FDL+
Sbjct: 102 TSLSLSAMIHILVRSGRLSDAQSCVLRMIRRSGVSRVEIVNSLVSTYSNCGSNDSVFDLL 161

Query: 177 IRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGI 236
           IRT+VQARKLRE  E F LLR+KG   SI+ACN+L+G LV+IGWV+LA  +Y E+ RSG+
Sbjct: 162 IRTFVQARKLREAYEAFTLLRSKGYTVSIDACNALIGSLVRIGWVELAWRIYQEISRSGV 221

Query: 237 ELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQ 296
            +NVYTLNIMVNALCKD K++    FL E+++KGVYPD VTYNTLI+AY  +G +EEAF+
Sbjct: 222 GVNVYTLNIMVNALCKDGKMEKVGTFLSEVQEKGVYPDIVTYNTLISAYSSQGLMEEAFE 281

Query: 297 LMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESC 356
           LM++M  KG  PGV+TYN++INGLCK G+ +RAKEV  EML+ GLSPD+ TY +LL+E+C
Sbjct: 282 LMHAMPSKGFSPGVYTYNTVINGLCKHGKYERAKEVFAEMLRSGLSPDSTTYRSLLMEAC 341

Query: 357 RKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNV 416
           +K +  E E IF +M  R V PD+V FS+++ +F+R+G LD+ALMYF  +K AGL+PDNV
Sbjct: 342 KKGDAVETENIFSDMRSRDVVPDLVCFSSMMSLFTRSGNLDKALMYFNSVKEAGLIPDNV 401

Query: 417 LYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEM 476
           +YTI+I GYCR G + EA+ +R+EML++GC MDVVTYNTIL+GLC+ KML EAD LFNEM
Sbjct: 402 IYTILIQGYCRKGMISEAMNLRNEMLQQGCAMDVVTYNTILHGLCKRKMLGEADKLFNEM 461

Query: 477 LERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEM 536
            ERG+FPD YT T LI GHCK GN+  A+ LF  M +K IK D+VTYNTL+DGF KVG++
Sbjct: 462 TERGLFPDSYTLTILIDGHCKLGNLQNAMELFKKMKEKRIKLDVVTYNTLLDGFGKVGDI 521

Query: 537 EKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTI 596
           + A ++WADM+S++I P  IS+ IL+N  CS GH++EAFR+W EM+ K IKPT++ CN++
Sbjct: 522 DTAKEIWADMVSKEILPTPISFSILVNALCSKGHLSEAFRVWDEMISKSIKPTVMICNSM 581

Query: 597 IKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQ-- 654
           IKGYCRSG+AS  + FL KM+SEG  PD ISYNTLI GFV+EENM KAF LV KME +  
Sbjct: 582 IKGYCRSGNASDGEIFLEKMISEGFVPDCISYNTLIYGFVKEENMSKAFGLVKKMEEKQG 641

Query: 655 GLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEA 714
           GLVPDV TYN IL GFCR+ +M ++E +L +MIE+G+NPDRSTYT+LING VSQ+NL EA
Sbjct: 642 GLVPDVFTYNSILHGFCRENQMKEAEAVLRKMIERGVNPDRSTYTSLINGFVSQDNLTEA 701

Query: 715 FRFHDEMLQRGFVPDDAF 732
           FRFHDEMLQRGF PDD F
Sbjct: 702 FRFHDEMLQRGFSPDDKF 719

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357494043|ref|XP_003617310.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355518645|gb|AET00269.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  915 bits (2364), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 432/685 (63%), Positives = 561/685 (81%), Gaps = 11/685 (1%)

Query: 55  DSLLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQ----VGQRFIDFIALN 110
           ++LL++K+L  LKQ + +SLR++    NS + + ++ +L    Q    +    I  IA  
Sbjct: 36  NALLIDKLLFRLKQNDFSSLRTHLLHSNSTLTLTLIPQLLQKCQNYPLLLPNLIQTIAST 95

Query: 111 FPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNS 170
            PN       ++ +IHFLV+ +++ +AQ+L+LR++RKSGVS +E++DS +ST S   +++
Sbjct: 96  SPN----PSIIATLIHFLVQSKKLPEAQSLLLRIIRKSGVSHVEVIDSLISTSSSNLNSN 151

Query: 171 ---LIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREV 227
              ++FDL+IRTYVQARKLREGSE F+LLR +G C SINACN+LLG +VK+GWVDLA +V
Sbjct: 152 QNVVVFDLLIRTYVQARKLREGSEAFQLLRKRGFCVSINACNALLGAIVKVGWVDLAWKV 211

Query: 228 YAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCR 287
           Y + V+SG  +NVYTLNIMVNALCKD K+D+  ++L EME+KGVY D VTYNTL+NAYCR
Sbjct: 212 YEDFVKSGNIVNVYTLNIMVNALCKDGKLDNVGVYLSEMEEKGVYADLVTYNTLVNAYCR 271

Query: 288 EGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTAT 347
            G + EAF L++ M+GKGLKPG+FTYN+LINGLCK+G  +RAK VLDEML +GL P+ AT
Sbjct: 272 RGLVSEAFGLVDCMAGKGLKPGLFTYNALINGLCKEGSYERAKRVLDEMLGVGLCPNAAT 331

Query: 348 YNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMK 407
           +N +LVESCRKE++ EAE +F EM +RGV PD++SFS+++G+FSRNG+L RAL YF +MK
Sbjct: 332 FNPMLVESCRKEDVWEAERVFNEMLQRGVVPDLISFSSIVGVFSRNGELGRALAYFEKMK 391

Query: 408 SAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLT 467
             GLVPD V+YTI+INGYCRN  V  ALKMR+EM+E+GCVMDVVTYNT+LNGLCR KML 
Sbjct: 392 GVGLVPDTVIYTILINGYCRNDDVSGALKMRNEMVERGCVMDVVTYNTLLNGLCRGKMLD 451

Query: 468 EADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLI 527
           +AD+LF EM+ERGVFPDFYT TTLIHG+CKDGNM KAL+LF+ MT +S+KPD+VTYNTL+
Sbjct: 452 DADELFKEMVERGVFPDFYTLTTLIHGYCKDGNMTKALSLFETMTLRSLKPDVVTYNTLM 511

Query: 528 DGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIK 587
           DGFCKVGEMEKA +LW DMISR+I P+YIS+ ILING+CS+G V+EAFRLW EM  KGIK
Sbjct: 512 DGFCKVGEMEKAKELWYDMISREIFPSYISFSILINGFCSLGLVSEAFRLWDEMKEKGIK 571

Query: 588 PTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFAL 647
           PTLV+CNTIIKGY R+G+ SKA++FL+ M+SEGV PD I+YNTLIN FV+EEN D+AF L
Sbjct: 572 PTLVTCNTIIKGYLRAGNLSKANDFLNTMISEGVPPDCITYNTLINSFVKEENFDRAFFL 631

Query: 648 VSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVS 707
           ++ ME +GL+P+++TYN IL GF R GRM ++E++L +MI+KG+NPD+STYT+LING+VS
Sbjct: 632 INNMEERGLLPNLVTYNAILGGFSRHGRMQEAEMVLHKMIDKGINPDKSTYTSLINGYVS 691

Query: 708 QNNLKEAFRFHDEMLQRGFVPDDAF 732
           ++N+KEAFR HDEMLQRGFVPDD F
Sbjct: 692 KDNMKEAFRVHDEMLQRGFVPDDKF 716

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15240891|ref|NP_195731.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75174092|sp|Q9LFC5.1|PP360_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At5g01110 gi|6759434|emb|CAB69839.1| putative protein [Arabidopsis thaliana] gi|28973740|gb|AAO64186.1| unknown protein [Arabidopsis thaliana] gi|110736884|dbj|BAF00399.1| hypothetical protein [Arabidopsis thaliana] gi|332002917|gb|AED90300.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  914 bits (2361), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 425/678 (62%), Positives = 542/678 (79%), Gaps = 3/678 (0%)

Query: 57  LLVEKILLNLKQGNVNSLRSYQFRLNSVIIVEVLYRLRDNLQVGQRFIDFIALNFPNVKH 116
            LVEKI  +LKQGN N++R++  RLN + +VEVLYR R++L +GQRF+D +  +FPN KH
Sbjct: 53  FLVEKICFSLKQGN-NNVRNHLIRLNPLAVVEVLYRCRNDLTLGQRFVDQLGFHFPNFKH 111

Query: 117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLV 176
           +S+SLSAMIH LVR  R+SDAQ+ +LRM+R+SGVSRLEIV+S  ST+S CGSN  +FDL+
Sbjct: 112 TSLSLSAMIHILVRSGRLSDAQSCLLRMIRRSGVSRLEIVNSLDSTFSNCGSNDSVFDLL 171

Query: 177 IRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGI 236
           IRTYVQARKLRE  E F LLR+KG   SI+ACN+L+G LV+IGWV+LA  VY E+ RSG+
Sbjct: 172 IRTYVQARKLREAHEAFTLLRSKGFTVSIDACNALIGSLVRIGWVELAWGVYQEISRSGV 231

Query: 237 ELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQ 296
            +NVYTLNIMVNALCKD K++    FL ++++KGVYPD VTYNTLI+AY  +G +EEAF+
Sbjct: 232 GINVYTLNIMVNALCKDGKMEKVGTFLSQVQEKGVYPDIVTYNTLISAYSSKGLMEEAFE 291

Query: 297 LMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESC 356
           LMN+M GKG  PGV+TYN++INGLCK G+ +RAKEV  EML+ GLSPD+ TY +LL+E+C
Sbjct: 292 LMNAMPGKGFSPGVYTYNTVINGLCKHGKYERAKEVFAEMLRSGLSPDSTTYRSLLMEAC 351

Query: 357 RKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNV 416
           +K ++ E E++F +M  R V PD+V FS+++ +F+R+G LD+ALMYF  +K AGL+PDNV
Sbjct: 352 KKGDVVETEKVFSDMRSRDVVPDLVCFSSMMSLFTRSGNLDKALMYFNSVKEAGLIPDNV 411

Query: 417 LYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEM 476
           +YTI+I GYCR G +  A+ +R+EML++GC MDVVTYNTIL+GLC+ KML EAD LFNEM
Sbjct: 412 IYTILIQGYCRKGMISVAMNLRNEMLQQGCAMDVVTYNTILHGLCKRKMLGEADKLFNEM 471

Query: 477 LERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEM 536
            ER +FPD YT T LI GHCK GN+  A+ LF  M +K I+ D+VTYNTL+DGF KVG++
Sbjct: 472 TERALFPDSYTLTILIDGHCKLGNLQNAMELFQKMKEKRIRLDVVTYNTLLDGFGKVGDI 531

Query: 537 EKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTI 596
           + A ++WADM+S++I P  ISY IL+N  CS GH+ EAFR+W EM+ K IKPT++ CN++
Sbjct: 532 DTAKEIWADMVSKEILPTPISYSILVNALCSKGHLAEAFRVWDEMISKNIKPTVMICNSM 591

Query: 597 IKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQ-- 654
           IKGYCRSG+AS  + FL KM+SEG  PD ISYNTLI GFVREENM KAF LV KME +  
Sbjct: 592 IKGYCRSGNASDGESFLEKMISEGFVPDCISYNTLIYGFVREENMSKAFGLVKKMEEEQG 651

Query: 655 GLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEA 714
           GLVPDV TYN IL GFCRQ +M ++E++L +MIE+G+NPDRSTYT +ING VSQ+NL EA
Sbjct: 652 GLVPDVFTYNSILHGFCRQNQMKEAEVVLRKMIERGVNPDRSTYTCMINGFVSQDNLTEA 711

Query: 715 FRFHDEMLQRGFVPDDAF 732
           FR HDEMLQRGF PDD F
Sbjct: 712 FRIHDEMLQRGFSPDDKF 729

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	732
TAIR|locus:2150024	729	AT5G01110 [Arabidopsis thalian	0.965	0.969	0.601	8.8e-237
TAIR|locus:2168078	907	AT5G59900 "AT5G59900" [Arabido	0.881	0.711	0.321	1.9e-92
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.775	0.917	0.319	2.8e-89
TAIR|locus:2053552	627	AT2G15630 "AT2G15630" [Arabido	0.662	0.773	0.372	8.9e-86
TAIR|locus:2019085	763	AT1G74580 "AT1G74580" [Arabido	0.732	0.702	0.325	3.4e-84
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.825	0.808	0.301	3.4e-84
TAIR|locus:2195047	621	AT1G12620 [Arabidopsis thalian	0.693	0.818	0.326	5.6e-84
TAIR|locus:2034760	637	AT1G12300 [Arabidopsis thalian	0.825	0.948	0.293	1.5e-83
TAIR|locus:2024537	666	AT1G64100 [Arabidopsis thalian	0.725	0.797	0.308	2.5e-81
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.825	0.937	0.283	5.2e-81

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

 Score = 2283 (808.7 bits), Expect = 8.8e-237, P = 8.8e-237
 Identities = 427/710 (60%), Positives = 545/710 (76%)

Query:    25 LHTLINPNSGSTEASLXXXXXXXXXXXXXXXXXXXXKILLNLKQGNVNSLRSYQFRLNSV 84
             L  L   +S   E S                     KI  +LKQGN N++R++  RLN +
Sbjct:    21 LKNLTTSSSPVFEPSSSSSSSSSSASFSVSDSFLVEKICFSLKQGN-NNVRNHLIRLNPL 79

Query:    85 IIVEVLYRLRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRM 144
              +VEVLYR R++L +GQRF+D +  +FPN KH+S+SLSAMIH LVR  R+SDAQ+ +LRM
Sbjct:    80 AVVEVLYRCRNDLTLGQRFVDQLGFHFPNFKHTSLSLSAMIHILVRSGRLSDAQSCLLRM 139

Query:   145 VRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFS 204
             +R+SGVSRLEIV+S  ST+S CGSN  +FDL+IRTYVQARKLRE  E F LLR+KG   S
Sbjct:   140 IRRSGVSRLEIVNSLDSTFSNCGSNDSVFDLLIRTYVQARKLREAHEAFTLLRSKGFTVS 199

Query:   205 INACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLC 264
             I+ACN+L+G LV+IGWV+LA  VY E+ RSG+ +NVYTLNIMVNALCKD K++    FL 
Sbjct:   200 IDACNALIGSLVRIGWVELAWGVYQEISRSGVGINVYTLNIMVNALCKDGKMEKVGTFLS 259

Query:   265 EMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKG 324
             ++++KGVYPD VTYNTLI+AY  +G +EEAF+LMN+M GKG  PGV+TYN++INGLCK G
Sbjct:   260 QVQEKGVYPDIVTYNTLISAYSSKGLMEEAFELMNAMPGKGFSPGVYTYNTVINGLCKHG 319

Query:   325 RCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFS 384
             + +RAKEV  EML+ GLSPD+ TY +LL+E+C+K ++ E E++F +M  R V PD+V FS
Sbjct:   320 KYERAKEVFAEMLRSGLSPDSTTYRSLLMEACKKGDVVETEKVFSDMRSRDVVPDLVCFS 379

Query:   385 TLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEK 444
             +++ +F+R+G LD+ALMYF  +K AGL+PDNV+YTI+I GYCR G +  A+ +R+EML++
Sbjct:   380 SMMSLFTRSGNLDKALMYFNSVKEAGLIPDNVIYTILIQGYCRKGMISVAMNLRNEMLQQ 439

Query:   445 GCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKA 504
             GC MDVVTYNTIL+GLC+ KML EAD LFNEM ER +FPD YT T LI GHCK GN+  A
Sbjct:   440 GCAMDVVTYNTILHGLCKRKMLGEADKLFNEMTERALFPDSYTLTILIDGHCKLGNLQNA 499

Query:   505 LNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILING 564
             + LF  M +K I+ D+VTYNTL+DGF KVG+++ A ++WADM+S++I P  ISY IL+N 
Sbjct:   500 MELFQKMKEKRIRLDVVTYNTLLDGFGKVGDIDTAKEIWADMVSKEILPTPISYSILVNA 559

Query:   565 YCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPD 624
              CS GH+ EAFR+W EM+ K IKPT++ CN++IKGYCRSG+AS  + FL KM+SEG  PD
Sbjct:   560 LCSKGHLAEAFRVWDEMISKNIKPTVMICNSMIKGYCRSGNASDGESFLEKMISEGFVPD 619

Query:   625 SISYNTLINGFVREENMDKAFALVSKMENQ--GLVPDVITYNVILTGFCRQGRMHDSELI 682
              ISYNTLI GFVREENM KAF LV KME +  GLVPDV TYN IL GFCRQ +M ++E++
Sbjct:   620 CISYNTLIYGFVREENMSKAFGLVKKMEEEQGGLVPDVFTYNSILHGFCRQNQMKEAEVV 679

Query:   683 LWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDDAF 732
             L +MIE+G+NPDRSTYT +ING VSQ+NL EAFR HDEMLQRGF PDD F
Sbjct:   680 LRKMIERGVNPDRSTYTCMINGFVSQDNLTEAFRIHDEMLQRGFSPDDKF 729

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 921 (329.3 bits), Expect = 1.9e-92, P = 1.9e-92
 Identities = 211/657 (32%), Positives = 359/657 (54%)

Query:    80 RLNSVIIVEVLYRLRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQA 139
             RL +V + E+L    D+ ++G RF +F+ L+     HS+ S   +IH LV+      A +
Sbjct:    67 RLKTVHVEEILIGTIDDPKLGLRFFNFLGLH-RGFDHSTASFCILIHALVKANLFWPASS 125

Query:   140 LILRMVRKSGVSRLEIVDSFVSTYSPCG-SNSLIFDLVIRTYVQARKLREGSEVFRLLRN 198
             L+  ++ ++ +   ++ +   S Y  C  S+S  FDL+I+ YV++R++ +G  VF+++  
Sbjct:   126 LLQTLLLRA-LKPSDVFNVLFSCYEKCKLSSSSSFDLLIQHYVRSRRVLDGVLVFKMMIT 184

Query:   199 K-GICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKID 257
             K  +   +   ++LL GLVK     LA E++ ++V  GI  +VY    ++ +LC+   + 
Sbjct:   185 KVSLLPEVRTLSALLHGLVKFRHFGLAMELFNDMVSVGIRPDVYIYTGVIRSLCELKDLS 244

Query:   258 SAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLI 317
              AK  +  ME  G   + V YN LI+  C++  + EA  +   ++GK LKP V TY +L+
Sbjct:   245 RAKEMIAHMEATGCDVNIVPYNVLIDGLCKKQKVWEAVGIKKDLAGKDLKPDVVTYCTLV 304

Query:   318 NGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKEN-MSEAEEIFCEMSRRGV 376
              GLCK    +   E++DEML +  SP  A  ++L VE  RK   + EA  +   +   GV
Sbjct:   305 YGLCKVQEFEIGLEMMDEMLCLRFSPSEAAVSSL-VEGLRKRGKIEEALNLVKRVVDFGV 363

Query:   377 APDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALK 436
             +P++  ++ LI    +  +   A + F  M   GL P++V Y+I+I+ +CR G +  AL 
Sbjct:   364 SPNLFVYNALIDSLCKGRKFHEAELLFDRMGKIGLRPNDVTYSILIDMFCRRGKLDTALS 423

Query:   437 MRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHC 496
                EM++ G  + V  YN+++NG C+   ++ A+    EM+ + + P   T+T+L+ G+C
Sbjct:   424 FLGEMVDTGLKLSVYPYNSLINGHCKFGDISAAEGFMAEMINKKLEPTVVTYTSLMGGYC 483

Query:   497 KDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYI 556
               G +NKAL L+  MT K I P I T+ TL+ G  + G +  A KL+ +M    + PN +
Sbjct:   484 SKGKINKALRLYHEMTGKGIAPSIYTFTTLLSGLFRAGLIRDAVKLFNEMAEWNVKPNRV 543

Query:   557 SYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKM 616
             +Y ++I GYC  G +++AF    EM  KGI P   S   +I G C +G AS+A  F+  +
Sbjct:   544 TYNVMIEGYCEEGDMSKAFEFLKEMTEKGIVPDTYSYRPLIHGLCLTGQASEAKVFVDGL 603

Query:   617 VSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRM 676
                  + + I Y  L++GF RE  +++A ++  +M  +G+  D++ Y V++ G  +    
Sbjct:   604 HKGNCELNEICYTGLLHGFCREGKLEEALSVCQEMVQRGVDLDLVCYGVLIDGSLKH--- 660

Query:   677 HDSEL---ILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDD 730
              D +L   +L  M ++GL PD   YT++I+      + KEAF   D M+  G VP++
Sbjct:   661 KDRKLFFGLLKEMHDRGLKPDDVIYTSMIDAKSKTGDFKEAFGIWDLMINEGCVPNE 717

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 891 (318.7 bits), Expect = 2.8e-89, P = 2.8e-89
 Identities = 182/570 (31%), Positives = 316/570 (55%)

Query:   163 YSPCGSNSLIFDLVIRTYVQARKLREGSEVFR-LLRNKGICFSINACNSLLGGLVKIGWV 221
             YS      L +   +R  +   K+ +  ++F  +++++ +   I+  N L   + +    
Sbjct:    28 YSSITEAKLSYKERLRNGIVDIKVNDAIDLFESMIQSRPLPTPIDF-NRLCSAVARTKQY 86

Query:   222 DLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTL 281
             DL       +  +GIE ++YT+ IM+N  C+  K+  A   L    + G  PDT+T++TL
Sbjct:    87 DLVLGFCKGMELNGIEHDMYTMTIMINCYCRKKKLLFAFSVLGRAWKLGYEPDTITFSTL 146

Query:   282 INAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGL 341
             +N +C EG + EA  L++ M     +P + T ++LINGLC KGR   A  ++D M++ G 
Sbjct:   147 VNGFCLEGRVSEAVALVDRMVEMKQRPDLVTVSTLINGLCLKGRVSEALVLIDRMVEYGF 206

Query:   342 SPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALM 401
              PD  TY  +L   C+  N + A ++F +M  R +   +V +S +I    ++G  D AL 
Sbjct:   207 QPDEVTYGPVLNRLCKSGNSALALDLFRKMEERNIKASVVQYSIVIDSLCKDGSFDDALS 266

Query:   402 YFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLC 461
              F EM+  G+  D V Y+ +I G C +G   +  KM  EM+ +  + DVVT++ +++   
Sbjct:   267 LFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFV 326

Query:   462 RAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIV 521
             +   L EA +L+NEM+ RG+ PD  T+ +LI G CK+  +++A  +FD+M  K  +PDIV
Sbjct:   327 KEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIV 386

Query:   522 TYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEM 581
             TY+ LI+ +CK   ++   +L+ ++ S+ + PN I+Y  L+ G+C  G +  A  L+ EM
Sbjct:   387 TYSILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQSGKLNAAKELFQEM 446

Query:   582 VGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENM 641
             V +G+ P++V+   ++ G C +G+ +KA E   KM    +      YN +I+G      +
Sbjct:   447 VSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRMTLGIGIYNIIIHGMCNASKV 506

Query:   642 DKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTL 701
             D A++L   + ++G+ PDV+TYNV++ G C++G + +++++  +M E G  PD  TY  L
Sbjct:   507 DDAWSLFCSLSDKGVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDGCTPDDFTYNIL 566

Query:   702 INGHVSQNNLKEAFRFHDEMLQRGFVPDDA 731
             I  H+  + L  +    +EM   GF  D +
Sbjct:   567 IRAHLGGSGLISSVELIEEMKVCGFSADSS 596

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 858 (307.1 bits), Expect = 8.9e-86, P = 8.9e-86
 Identities = 187/502 (37%), Positives = 289/502 (57%)

Query:   146 RKSGVSRLEIVDSFVSTYSPCGSNS-LIFDLVIRTYVQARKLREGSEVFRLLRNKGICFS 204
             RK+ +  L   D  V  +    + S ++FDL++R   Q R + E  E F L++ KG    
Sbjct:   132 RKNSIRNL--FDELVLAHDRLETKSTILFDLLVRCCCQLRMVDEAIECFYLMKEKGFYPK 189

Query:   205 INACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLC 264
                CN +L  L ++  ++ A   YA++ R  I+ NVYT NIM+N LCK+ K+  AK FL 
Sbjct:   190 TETCNHILTLLSRLNRIENAWVFYADMYRMEIKSNVYTFNIMINVLCKEGKLKKAKGFLG 249

Query:   265 EMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKG 324
              ME  G+ P  VTYNTL+  +   G +E A  +++ M  KG +P + TYN +++ +C +G
Sbjct:   250 IMEVFGIKPTIVTYNTLVQGFSLRGRIEGARLIISEMKSKGFQPDMQTYNPILSWMCNEG 309

Query:   325 RCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFC---EMSRRGVAPDIV 381
             R   A EVL EM ++GL PD+ +YN +L+  C   N  + E  F    EM ++G+ P   
Sbjct:   310 R---ASEVLREMKEIGLVPDSVSYN-ILIRGC--SNNGDLEMAFAYRDEMVKQGMVPTFY 363

Query:   382 SFSTLI-GIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDE 440
             +++TLI G+F  N +++ A +  RE++  G+V D+V Y I+INGYC++G   +A  + DE
Sbjct:   364 TYNTLIHGLFMEN-KIEAAEILIREIREKGIVLDSVTYNILINGYCQHGDAKKAFALHDE 422

Query:   441 MLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGN 500
             M+  G      TY +++  LCR     EAD+LF +++ +G+ PD     TL+ GHC  GN
Sbjct:   423 MMTDGIQPTQFTYTSLIYVLCRKNKTREADELFEKVVGKGMKPDLVMMNTLMDGHCAIGN 482

Query:   501 MNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGI 560
             M++A +L   M   SI PD VTYN L+ G C  G+ E+A +L  +M  R I P++ISY  
Sbjct:   483 MDRAFSLLKEMDMMSINPDDVTYNCLMRGLCGEGKFEEARELMGEMKRRGIKPDHISYNT 542

Query:   561 LINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEG 620
             LI+GY   G    AF +  EM+  G  PTL++ N ++KG  ++ +   A+E L +M SEG
Sbjct:   543 LISGYSKKGDTKHAFMVRDEMLSLGFNPTLLTYNALLKGLSKNQEGELAEELLREMKSEG 602

Query:   621 VDPDSISYNTLINGFVREENMD 642
             + P+  S+ ++I       N+D
Sbjct:   603 IVPNDSSFCSVIEAM---SNLD 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 = 843 (301.8 bits), Expect = 3.4e-84, P = 3.4e-84
 Identities = 176/540 (32%), Positives = 290/540 (53%)

Query:   194 RLLRN---KGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNAL 250
             RLL N   +G   ++ A  +++GG  +  +     E++ +++ SG+ L + T N ++  L
Sbjct:   167 RLLNNMSSQGCEMNVVAYCTVVGGFYEENFKAEGYELFGKMLASGVSLCLSTFNKLLRVL 226

Query:   251 CKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGV 310
             CK   +   +  L ++ ++GV P+  TYN  I   C+ G L+ A +++  +  +G KP V
Sbjct:   227 CKKGDVKECEKLLDKVIKRGVLPNLFTYNLFIQGLCQRGELDGAVRMVGCLIEQGPKPDV 286

Query:   311 FTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCE 370
              TYN+LI GLCK  +   A+  L +M+  GL PD+ TYNTL+   C+   +  AE I  +
Sbjct:   287 ITYNNLIYGLCKNSKFQEAEVYLGKMVNEGLEPDSYTYNTLIAGYCKGGMVQLAERIVGD 346

Query:   371 MSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGF 430
                 G  PD  ++ +LI      G+ +RAL  F E    G+ P+ +LY  +I G    G 
Sbjct:   347 AVFNGFVPDQFTYRSLIDGLCHEGETNRALALFNEALGKGIKPNVILYNTLIKGLSNQGM 406

Query:   431 VLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTT 490
             +LEA ++ +EM EKG + +V T+N ++NGLC+   +++AD L   M+ +G FPD +TF  
Sbjct:   407 ILEAAQLANEMSEKGLIPEVQTFNILVNGLCKMGCVSDADGLVKVMISKGYFPDIFTFNI 466

Query:   491 LIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRK 550
             LIHG+     M  AL + D+M    + PD+ TYN+L++G CK  + E   + +  M+ + 
Sbjct:   467 LIHGYSTQLKMENALEILDVMLDNGVDPDVYTYNSLLNGLCKTSKFEDVMETYKTMVEKG 526

Query:   551 ISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKAD 610
              +PN  ++ IL+   C    + EA  L  EM  K + P  V+  T+I G+C++GD   A 
Sbjct:   527 CAPNLFTFNILLESLCRYRKLDEALGLLEEMKNKSVNPDAVTFGTLIDGFCKNGDLDGAY 586

Query:   611 EFLSKMVSE-GVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTG 669
                 KM     V   + +YN +I+ F  + N+  A  L  +M ++ L PD  TY +++ G
Sbjct:   587 TLFRKMEEAYKVSSSTPTYNIIIHAFTEKLNVTMAEKLFQEMVDRCLGPDGYTYRLMVDG 646

Query:   670 FCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPD 729
             FC+ G ++     L  M+E G  P  +T   +IN    ++ + EA      M+Q+G VP+
Sbjct:   647 FCKTGNVNLGYKFLLEMMENGFIPSLTTLGRVINCLCVEDRVYEAAGIIHRMVQKGLVPE 706

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 843 (301.8 bits), Expect = 3.4e-84, P = 3.4e-84
 Identities = 189/626 (30%), Positives = 328/626 (52%)

Query:   109 LNFPNVKHSSMSLSAM---IHFLVRGRRISDAQALILRMVRKSGVSRLE--IVDSFVSTY 163
             LN+ N  H   +L      +H L + +    AQ L   +  K+        +  S   TY
Sbjct:    69 LNWAN-PHQFFTLRCKCITLHILTKFKLYKTAQILAEDVAAKTLDDEYASLVFKSLQETY 127

Query:   164 SPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGW-VD 222
               C S S +FDLV+++Y +   + +   +  L +  G    + + N++L   ++    + 
Sbjct:   128 DLCYSTSSVFDLVVKSYSRLSLIDKALSIVHLAQAHGFMPGVLSYNAVLDATIRSKRNIS 187

Query:   223 LAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLI 282
              A  V+ E++ S +  NV+T NI++   C    ID A     +ME KG  P+ VTYNTLI
Sbjct:   188 FAENVFKEMLESQVSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLI 247

Query:   283 NAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLS 342
             + YC+   +++ F+L+ SM+ KGL+P + +YN +INGLC++GR      VL EM + G S
Sbjct:   248 DGYCKLRKIDDGFKLLRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNRRGYS 307

Query:   343 PDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMY 402
              D  TYNTL+   C++ N  +A  +  EM R G+ P ++++++LI    + G ++RA+ +
Sbjct:   308 LDEVTYNTLIKGYCKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEF 367

Query:   403 FREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCR 462
               +M+  GL P+   YT +++G+ + G++ EA ++  EM + G    VVTYN ++NG C 
Sbjct:   368 LDQMRVRGLCPNERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCV 427

Query:   463 AKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVT 522
                + +A  +  +M E+G+ PD  +++T++ G C+  ++++AL +   M +K IKPD +T
Sbjct:   428 TGKMEDAIAVLEDMKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTIT 487

Query:   523 YNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMV 582
             Y++LI GFC+    ++A  L+ +M+   + P+  +Y  LIN YC  G + +A +L  EMV
Sbjct:   488 YSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEKALQLHNEMV 547

Query:   583 GKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLIN--------- 633
              KG+ P +V+ + +I G  +     +A   L K+  E   P  ++Y+TLI          
Sbjct:   548 EKGVLPDVVTYSVLINGLNKQSRTREAKRLLLKLFYEESVPSDVTYHTLIENCSNIEFKS 607

Query:   634 ------GFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMI 687
                   GF  +  M +A  +   M  +   PD   YN+++ G CR G +  +  +   M+
Sbjct:   608 VVSLIKGFCMKGMMTEADQVFESMLGKNHKPDGTAYNIMIHGHCRAGDIRKAYTLYKEMV 667

Query:   688 EKGLNPDRSTYTTLINGHVSQNNLKE 713
             + G      T   L+     +  + E
Sbjct:   668 KSGFLLHTVTVIALVKALHKEGKVNE 693

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

TAIR|locus:2195047 AT1G12620 [Arabidopsis thaliana (taxid:3702)]

 Score = 841 (301.1 bits), Expect = 5.6e-84, P = 5.6e-84
 Identities = 166/508 (32%), Positives = 290/508 (57%)

Query:   222 DLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTL 281
             DL  ++  ++   GI  N+YTL+IM+N  C+  K+  A   + ++ + G  PDTVT++TL
Sbjct:    89 DLVLDLCKQMELKGIAHNLYTLSIMINCCCRCRKLSLAFSAMGKIIKLGYEPDTVTFSTL 148

Query:   282 INAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGL 341
             IN  C EG + EA +L++ M   G KP + T N+L+NGLC  G+   A  ++D M++ G 
Sbjct:   149 INGLCLEGRVSEALELVDRMVEMGHKPTLITLNALVNGLCLNGKVSDAVLLIDRMVETGF 208

Query:   342 SPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALM 401
              P+  TY  +L   C+    + A E+  +M  R +  D V +S +I    ++G LD A  
Sbjct:   209 QPNEVTYGPVLKVMCKSGQTALAMELLRKMEERKIKLDAVKYSIIIDGLCKDGSLDNAFN 268

Query:   402 YFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLC 461
              F EM+  G   D ++YT +I G+C  G   +  K+  +M+++    DVV ++ +++   
Sbjct:   269 LFNEMEIKGFKADIIIYTTLIRGFCYAGRWDDGAKLLRDMIKRKITPDVVAFSALIDCFV 328

Query:   462 RAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIV 521
             +   L EA++L  EM++RG+ PD  T+T+LI G CK+  ++KA ++ D+M  K   P+I 
Sbjct:   329 KEGKLREAEELHKEMIQRGISPDTVTYTSLIDGFCKENQLDKANHMLDLMVSKGCGPNIR 388

Query:   522 TYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEM 581
             T+N LI+G+CK   ++   +L+  M  R +  + ++Y  LI G+C +G +  A  L+ EM
Sbjct:   389 TFNILINGYCKANLIDDGLELFRKMSLRGVVADTVTYNTLIQGFCELGKLEVAKELFQEM 448

Query:   582 VGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENM 641
             V + ++P +VS   ++ G C +G+  KA E   K+    ++ D   YN +I+G      +
Sbjct:   449 VSRRVRPDIVSYKILLDGLCDNGEPEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKV 508

Query:   642 DKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTL 701
             D A+ L   +  +G+ PDV TYN+++ G C++G + +++L+  +M E G +P+  TY  L
Sbjct:   509 DDAWDLFCSLPLKGVKPDVKTYNIMIGGLCKKGSLSEADLLFRKMEEDGHSPNGCTYNIL 568

Query:   702 INGHVSQNNLKEAFRFHDEMLQRGFVPD 729
             I  H+ + +  ++ +  +E+ + GF  D
Sbjct:   569 IRAHLGEGDATKSAKLIEEIKRCGFSVD 596

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 837 (299.7 bits), Expect = 1.5e-83, P = 1.5e-83
 Identities = 180/614 (29%), Positives = 332/614 (54%)

Query:   124 MIHFLVRGRRISDAQALILRMVRKSGVSRLEIVD-----SFVST--YSPCGSNSLIFDLV 176
             M+  ++R R  S     +   + ++G  R+ +++     SF     +S     +L +   
Sbjct:     1 MVKLMIR-RLSSQVSKFVQPRLLETGTLRIALINCPNELSFCCERGFSAFSDRNLSYRER 59

Query:   177 IRTYVQARKLREGSEVFR-LLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSG 235
             +R+ +   K  +  ++FR ++ ++ +   I+  + L   + K    DL   +  ++   G
Sbjct:    60 LRSGLVDIKADDAIDLFRDMIHSRPLPTVIDF-SRLFSAIAKTKQYDLVLALCKQMELKG 118

Query:   236 IELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAF 295
             I  N+YTL+IM+N  C+  K+  A   + ++ + G  P+T+T++TLIN  C EG + EA 
Sbjct:   119 IAHNLYTLSIMINCFCRCRKLCLAFSAMGKIIKLGYEPNTITFSTLINGLCLEGRVSEAL 178

Query:   296 QLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVES 355
             +L++ M   G KP + T N+L+NGLC  G+   A  ++D+M++ G  P+  TY  +L   
Sbjct:   179 ELVDRMVEMGHKPDLITINTLVNGLCLSGKEAEAMLLIDKMVEYGCQPNAVTYGPVLNVM 238

Query:   356 CRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDN 415
             C+    + A E+  +M  R +  D V +S +I    ++G LD A   F EM+  G+  + 
Sbjct:   239 CKSGQTALAMELLRKMEERNIKLDAVKYSIIIDGLCKHGSLDNAFNLFNEMEMKGITTNI 298

Query:   416 VLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNE 475
             + Y I+I G+C  G   +  K+  +M+++    +VVT++ +++   +   L EA++L  E
Sbjct:   299 ITYNILIGGFCNAGRWDDGAKLLRDMIKRKINPNVVTFSVLIDSFVKEGKLREAEELHKE 358

Query:   476 MLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGE 535
             M+ RG+ PD  T+T+LI G CK+ +++KA  + D+M  K   P+I T+N LI+G+CK   
Sbjct:   359 MIHRGIAPDTITYTSLIDGFCKENHLDKANQMVDLMVSKGCDPNIRTFNILINGYCKANR 418

Query:   536 MEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNT 595
             ++   +L+  M  R +  + ++Y  LI G+C +G +  A  L+ EMV + + P +V+   
Sbjct:   419 IDDGLELFRKMSLRGVVADTVTYNTLIQGFCELGKLNVAKELFQEMVSRKVPPNIVTYKI 478

Query:   596 IIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQG 655
             ++ G C +G++ KA E   K+    ++ D   YN +I+G      +D A+ L   +  +G
Sbjct:   479 LLDGLCDNGESEKALEIFEKIEKSKMELDIGIYNIIIHGMCNASKVDDAWDLFCSLPLKG 538

Query:   656 LVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAF 715
             + P V TYN+++ G C++G + ++EL+  +M E G  PD  TY  LI  H+   +  ++ 
Sbjct:   539 VKPGVKTYNIMIGGLCKKGPLSEAELLFRKMEEDGHAPDGWTYNILIRAHLGDGDATKSV 598

Query:   716 RFHDEMLQRGFVPD 729
             +  +E+ + GF  D
Sbjct:   599 KLIEELKRCGFSVD 612

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2024537 AT1G64100 [Arabidopsis thaliana (taxid:3702)]

 Score = 816 (292.3 bits), Expect = 2.5e-81, P = 2.5e-81
 Identities = 171/554 (30%), Positives = 302/554 (54%)

Query:   195 LLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDH 254
             ++R++    +++ CN ++G  V++   D+A  +Y ++    I LN+Y+ NI++   C  H
Sbjct:    97 MVRSRPFYTAVD-CNKVIGVFVRMNRPDVAISLYRKMEIRRIPLNIYSFNILIKCFCDCH 155

Query:   255 KIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCRE----------------GFLEEAFQLM 298
             K+  +     ++ + G  PD VT+NTL++  C E                GFLE A  L 
Sbjct:   156 KLSFSLSTFGKLTKLGFQPDVVTFNTLLHGLCLEDRISEALALFGYMVETGFLE-AVALF 214

Query:   299 NSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRK 358
             + M   GL P V T+N+LINGLC +GR   A  ++++M+  GL  D  TY T++   C+ 
Sbjct:   215 DQMVEIGLTPVVITFNTLINGLCLEGRVLEAAALVNKMVGKGLHIDVVTYGTIVNGMCKM 274

Query:   359 ENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLY 418
              +   A  +  +M    + PD+V +S +I    ++G    A   F EM   G+ P+   Y
Sbjct:   275 GDTKSALNLLSKMEETHIKPDVVIYSAIIDRLCKDGHHSDAQYLFSEMLEKGIAPNVFTY 334

Query:   419 TIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLE 478
               +I+G+C  G   +A ++  +M+E+    DV+T+N +++   +   L EA+ L +EML 
Sbjct:   335 NCMIDGFCSFGRWSDAQRLLRDMIEREINPDVLTFNALISASVKEGKLFEAEKLCDEMLH 394

Query:   479 RGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEK 538
             R +FPD  T+ ++I+G CK    + A ++FD+M      PD+VT+NT+ID +C+   +++
Sbjct:   395 RCIFPDTVTYNSMIYGFCKHNRFDDAKHMFDLMAS----PDVVTFNTIIDVYCRAKRVDE 450

Query:   539 ANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIK 598
               +L  ++  R +  N  +Y  LI+G+C + ++  A  L+ EM+  G+ P  ++CN ++ 
Sbjct:   451 GMQLLREISRRGLVANTTTYNTLIHGFCEVDNLNAAQDLFQEMISHGVCPDTITCNILLY 510

Query:   599 GYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVP 658
             G+C +    +A E    +    +D D+++YN +I+G  +   +D+A+ L   +   G+ P
Sbjct:   511 GFCENEKLEEALELFEVIQMSKIDLDTVAYNIIIHGMCKGSKVDEAWDLFCSLPIHGVEP 570

Query:   659 DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFH 718
             DV TYNV+++GFC +  + D+ ++  +M + G  PD STY TLI G +    + ++    
Sbjct:   571 DVQTYNVMISGFCGKSAISDANVLFHKMKDNGHEPDNSTYNTLIRGCLKAGEIDKSIELI 630

Query:   719 DEMLQRGFVPDDAF 732
              EM   GF   DAF
Sbjct:   631 SEMRSNGF-SGDAF 643

GO:0003677 "DNA binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

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

 Score = 813 (291.2 bits), Expect = 5.2e-81, P = 5.2e-81
 Identities = 174/614 (28%), Positives = 321/614 (52%)

Query:   124 MIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDS-----FVST--YSPCGSNSLIFDLV 176
             M+  ++R R  S A   +   + ++G  R+ +++      F     +S     +L +   
Sbjct:     1 MVRMMIR-RLSSQASRFVQPRLLETGTLRIALINCPNELLFCCERGFSTFSDRNLSYRDK 59

Query:   177 IRTYVQARKLREGSEVFR-LLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSG 235
             + + +   K  +  ++FR +++++ +   I+  N L   + K    +L   +  ++   G
Sbjct:    60 LSSGLVGIKADDAVDLFRDMIQSRPLPTVIDF-NRLFSAIAKTKQYELVLALCKQMESKG 118

Query:   236 IELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAF 295
             I  ++YTL+IM+N  C+  K+  A   + ++ + G  PDTV +NTL+N  C E  + EA 
Sbjct:   119 IAHSIYTLSIMINCFCRCRKLSYAFSTMGKIMKLGYEPDTVIFNTLLNGLCLECRVSEAL 178

Query:   296 QLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVES 355
             +L++ M   G KP + T N+L+NGLC  G+   A  ++D M++ G  P+  TY  +L   
Sbjct:   179 ELVDRMVEMGHKPTLITLNTLVNGLCLNGKVSDAVVLIDRMVETGFQPNEVTYGPVLNVM 238

Query:   356 CRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDN 415
             C+    + A E+  +M  R +  D V +S +I    ++G LD A   F EM+  G   D 
Sbjct:   239 CKSGQTALAMELLRKMEERNIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADI 298

Query:   416 VLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNE 475
             + Y  +I G+C  G   +  K+  +M+++    +VVT++ +++   +   L EAD L  E
Sbjct:   299 ITYNTLIGGFCNAGRWDDGAKLLRDMIKRKISPNVVTFSVLIDSFVKEGKLREADQLLKE 358

Query:   476 MLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGE 535
             M++RG+ P+  T+ +LI G CK+  + +A+ + D+M  K   PDI+T+N LI+G+CK   
Sbjct:   359 MMQRGIAPNTITYNSLIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILINGYCKANR 418

Query:   536 MEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNT 595
             ++   +L+ +M  R +  N ++Y  L+ G+C  G +  A +L+ EMV + ++P +VS   
Sbjct:   419 IDDGLELFREMSLRGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRVRPDIVSYKI 478

Query:   596 IIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQG 655
             ++ G C +G+  KA E   K+    ++ D   Y  +I+G      +D A+ L   +  +G
Sbjct:   479 LLDGLCDNGELEKALEIFGKIEKSKMELDIGIYMIIIHGMCNASKVDDAWDLFCSLPLKG 538

Query:   656 LVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAF 715
             +  D   YN++++  CR+  +  ++++  +M E+G  PD  TY  LI  H+  ++   A 
Sbjct:   539 VKLDARAYNIMISELCRKDSLSKADILFRKMTEEGHAPDELTYNILIRAHLGDDDATTAA 598

Query:   716 RFHDEMLQRGFVPD 729
                +EM   GF  D
Sbjct:   599 ELIEEMKSSGFPAD 612

GO:0005739 "mitochondrion" evidence=ISM

---

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)
Q9LFC5	PP360_ARATH	No assigned EC number	0.6268	0.9221	0.9259	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: grail3.0053016101 hypothetical protein (610 aa) (Populus trichocarpa)

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	732
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-40
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-38
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-35
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-35
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-33
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-31
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-30
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-27
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-27
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-24
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-22
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-20
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-20
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-19
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-19
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-18
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-17
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-16
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-15
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-12
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-11
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-11
pfam12854	34	pfam12854, PPR_1, PPR repeat	8e-10
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-09
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-09
pfam12854	34	pfam12854, PPR_1, PPR repeat	8e-09
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-08
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-07
pfam01535	31	pfam01535, PPR, PPR repeat	4e-07
pfam01535	31	pfam01535, PPR, PPR repeat	4e-07
pfam01535	31	pfam01535, PPR, PPR repeat	6e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	9e-07
pfam01535	31	pfam01535, PPR, PPR repeat	1e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-06
pfam01535	31	pfam01535, PPR, PPR repeat	4e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	6e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	9e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-05
pfam01535	31	pfam01535, PPR, PPR repeat	3e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	4e-05
pfam01535	31	pfam01535, PPR, PPR repeat	5e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-05
pfam01535	31	pfam01535, PPR, PPR repeat	1e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	1e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	1e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	1e-04
pfam01535	31	pfam01535, PPR, PPR repeat	2e-04
pfam01535	31	pfam01535, PPR, PPR repeat	2e-04
pfam01535	31	pfam01535, PPR, PPR repeat	3e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	4e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	7e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	8e-04
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	8e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.002
pfam01535	31	pfam01535, PPR, PPR repeat	0.004
pfam01535	31	pfam01535, PPR, PPR repeat	0.004

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

 Score =  159 bits (403), Expect = 3e-40
 Identities = 110/432 (25%), Positives = 212/432 (49%), Gaps = 14/432 (3%)

Query: 248 NALCKDHKIDSAKMFLCEMEQKGVYP-DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGL 306
           N L +D +I      L +ME++G+   D + +     A  ++  ++EAF+    +     
Sbjct: 378 NRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLI----R 433

Query: 307 KPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAE- 365
            P + T+N L++        D A  VL  + + GL  D   Y TL + +C K    +A  
Sbjct: 434 NPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTL-ISTCAKSGKVDAMF 492

Query: 366 EIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGY 425
           E+F EM   GV  ++ +F  LI   +R GQ+ +A   +  M+S  + PD V++  +I+  
Sbjct: 493 EVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISAC 552

Query: 426 CRNGFVLEALKMRDEMLEKGCVM--DVVTYNTILNGLCRAKMLTEADDLFNEMLERGV-- 481
            ++G V  A  +  EM  +   +  D +T   ++     A  +  A +++  + E  +  
Sbjct: 553 GQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG 612

Query: 482 FPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANK 541
            P+ YT    ++   + G+ + AL+++D M +K +KPD V ++ L+D     G+++KA +
Sbjct: 613 TPEVYTIA--VNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFE 670

Query: 542 LWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYC 601
           +  D   + I    +SY  L+    +  +  +A  L+ ++    ++PT+ + N +I   C
Sbjct: 671 ILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALC 730

Query: 602 RSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVI 661
                 KA E LS+M   G+ P++I+Y+ L+    R+++ D    L+S+ +  G+ P+++
Sbjct: 731 EGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLV 790

Query: 662 TYNVILTGFCRQ 673
               I TG C +
Sbjct: 791 MCRCI-TGLCLR 801

Length = 1060

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

 Score =  152 bits (386), Expect = 3e-38
 Identities = 119/475 (25%), Positives = 215/475 (45%), Gaps = 22/475 (4%)

Query: 191 EVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNAL 250
            V RL++  G+        +L+    K G VD   EV+ E+V +G+E NV+T   +++  
Sbjct: 458 RVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGC 517

Query: 251 CKDHKIDSAKMFLCE--MEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSG--KGL 306
            +  ++  AK F     M  K V PD V +N LI+A  + G ++ AF ++  M      +
Sbjct: 518 ARAGQV--AKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPI 575

Query: 307 KPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESC-RKENMSEAE 365
            P   T  +L+      G+ DRAKEV   + +  +      Y T+ V SC +K +   A 
Sbjct: 576 DPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVY-TIAVNSCSQKGDWDFAL 634

Query: 366 EIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGY 425
            I+ +M ++GV PD V FS L+ +    G LD+A    ++ +  G+    V Y+ ++   
Sbjct: 635 SIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGAC 694

Query: 426 CRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDF 485
                  +AL++ +++        V T N ++  LC    L +A ++ +EM   G+ P+ 
Sbjct: 695 SNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNT 754

Query: 486 YTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWAD 545
            T++ L+    +  + +  L+L     +  IKP++V    +  G C     EKA  L   
Sbjct: 755 ITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLCL-RRFEKACALGEP 812

Query: 546 MISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGD 605
           ++S       I      N + S      A  ++ E +  G  PT+   + ++       D
Sbjct: 813 VVSFDSGRPQIE-----NKWTSW-----ALMVYRETISAGTLPTMEVLSQVLGCLQLPHD 862

Query: 606 ASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDV 660
           A+  +  +  +          + +TL++GF   E   +AF+L+ +  + G+VP V
Sbjct: 863 ATLRNRLIENLGISADSQKQSNLSTLVDGF--GEYDPRAFSLLEEAASLGVVPSV 915

Length = 1060

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

 Score =  143 bits (363), Expect = 3e-35
 Identities = 113/437 (25%), Positives = 191/437 (43%), Gaps = 48/437 (10%)

Query: 300 SMSGKGLKPG--VFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCR 357
           +    G+        Y    N L + GR     ++L++M + GL      Y+    ++C+
Sbjct: 358 AAYNGGVSGKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACK 417

Query: 358 KENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVL 417
           K+   +    F ++ R    P + +F+ L+ + + +  +D AL   R ++ AGL  D  L
Sbjct: 418 KQRAVKEAFRFAKLIRN---PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKL 474

Query: 418 YTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEML 477
           YT +I+   ++G V       D M E                            +F+EM+
Sbjct: 475 YTTLISTCAKSGKV-------DAMFE----------------------------VFHEMV 499

Query: 478 ERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEME 537
             GV  + +TF  LI G  + G + KA   + IM  K++KPD V +N LI    + G ++
Sbjct: 500 NAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVD 559

Query: 538 KANKLWADMI--SRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGK-GIKPTLVSCN 594
           +A  + A+M   +  I P++I+ G L+    + G V  A  + Y+M+ +  IK T     
Sbjct: 560 RAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEV-YQMIHEYNIKGTP-EVY 617

Query: 595 TIIKGYC-RSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMEN 653
           TI    C + GD   A      M  +GV PD + ++ L++      ++DKAF ++     
Sbjct: 618 TIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARK 677

Query: 654 QGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEK-GLNPDRSTYTTLINGHVSQNNLK 712
           QG+    ++Y+  L G C   +     L L+  I+   L P  ST   LI      N L 
Sbjct: 678 QGIKLGTVSYSS-LMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLP 736

Query: 713 EAFRFHDEMLQRGFVPD 729
           +A     EM + G  P+
Sbjct: 737 KALEVLSEMKRLGLCPN 753

Length = 1060

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

 Score =  143 bits (362), Expect = 3e-35
 Identities = 94/365 (25%), Positives = 170/365 (46%), Gaps = 9/365 (2%)

Query: 242 TLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSM 301
           T N++++       ID A   L  +++ G+  D   Y TLI+   + G ++  F++ + M
Sbjct: 439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEM 498

Query: 302 SGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENM 361
              G++  V T+ +LI+G  + G+  +A      M    + PD   +N L+    +   +
Sbjct: 499 VNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAV 558

Query: 362 SEAEEIFCEMSRRG--VAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYT 419
             A ++  EM      + PD ++   L+   +  GQ+DRA   ++ +    +     +YT
Sbjct: 559 DRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYT 618

Query: 420 IIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLER 479
           I +N   + G    AL + D+M +KG   D V ++ +++    A  L +A ++  +  ++
Sbjct: 619 IAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQ 678

Query: 480 GVFPDFYTFTTLIHGHCKDGNMNKALNLF-DIMTQKSIK--PDIVTYNTLIDGFCKVGEM 536
           G+     ++++L+       N  KAL L+ DI   KSIK  P + T N LI   C+  ++
Sbjct: 679 GIKLGTVSYSSLMGACSNAKNWKKALELYEDI---KSIKLRPTVSTMNALITALCEGNQL 735

Query: 537 EKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTI 596
            KA ++ ++M    + PN I+Y IL+              L  +    GIKP LV C  I
Sbjct: 736 PKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCI 795

Query: 597 IKGYC 601
             G C
Sbjct: 796 T-GLC 799

Length = 1060

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

 Score =  138 bits (348), Expect = 1e-33
 Identities = 114/489 (23%), Positives = 227/489 (46%), Gaps = 24/489 (4%)

Query: 219 GWVDLA--REVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTV 276
           G  DLA  REV+A VVR G EL+V  +N ++    K   + SA++    M ++    D +
Sbjct: 199 GIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR----DCI 254

Query: 277 TYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEM 336
           ++N +I+ Y   G   E  +L  +M    + P + T  S+I+     G     +E+   +
Sbjct: 255 SWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYV 314

Query: 337 LQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQL 396
           ++ G + D +  N+L+       +  EAE++F  M  +    D VS++ +I  + +NG  
Sbjct: 315 VKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLP 370

Query: 397 DRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTI 456
           D+AL  +  M+   + PD +    +++     G +   +K+ +    KG +  VV  N +
Sbjct: 371 DKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANAL 430

Query: 457 LNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSI 516
           +    + K + +A ++F+ + E+ V     ++T++I G   +    +AL  F  M    +
Sbjct: 431 IEMYSKCKCIDKALEVFHNIPEKDVI----SWTSIIAGLRLNNRCFEALIFFRQMLLT-L 485

Query: 517 KPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFR 576
           KP+ VT    +    ++G +    ++ A ++   I  +      L++ Y   G +  A  
Sbjct: 486 KPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYA-- 543

Query: 577 LWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFV 636
            W +      +  +VS N ++ GY   G  S A E  ++MV  GV+PD +++ +L+    
Sbjct: 544 -WNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS 600

Query: 637 REENMDKAFALVSKMENQ-GLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDR 695
           R   + +       ME +  + P++  Y  ++    R G++ ++   + +M    + PD 
Sbjct: 601 RSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDP 657

Query: 696 STYTTLING 704
           + +  L+N 
Sbjct: 658 AVWGALLNA 666

Length = 857

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

 Score =  129 bits (327), Expect = 3e-31
 Identities = 113/515 (21%), Positives = 216/515 (41%), Gaps = 57/515 (11%)

Query: 215 LVKIGWVDLAREVYAEVVRSG--IELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVY 272
           LV  G    A E++ E++ +G    L   T + +V A      I   K     +E  G  
Sbjct: 97  LVACGRHREALELF-EILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFE 155

Query: 273 PDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEV 332
           PD    N ++  + + G L +A +L + M  + L     ++ ++I GL   G    A  +
Sbjct: 156 PDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNL----ASWGTIIGGLVDAGNYREAFAL 211

Query: 333 LDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSR 392
             EM + G   +  T+  +L  S    +    +++ C + + GV  D      LI ++S+
Sbjct: 212 FREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSK 271

Query: 393 NGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVT 452
            G ++ A   F  M     V  N     ++ GY  +G+  EAL +  EM + G  +D  T
Sbjct: 272 CGDIEDARCVFDGMPEKTTVAWNS----MLAGYALHGYSEEALCLYYEMRDSGVSIDQFT 327

Query: 453 YNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMT 512
           ++ ++    R  +L  A      ++  G   D    T L+  + K G M  A N+FD M 
Sbjct: 328 FSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP 387

Query: 513 QKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVT 572
           +K    +++++N LI G+   G   KA +++  MI+  ++PN++++  +++     G   
Sbjct: 388 RK----NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSE 443

Query: 573 EAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLI 632
           + + +                                  F S   +  + P ++ Y  +I
Sbjct: 444 QGWEI----------------------------------FQSMSENHRIKPRAMHYACMI 469

Query: 633 NGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCR-QGRMHDSELILWRMIEKGL 691
               RE  +D+A+A++ +       P V  +  +LT  CR    +    L   ++   G+
Sbjct: 470 ELLGREGLLDEAYAMIRRAP---FKPTVNMWAALLTA-CRIHKNLELGRLAAEKLY--GM 523

Query: 692 NPDR-STYTTLINGHVSQNNLKEAFRFHDEMLQRG 725
            P++ + Y  L+N + S     EA +  + + ++G
Sbjct: 524 GPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKG 558

Length = 697

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

 Score =  127 bits (321), Expect = 2e-30
 Identities = 112/511 (21%), Positives = 223/511 (43%), Gaps = 57/511 (11%)

Query: 227 VYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYC 286
           V +  + S   L V   N M++   +  ++  A     +M ++ ++    ++N L+  Y 
Sbjct: 108 VCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLF----SWNVLVGGYA 163

Query: 287 REGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTA 346
           + G+ +EA  L + M   G++P V+T+  ++          R +EV   +++ G   D  
Sbjct: 164 KAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVD 223

Query: 347 TYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREM 406
             N L+    +  ++  A  +F  M RR    D +S++ +I  +  NG+    L  F  M
Sbjct: 224 VVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTM 279

Query: 407 KSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKML 466
           +   + PD +  T +I+     G      +M   +++ G  +DV   N+++         
Sbjct: 280 RELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSW 339

Query: 467 TEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTY--- 523
            EA+ +F+ M  +    D  ++T +I G+ K+G  +KAL  + +M Q ++ PD +T    
Sbjct: 340 GEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASV 395

Query: 524 --------------------------------NTLIDGFCKVGEMEKANKLWADMISRKI 551
                                           N LI+ + K   ++KA +++ ++  +  
Sbjct: 396 LSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK-- 453

Query: 552 SPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADE 611
             + IS+  +I G        EA   + +M+   +KP  V+    +    R G      E
Sbjct: 454 --DVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKE 510

Query: 612 FLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFC 671
             + ++  G+  D    N L++ +VR   M+ A+   +  E      DV+++N++LTG+ 
Sbjct: 511 IHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEK-----DVVSWNILLTGYV 565

Query: 672 RQGRMHDSELILWRMIEKGLNPDRSTYTTLI 702
             G+   +  +  RM+E G+NPD  T+ +L+
Sbjct: 566 AHGKGSMAVELFNRMVESGVNPDEVTFISLL 596

Length = 857

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

 Score =  119 bits (299), Expect = 1e-27
 Identities = 96/395 (24%), Positives = 167/395 (42%), Gaps = 49/395 (12%)

Query: 210 SLLGGLVKIGWVDLAREVYAEVVRSGIE--LNVYTLNIMVNALCKDHKIDSAKMFLCEME 267
           +L+      G VD A+EVY  +    I+    VYT  I VN+  +    D A     +M+
Sbjct: 584 ALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYT--IAVNSCSQKGDWDFALSIYDDMK 641

Query: 268 QKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCD 327
           +KGV PD V ++ L++     G L++AF+++     +G+K G  +Y+SL+          
Sbjct: 642 KKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWK 701

Query: 328 RAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLI 387
           +A E+ +++  + L P  +T N L+   C    + +A E+  EM R G+ P+ +++S L+
Sbjct: 702 KALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL 761

Query: 388 GIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCV 447
               R    D  L    + K  G+ P+ V+   I  G C                EK C 
Sbjct: 762 VASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT-GLCL------------RRFEKACA 808

Query: 448 MD--VVTYNT----ILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNM 501
           +   VV++++    I N     K  + A  ++ E +  G  P     + ++       + 
Sbjct: 809 LGEPVVSFDSGRPQIEN-----KWTSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDA 863

Query: 502 NKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGE--------MEKANKLWA-DMISRKIS 552
                L + +   +        +TL+DGF   GE        +E+A  L     +S K S
Sbjct: 864 TLRNRLIENLGISADSQKQSNLSTLVDGF---GEYDPRAFSLLEEAASLGVVPSVSFKKS 920

Query: 553 PNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIK 587
           P      I+I+         E + L    + KG+K
Sbjct: 921 P------IVIDAEELPVFAAEVYLL---TILKGLK 946

Length = 1060

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

 Score =  116 bits (293), Expect = 7e-27
 Identities = 118/547 (21%), Positives = 224/547 (40%), Gaps = 72/547 (13%)

Query: 128 LVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCG---SNSLIFDLVIRT----- 179
           L RGR +         +VR      +++V++ ++ Y  CG   S  L+FD + R      
Sbjct: 203 LARGREVH------AHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISW 256

Query: 180 ------YVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVR 233
                 Y +  +  EG E+F  +R   +   +    S++     +G   L RE++  VV+
Sbjct: 257 NAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVK 316

Query: 234 SGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEE 293
           +G  ++V   N ++           A+     ME K    D V++  +I+ Y + G  ++
Sbjct: 317 TGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDK 372

Query: 294 AFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLV 353
           A +    M    + P   T  S+++     G  D   ++ +   + GL       N L+ 
Sbjct: 373 ALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIE 432

Query: 354 ESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVP 413
              + + + +A E+F  +  +    D++S++++I     N +   AL++FR+M    L P
Sbjct: 433 MYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKP 487

Query: 414 DNVLYTIIINGYCRNGFVLEALKMRDEMLEKG---------------------------- 445
           ++V     ++   R G ++   ++   +L  G                            
Sbjct: 488 NSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF 547

Query: 446 --CVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNK 503
                DVV++N +L G       + A +LFN M+E GV PD  TF +L+    + G + +
Sbjct: 548 NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQ 607

Query: 504 ALNLFDIMTQK-SIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILI 562
            L  F  M +K SI P++  Y  ++D   + G++ +A      M    I+P+   +G L+
Sbjct: 608 GLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPAVWGALL 664

Query: 563 NGYCSMGHVTE----AFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVS 618
           N  C +    E    A +  +E+    +   ++ CN     Y  +G   +       M  
Sbjct: 665 NA-CRIHRHVELGELAAQHIFELDPNSVGYYILLCNL----YADAGKWDEVARVRKTMRE 719

Query: 619 EGVDPDS 625
            G+  D 
Sbjct: 720 NGLTVDP 726

Length = 857

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

 Score =  108 bits (272), Expect = 2e-24
 Identities = 104/453 (22%), Positives = 193/453 (42%), Gaps = 34/453 (7%)

Query: 279 NTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRA-----KEVL 333
           N+ + A C  G LE+A +L+ SM    +      Y +L   LC+  R            L
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFR-LCEWKRAVEEGSRVCSRAL 113

Query: 334 DEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRN 393
                +G+       N +L    R   +  A  +F +M  R    D+ S++ L+G +++ 
Sbjct: 114 SSHPSLGVRLG----NAMLSMFVRFGELVHAWYVFGKMPER----DLFSWNVLVGGYAKA 165

Query: 394 GQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDE----MLEKGCVMD 449
           G  D AL  +  M  AG+ PD   +  ++    R    +  L    E    ++  G  +D
Sbjct: 166 GYFDEALCLYHRMLWAGVRPDVYTFPCVL----RTCGGIPDLARGREVHAHVVRFGFELD 221

Query: 450 VVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFD 509
           V   N ++    +   +  A  +F+ M  R    D  ++  +I G+ ++G   + L LF 
Sbjct: 222 VDVVNALITMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFF 277

Query: 510 IMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMG 569
            M + S+ PD++T  ++I     +G+     ++   ++    + +      LI  Y S+G
Sbjct: 278 TMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLG 337

Query: 570 HVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYN 629
              EA +++  M  K      VS   +I GY ++G   KA E  + M  + V PD I+  
Sbjct: 338 SWGEAEKVFSRMETKDA----VSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIA 393

Query: 630 TLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEK 689
           ++++      ++D    L    E +GL+  V+  N ++  + +   +  +  +   + EK
Sbjct: 394 SVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK 453

Query: 690 GLNPDRSTYTTLINGHVSQNNLKEAFRFHDEML 722
               D  ++T++I G    N   EA  F  +ML
Sbjct: 454 ----DVISWTSIIAGLRLNNRCFEALIFFRQML 482

Length = 857

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

 Score =  101 bits (253), Expect = 4e-22
 Identities = 95/406 (23%), Positives = 186/406 (45%), Gaps = 29/406 (7%)

Query: 176 VIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSG 235
           V+  +V+   L +   +F  +  +    ++ +  +++GGLV  G    A  ++ E+   G
Sbjct: 164 VLLMHVKCGMLIDARRLFDEMPER----NLASWGTIIGGLVDAGNYREAFALFREMWEDG 219

Query: 236 IELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAF 295
            +    T  +M+ A        + +   C + + GV  DT     LI+ Y + G +E+A 
Sbjct: 220 SDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDAR 279

Query: 296 QLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVES 355
            + + M  K        +NS++ G    G  + A  +  EM   G+S D  T++ ++   
Sbjct: 280 CVFDGMPEK----TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIF 335

Query: 356 CRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDN 415
            R   +  A++    + R G   DIV+ + L+ ++S+ G+++ A   F  M    L+  N
Sbjct: 336 SRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWN 395

Query: 416 VLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTE-ADDLFN 474
            L    I GY  +G   +A++M + M+ +G   + VT+  +L+  CR   L+E   ++F 
Sbjct: 396 AL----IAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSA-CRYSGLSEQGWEIFQ 450

Query: 475 EMLE-RGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKV 533
            M E   + P    +  +I    ++G +++A   + ++ +   KP +  +  L+   C++
Sbjct: 451 SMSENHRIKPRAMHYACMIELLGREGLLDEA---YAMIRRAPFKPTVNMWAALLTA-CRI 506

Query: 534 -GEME----KANKLWADMISRKISPNYISYGILINGYCSMGHVTEA 574
              +E     A KL+  M   K++    +Y +L+N Y S G   EA
Sbjct: 507 HKNLELGRLAAEKLYG-MGPEKLN----NYVVLLNLYNSSGRQAEA 547

Length = 697

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

 Score = 85.1 bits (212), Expect = 1e-20
 Identities = 30/50 (60%), Positives = 40/50 (80%)

Query: 273 PDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCK 322
           PD VTYNTLI+ YC++G +EEA +L N M  +G+KP V+TY+ LI+GLCK
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 = 96.5 bits (240), Expect = 2e-20
 Identities = 92/417 (22%), Positives = 177/417 (42%), Gaps = 53/417 (12%)

Query: 314 NSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSR 373
           NS +  LC  G+ ++A ++L+ M ++ +  D   Y  L                 CE  +
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFR--------------LCEW-K 99

Query: 374 RGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLE 433
           R V       S             RAL       S G+   N + ++ +    R G ++ 
Sbjct: 100 RAVEEGSRVCS-------------RAL---SSHPSLGVRLGNAMLSMFV----RFGELVH 139

Query: 434 ALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIH 493
           A  +  +M E+    D+ ++N ++ G  +A    EA  L++ ML  GV PD YTF  ++ 
Sbjct: 140 AWYVFGKMPER----DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLR 195

Query: 494 --GHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKI 551
             G   D    + ++   +     +  D+V  N LI  + K G++  A  ++  M  R  
Sbjct: 196 TCGGIPDLARGREVHAHVVRFGFELDVDVV--NALITMYVKCGDVVSARLVFDRMPRRDC 253

Query: 552 SPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADE 611
               IS+  +I+GY   G   E   L++ M    + P L++  ++I      GD     E
Sbjct: 254 ----ISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGRE 309

Query: 612 FLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFC 671
               +V  G   D    N+LI  ++   +  +A  + S+ME +    D +++  +++G+ 
Sbjct: 310 MHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYE 365

Query: 672 RQGRMHDSELILWRMIE-KGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFV 727
           + G + D  L  + ++E   ++PD  T  ++++      +L    + H+   ++G +
Sbjct: 366 KNG-LPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLI 421

Length = 857

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

 Score = 81.3 bits (202), Expect = 3e-19
 Identities = 26/49 (53%), Positives = 36/49 (73%)

Query: 449 DVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCK 497
           DVVTYNT+++G C+   + EA  LFNEM +RG+ P+ YT++ LI G CK
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 = 80.9 bits (201), Expect = 3e-19
 Identities = 29/49 (59%), Positives = 38/49 (77%)

Query: 518 PDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYC 566
           PD+VTYNTLIDG+CK G++E+A KL+ +M  R I PN  +Y ILI+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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 89.9 bits (223), Expect = 2e-18
 Identities = 78/322 (24%), Positives = 141/322 (43%), Gaps = 23/322 (7%)

Query: 162 TYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWV 221
           T+  C         +I  Y +   + +   VF  +  K    +  A NS+L G    G+ 
Sbjct: 259 TFVSCA--------LIDMYSKCGDIEDARCVFDGMPEK----TTVAWNSMLAGYALHGYS 306

Query: 222 DLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTL 281
           + A  +Y E+  SG+ ++ +T +IM+    +   ++ AK     + + G   D V    L
Sbjct: 307 EEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTAL 366

Query: 282 INAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGL 341
           ++ Y + G +E+A  + + M  K L     ++N+LI G    GR  +A E+ + M+  G+
Sbjct: 367 VDLYSKWGRMEDARNVFDRMPRKNL----ISWNALIAGYGNHGRGTKAVEMFERMIAEGV 422

Query: 342 SPDTATYNTLLVESCRKENMSE-AEEIFCEMSR-RGVAPDIVSFSTLIGIFSRNGQLDRA 399
           +P+  T+  +L  +CR   +SE   EIF  MS    + P  + ++ +I +  R G LD A
Sbjct: 423 APNHVTFLAVL-SACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA 481

Query: 400 LMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNG 459
               R    A   P   ++  ++   CR    LE  ++  E L       +  Y  +LN 
Sbjct: 482 YAMIRR---APFKPTVNMWAALLTA-CRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNL 537

Query: 460 LCRAKMLTEADDLFNEMLERGV 481
              +    EA  +   +  +G+
Sbjct: 538 YNSSGRQAEAAKVVETLKRKGL 559

Length = 697

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

 Score = 76.3 bits (189), Expect = 2e-17
 Identities = 26/50 (52%), Positives = 36/50 (72%)

Query: 483 PDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCK 532
           PD  T+ TLI G+CK G + +AL LF+ M ++ IKP++ 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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 84.2 bits (208), Expect = 1e-16
 Identities = 67/302 (22%), Positives = 127/302 (42%), Gaps = 41/302 (13%)

Query: 459 GLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKD--GNMNKALNLFDIM----- 511
           G+   +   E  D +N +L  G   D           C D   +M K   L D+      
Sbjct: 363 GVSGKRKSPEYIDAYNRLLRDGRIKD-----------CIDLLEDMEKR-GLLDMDKIYHA 410

Query: 512 -------TQKSIK-----------PDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISP 553
                   Q+++K           P + T+N L+       +++ A ++   +    +  
Sbjct: 411 KFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKA 470

Query: 554 NYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFL 613
           +   Y  LI+     G V   F +++EMV  G++  + +   +I G  R+G  +KA    
Sbjct: 471 DCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAY 530

Query: 614 SKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKM--ENQGLVPDVITYNVILTGFC 671
             M S+ V PD + +N LI+   +   +D+AF ++++M  E   + PD IT   ++    
Sbjct: 531 GIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACA 590

Query: 672 RQGRMHDSELILWRMIEK-GLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDD 730
             G++ D    +++MI +  +      YT  +N    + +   A   +D+M ++G  PD+
Sbjct: 591 NAGQV-DRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDE 649

Query: 731 AF 732
            F
Sbjct: 650 VF 651

Length = 1060

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

 Score = 72.4 bits (179), Expect = 3e-16
 Identities = 23/50 (46%), Positives = 36/50 (72%)

Query: 413 PDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCR 462
           PD V Y  +I+GYC+ G V EALK+ +EM ++G   +V TY+ +++GLC+
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 = 72.4 bits (179), Expect = 4e-16
 Identities = 18/50 (36%), Positives = 38/50 (76%)

Query: 623 PDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCR 672
           PD ++YNTLI+G+ ++  +++A  L ++M+ +G+ P+V TY++++ G C+
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 = 70.5 bits (174), Expect = 2e-15
 Identities = 20/45 (44%), Positives = 32/45 (71%)

Query: 308 PGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLL 352
           P V TYN+LI+G CKKG+ + A ++ +EM + G+ P+  TY+ L+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILI 45

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 = 67.4 bits (166), Expect = 2e-14
 Identities = 20/50 (40%), Positives = 35/50 (70%)

Query: 378 PDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCR 427
           PD+V+++TLI  + + G+++ AL  F EMK  G+ P+   Y+I+I+G C+
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 = 67.0 bits (165), Expect = 3e-14
 Identities = 17/50 (34%), Positives = 31/50 (62%)

Query: 588 PTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVR 637
           P +V+ NT+I GYC+ G   +A +  ++M   G+ P+  +Y+ 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 66.7 bits (164), Expect = 4e-14
 Identities = 16/49 (32%), Positives = 30/49 (61%)

Query: 239 NVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCR 287
           +V T N +++  CK  K++ A     EM+++G+ P+  TY+ LI+  C+
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 66.3 bits (163), Expect = 5e-14
 Identities = 21/50 (42%), Positives = 33/50 (66%)

Query: 553 PNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCR 602
           P+ ++Y  LI+GYC  G V EA +L+ EM  +GIKP + + + +I G C+
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 = 60.5 bits (148), Expect = 6e-12
 Identities = 17/48 (35%), Positives = 34/48 (70%)

Query: 658 PDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGH 705
           PDV+TYN ++ G+C++G++ ++  +   M ++G+ P+  TY+ LI+G 
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 59.3 bits (145), Expect = 1e-11
 Identities = 18/34 (52%), Positives = 25/34 (73%)

Query: 269 KGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMS 302
           KG+ PD VTYNTLI+  CR G ++EA +L++ M 
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 = 59.3 bits (145), Expect = 1e-11
 Identities = 23/33 (69%), Positives = 27/33 (81%)

Query: 304 KGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEM 336
           KGLKP V TYN+LI+GLC+ GR D A E+LDEM
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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 58.2 bits (142), Expect = 4e-11
 Identities = 20/45 (44%), Positives = 31/45 (68%)

Query: 343 PDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLI 387
           PD  TYNTL+   C+K  + EA ++F EM +RG+ P++ ++S LI
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILI 45

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

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

 Score = 53.9 bits (131), Expect = 8e-10
 Identities = 19/33 (57%), Positives = 25/33 (75%)

Query: 444 KGCVMDVVTYNTILNGLCRAKMLTEADDLFNEM 476
           KG   DVVTYNT+++GLCRA  + EA +L +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|205109 pfam12854, PPR_1, PPR repeat

 Score = 52.7 bits (128), Expect = 2e-09
 Identities = 14/33 (42%), Positives = 22/33 (66%)

Query: 479 RGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIM 511
           +G+ PD  T+ TLI G C+ G +++A+ L 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 = 52.4 bits (127), Expect = 3e-09
 Identities = 18/33 (54%), Positives = 26/33 (78%)

Query: 514 KSIKPDIVTYNTLIDGFCKVGEMEKANKLWADM 546
           K +KPD+VTYNTLIDG C+ G +++A +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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 51.6 bits (125), Expect = 7e-09
 Identities = 18/46 (39%), Positives = 31/46 (67%)

Query: 207 ACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCK 252
             N+L+ G  K G V+ A +++ E+ + GI+ NVYT +I+++ LCK
Sbjct: 5   TYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 51.2 bits (124), Expect = 8e-09
 Identities = 17/32 (53%), Positives = 22/32 (68%)

Query: 410 GLVPDNVLYTIIINGYCRNGFVLEALKMRDEM 441
           GL PD V Y  +I+G CR G V EA+++ DEM
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 50.9 bits (123), Expect = 1e-08
 Identities = 20/34 (58%), Positives = 27/34 (79%)

Query: 451 VTYNTILNGLCRAKMLTEADDLFNEMLERGVFPD 484
           VTYNT+++GLC+A  + EA +LF EM ERG+ PD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 49.3 bits (119), Expect = 5e-08
 Identities = 15/38 (39%), Positives = 24/38 (63%)

Query: 693 PDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDD 730
           PD  TY TLI+G+  +  ++EA +  +EM +RG  P+ 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNV 38

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 = 48.6 bits (117), Expect = 6e-08
 Identities = 19/34 (55%), Positives = 25/34 (73%)

Query: 521 VTYNTLIDGFCKVGEMEKANKLWADMISRKISPN 554
           VTYNTLIDG CK G +E+A +L+ +M  R I P+
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 48.6 bits (117), Expect = 7e-08
 Identities = 18/35 (51%), Positives = 24/35 (68%)

Query: 311 FTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDT 345
            TYN+LI+GLCK GR + A E+  EM + 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 47.7 bits (115), Expect = 1e-07
 Identities = 15/33 (45%), Positives = 23/33 (69%)

Query: 620 GVDPDSISYNTLINGFVREENMDKAFALVSKME 652
           G+ PD ++YNTLI+G  R   +D+A  L+ +ME
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 46.2 bits (111), Expect = 4e-07
 Identities = 16/34 (47%), Positives = 23/34 (67%)

Query: 584 KGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMV 617
           KG+KP +V+ NT+I G CR+G   +A E L +M 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 46.7 bits (112), Expect = 4e-07
 Identities = 17/35 (48%), Positives = 24/35 (68%)

Query: 276 VTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGV 310
           VTYNTLI+  C+ G +EEA +L   M  +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|144943 pfam01535, PPR, PPR repeat

 Score = 46.3 bits (111), Expect = 4e-07
 Identities = 15/31 (48%), Positives = 21/31 (67%)

Query: 311 FTYNSLINGLCKKGRCDRAKEVLDEMLQMGL 341
            TYNSLI+G CK G+ + A E+  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 = 46.3 bits (111), Expect = 4e-07
 Identities = 17/31 (54%), Positives = 22/31 (70%)

Query: 276 VTYNTLINAYCREGFLEEAFQLMNSMSGKGL 306
           VTYN+LI+ YC+ G LEEA +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|144943 pfam01535, PPR, PPR repeat

 Score = 45.5 bits (109), Expect = 6e-07
 Identities = 17/31 (54%), Positives = 24/31 (77%)

Query: 451 VTYNTILNGLCRAKMLTEADDLFNEMLERGV 481
           VTYN++++G C+A  L EA +LF EM E+GV
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 45.5 bits (109), Expect = 8e-07
 Identities = 16/35 (45%), Positives = 22/35 (62%)

Query: 416 VLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDV 450
           V Y  +I+G C+ G V EAL++  EM E+G   DV
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 = 45.4 bits (109), Expect = 9e-07
 Identities = 13/34 (38%), Positives = 19/34 (55%)

Query: 549 RKISPNYISYGILINGYCSMGHVTEAFRLWYEMV 582
           + + P+ ++Y  LI+G C  G V EA  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|144943 pfam01535, PPR, PPR repeat

 Score = 45.1 bits (108), Expect = 1e-06
 Identities = 15/31 (48%), Positives = 21/31 (67%)

Query: 416 VLYTIIINGYCRNGFVLEALKMRDEMLEKGC 446
           V Y  +I+GYC+ G + EAL++  EM EKG 
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 = 44.3 bits (106), Expect = 2e-06
 Identities = 16/33 (48%), Positives = 18/33 (54%)

Query: 689 KGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEM 721
           KGL PD  TY TLI+G      + EA    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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 44.4 bits (106), Expect = 2e-06
 Identities = 13/35 (37%), Positives = 24/35 (68%)

Query: 626 ISYNTLINGFVREENMDKAFALVSKMENQGLVPDV 660
           ++YNTLI+G  +   +++A  L  +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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 43.6 bits (104), Expect = 4e-06
 Identities = 13/35 (37%), Positives = 21/35 (60%)

Query: 591 VSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDS 625
           V+ NT+I G C++G   +A E   +M   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 = 43.2 bits (103), Expect = 4e-06
 Identities = 14/31 (45%), Positives = 24/31 (77%)

Query: 521 VTYNTLIDGFCKVGEMEKANKLWADMISRKI 551
           VTYN+LI G+CK G++E+A +L+ +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 = 43.1 bits (103), Expect = 6e-06
 Identities = 13/25 (52%), Positives = 19/25 (76%)

Query: 654 QGLVPDVITYNVILTGFCRQGRMHD 678
           +GL PDV+TYN ++ G CR GR+ +
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDE 25

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 = 42.8 bits (102), Expect = 7e-06
 Identities = 15/34 (44%), Positives = 21/34 (61%)

Query: 556 ISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPT 589
           ++Y  LI+G C  G V EA  L+ EM  +GI+P 
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 42.4 bits (101), Expect = 9e-06
 Identities = 14/34 (41%), Positives = 18/34 (52%)

Query: 697 TYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDD 730
           TY TLI+G      ++EA     EM +RG  PD 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 42.3 bits (101), Expect = 1e-05
 Identities = 12/34 (35%), Positives = 21/34 (61%)

Query: 234 SGIELNVYTLNIMVNALCKDHKIDSAKMFLCEME 267
            G++ +V T N +++ LC+  ++D A   L EME
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 42.1 bits (100), Expect = 1e-05
 Identities = 16/35 (45%), Positives = 23/35 (65%)

Query: 486 YTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDI 520
            T+ TLI G CK G + +AL LF  M ++ I+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 = 41.7 bits (99), Expect = 2e-05
 Identities = 14/34 (41%), Positives = 23/34 (67%)

Query: 381 VSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPD 414
           V+++TLI    + G+++ AL  F+EMK  G+ PD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 40.9 bits (97), Expect = 3e-05
 Identities = 14/31 (45%), Positives = 20/31 (64%)

Query: 556 ISYGILINGYCSMGHVTEAFRLWYEMVGKGI 586
           ++Y  LI+GYC  G + EA  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|205109 pfam12854, PPR_1, PPR repeat

 Score = 40.4 bits (96), Expect = 4e-05
 Identities = 13/34 (38%), Positives = 23/34 (67%)

Query: 374 RGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMK 407
           +G+ PD+V+++TLI    R G++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|205109 pfam12854, PPR_1, PPR repeat

 Score = 40.4 bits (96), Expect = 4e-05
 Identities = 16/34 (47%), Positives = 19/34 (55%)

Query: 339 MGLSPDTATYNTLLVESCRKENMSEAEEIFCEMS 372
            GL PD  TYNTL+   CR   + EA E+  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 = 40.5 bits (96), Expect = 5e-05
 Identities = 12/31 (38%), Positives = 20/31 (64%)

Query: 591 VSCNTIIKGYCRSGDASKADEFLSKMVSEGV 621
           V+ N++I GYC++G   +A E   +M  +GV
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 40.1 bits (95), Expect = 6e-05
 Identities = 11/35 (31%), Positives = 21/35 (60%)

Query: 241 YTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDT 275
            T N +++ LCK  +++ A     EM+++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 = 39.0 bits (92), Expect = 1e-04
 Identities = 12/31 (38%), Positives = 22/31 (70%)

Query: 381 VSFSTLIGIFSRNGQLDRALMYFREMKSAGL 411
           V++++LI  + + G+L+ AL  F+EMK  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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 39.5 bits (93), Expect = 1e-04
 Identities = 9/34 (26%), Positives = 17/34 (50%)

Query: 520 IVTYNTLIDGFCKVGEMEKANKLWADMISRKISP 553
           + TYN L+    K G+ + A  +  +M +  + 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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 39.5 bits (93), Expect = 1e-04
 Identities = 12/34 (35%), Positives = 17/34 (50%)

Query: 275 TVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKP 308
             TYN L+ A  + G  + A  ++  M   GLKP
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 39.1 bits (92), Expect = 1e-04
 Identities = 11/34 (32%), Positives = 16/34 (47%)

Query: 450 VVTYNTILNGLCRAKMLTEADDLFNEMLERGVFP 483
           + TYN +L  L +A     A  +  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|144943 pfam01535, PPR, PPR repeat

 Score = 39.0 bits (92), Expect = 2e-04
 Identities = 13/31 (41%), Positives = 20/31 (64%)

Query: 486 YTFTTLIHGHCKDGNMNKALNLFDIMTQKSI 516
            T+ +LI G+CK G + +AL LF  M +K +
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 = 38.6 bits (91), Expect = 2e-04
 Identities = 9/31 (29%), Positives = 22/31 (70%)

Query: 626 ISYNTLINGFVREENMDKAFALVSKMENQGL 656
           ++YN+LI+G+ +   +++A  L  +M+ +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 = 38.2 bits (90), Expect = 3e-04
 Identities = 11/31 (35%), Positives = 17/31 (54%)

Query: 696 STYTTLINGHVSQNNLKEAFRFHDEMLQRGF 726
            TY +LI+G+     L+EA     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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 37.9 bits (89), Expect = 4e-04
 Identities = 10/32 (31%), Positives = 18/32 (56%)

Query: 627 SYNTLINGFVREENMDKAFALVSKMENQGLVP 658
           +YN L+    +  + D A A++ +M+  GL 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 37.4 bits (88), Expect = 5e-04
 Identities = 16/34 (47%), Positives = 22/34 (64%)

Query: 347 TYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDI 380
           TYNTL+   C+   + EA E+F EM  RG+ PD+
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 37.2 bits (87), Expect = 7e-04
 Identities = 9/33 (27%), Positives = 16/33 (48%)

Query: 486 YTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKP 518
            T+  L+    K G+ + AL + + M    +KP
Sbjct: 2   ETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 37.2 bits (87), Expect = 8e-04
 Identities = 11/34 (32%), Positives = 20/34 (58%)

Query: 380 IVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVP 413
           + +++ L+   ++ G  D AL    EMK++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|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only]

 Score = 41.8 bits (96), Expect = 8e-04
 Identities = 48/256 (18%), Positives = 83/256 (32%), Gaps = 5/256 (1%)

Query: 327 DRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEM-SRRGVAPDIVSFST 385
             A  +L E L   L+   A     L        ++EA E+  E       +        
Sbjct: 5   LLALAILLEALAKLLAEALALLEAGLALLELLGELAEALELLEEALELLPNSDLAGLLLL 64

Query: 386 LIGIFSRNGQLDRALMYFREMKSAGLVPDN-VLYTIIINGYCRNGFVLEALKMRDEMLEK 444
           L     + G+L+ AL    +     L+P+       +       G   EAL++ ++ L  
Sbjct: 65  LALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALAL 124

Query: 445 GCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHG--HCKDGNMN 502
               D+      L  L       EA +L+ + LE     +      L  G      G   
Sbjct: 125 DPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYE 184

Query: 503 KALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILI 562
           +AL L +   + +   D      L   + K+G+ E+A + +   +      N  +   L 
Sbjct: 185 EALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDP-DNAEALYNLA 243

Query: 563 NGYCSMGHVTEAFRLW 578
                +G   EA    
Sbjct: 244 LLLLELGRYEEALEAL 259

Length = 291

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

 Score = 36.8 bits (86), Expect = 0.001
 Identities = 9/34 (26%), Positives = 17/34 (50%)

Query: 590 LVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDP 623
           L + N ++    ++GD   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 = 35.9 bits (84), Expect = 0.002
 Identities = 12/34 (35%), Positives = 22/34 (64%)

Query: 661 ITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD 694
           +TYN ++ G C+ GR+ ++  +   M E+G+ PD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 35.1 bits (82), Expect = 0.004
 Identities = 10/31 (32%), Positives = 22/31 (70%)

Query: 661 ITYNVILTGFCRQGRMHDSELILWRMIEKGL 691
           +TYN +++G+C+ G++ ++  +   M EKG+
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 = 35.1 bits (82), Expect = 0.004
 Identities = 13/30 (43%), Positives = 19/30 (63%)

Query: 347 TYNTLLVESCRKENMSEAEEIFCEMSRRGV 376
           TYN+L+   C+   + EA E+F EM  +GV
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	732
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	100.0
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.97
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.96
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.96
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.95
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.94
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.91
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.91
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.9
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.9
KOG2076	895	consensus RNA polymerase III transcription factor	99.89
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.89
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.88
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.87
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.87
PRK14574	822	hmsH outer membrane protein; Provisional	99.86
PRK14574	822	hmsH outer membrane protein; Provisional	99.86
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.86
KOG2076	895	consensus RNA polymerase III transcription factor	99.85
KOG2003	840	consensus TPR repeat-containing protein [General f	99.83
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.82
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.8
KOG2003	840	consensus TPR repeat-containing protein [General f	99.78
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.77
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.74
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.72
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.68
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.68
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.67
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.67
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.66
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.66
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.65
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.64
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.64
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.63
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.62
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.6
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.6
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.6
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.59
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.59
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.58
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.58
KOG1126	638	consensus DNA-binding cell division cycle control	99.57
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.57
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.56
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.55
KOG1126	638	consensus DNA-binding cell division cycle control	99.55
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.55
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.52
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.51
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.51
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.48
PRK12370	553	invasion protein regulator; Provisional	99.45
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.45
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.44
PRK12370	553	invasion protein regulator; Provisional	99.44
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.43
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.43
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.42
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.41
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.39
KOG1129	478	consensus TPR repeat-containing protein [General f	99.39
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.39
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.39
KOG1129	478	consensus TPR repeat-containing protein [General f	99.38
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.37
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.37
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.36
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.33
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.33
PRK11189	296	lipoprotein NlpI; Provisional	99.26
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.26
PF13041	50	PPR_2: PPR repeat family	99.24
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.23
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.2
PRK11189	296	lipoprotein NlpI; Provisional	99.2
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.19
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.18
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.17
PF13041	50	PPR_2: PPR repeat family	99.17
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.16
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.15
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.15
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	99.15
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.14
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.11
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.08
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	99.06
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.05
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	99.04
PRK04841	903	transcriptional regulator MalT; Provisional	98.98
PRK04841	903	transcriptional regulator MalT; Provisional	98.98
PLN02789	320	farnesyltranstransferase	98.95
KOG1125	579	consensus TPR repeat-containing protein [General f	98.93
PLN02789	320	farnesyltranstransferase	98.92
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.88
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.88
KOG1125	579	consensus TPR repeat-containing protein [General f	98.86
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.8
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.79
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.75
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.71
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.7
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.68
PF12854	34	PPR_1: PPR repeat	98.67
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.66
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.64
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.62
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.58
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.56
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.55
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.55
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.51
PRK15359	144	type III secretion system chaperone protein SscB;	98.5
PF12854	34	PPR_1: PPR repeat	98.49
PRK15359	144	type III secretion system chaperone protein SscB;	98.49
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.45
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.44
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.41
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.36
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.35
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.34
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.33
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.28
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.27
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.18
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.17
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.14
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.12
KOG2041	1189	consensus WD40 repeat protein [General function pr	98.07
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.99
KOG0553	304	consensus TPR repeat-containing protein [General f	97.98
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.98
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.98
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.94
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.93
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.9
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.88
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.87
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.86
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.84
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.84
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.84
KOG0553	304	consensus TPR repeat-containing protein [General f	97.83
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.83
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.82
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.81
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.78
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.77
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.75
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.73
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.72
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.72
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.71
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.71
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.68
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.67
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.65
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.65
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.64
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.62
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.62
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.62
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.61
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.58
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.57
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.57
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.56
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.55
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.55
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.51
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.49
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.49
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.44
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.44
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.44
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.42
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.41
PF12688	120	TPR_5: Tetratrico peptide repeat	97.4
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.38
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.34
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.33
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.3
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.3
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.3
PRK10803	263	tol-pal system protein YbgF; Provisional	97.26
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.17
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.16
PF12688	120	TPR_5: Tetratrico peptide repeat	97.16
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.15
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.12
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.97
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.94
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.93
PRK15331	165	chaperone protein SicA; Provisional	96.92
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.91
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.91
PRK10803	263	tol-pal system protein YbgF; Provisional	96.9
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.89
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.85
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.81
PF13371	73	TPR_9: Tetratricopeptide repeat	96.76
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.74
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.74
PF13371	73	TPR_9: Tetratricopeptide repeat	96.62
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.61
PRK15331	165	chaperone protein SicA; Provisional	96.6
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.6
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.59
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.54
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.53
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.52
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.51
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.46
KOG1585	308	consensus Protein required for fusion of vesicles	96.45
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.4
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.37
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.31
KOG1258	577	consensus mRNA processing protein [RNA processing	96.17
KOG4555	175	consensus TPR repeat-containing protein [Function	96.15
KOG1258	577	consensus mRNA processing protein [RNA processing	96.09
PRK11906	458	transcriptional regulator; Provisional	96.06
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.04
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.03
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.01
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.0
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.96
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	95.91
PRK11906	458	transcriptional regulator; Provisional	95.9
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.84
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.83
KOG4555	175	consensus TPR repeat-containing protein [Function	95.78
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.78
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.66
PF13428	44	TPR_14: Tetratricopeptide repeat	95.65
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.64
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.63
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.61
KOG1585	308	consensus Protein required for fusion of vesicles	95.29
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.2
PF13428	44	TPR_14: Tetratricopeptide repeat	95.18
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.16
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.16
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.15
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.06
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.0
PF13512	142	TPR_18: Tetratricopeptide repeat	94.99
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.93
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.87
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.84
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.76
PF13431	34	TPR_17: Tetratricopeptide repeat	94.76
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.69
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.67
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.62
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	94.6
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	94.47
KOG4648	536	consensus Uncharacterized conserved protein, conta	93.99
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	93.93
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.7
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.63
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.62
KOG3941	406	consensus Intermediate in Toll signal transduction	93.36
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.1
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.06
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.03
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.0
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	92.91
PF13512	142	TPR_18: Tetratricopeptide repeat	92.63
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	92.56
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.33
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	92.25
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	92.21
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.13
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	92.09
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	91.89
PF13431	34	TPR_17: Tetratricopeptide repeat	91.88
KOG1550	552	consensus Extracellular protein SEL-1 and related	91.84
KOG3941	406	consensus Intermediate in Toll signal transduction	91.73
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.66
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	91.64
COG3629	280	DnrI DNA-binding transcriptional activator of the	91.59
KOG1550	552	consensus Extracellular protein SEL-1 and related	91.47
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	91.09
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.06
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.99
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	90.96
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	90.95
KOG4648	536	consensus Uncharacterized conserved protein, conta	90.77
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	90.66
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	90.61
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	90.58
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	90.48
KOG4234	271	consensus TPR repeat-containing protein [General f	89.39
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.9
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	88.73
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	88.62
KOG1586	288	consensus Protein required for fusion of vesicles	88.4
PRK11619	644	lytic murein transglycosylase; Provisional	88.32
KOG4234	271	consensus TPR repeat-containing protein [General f	88.23
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	87.79
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	87.55
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	87.22
COG1747	711	Uncharacterized N-terminal domain of the transcrip	86.95
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	86.85
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	86.83
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	86.7
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	86.52
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	86.48
PRK09687	280	putative lyase; Provisional	86.35
COG0790	292	FOG: TPR repeat, SEL1 subfamily [General function	86.18
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.03
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	86.02
COG3947	361	Response regulator containing CheY-like receiver a	85.78
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	85.42
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	85.36
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	85.31
KOG4570	418	consensus Uncharacterized conserved protein [Funct	85.19
PRK09687	280	putative lyase; Provisional	84.67
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	84.55
KOG2471	696	consensus TPR repeat-containing protein [General f	84.26
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	84.0
COG0790	292	FOG: TPR repeat, SEL1 subfamily [General function	83.94
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	83.65
KOG1586	288	consensus Protein required for fusion of vesicles	83.56
PRK11619	644	lytic murein transglycosylase; Provisional	83.17
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	83.02
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	83.0
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	82.99
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	82.63
COG4455	273	ImpE Protein of avirulence locus involved in tempe	82.27
COG3947	361	Response regulator containing CheY-like receiver a	81.99
KOG4507	886	consensus Uncharacterized conserved protein, conta	81.97
KOG4570	418	consensus Uncharacterized conserved protein [Funct	81.62
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	81.33
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	80.45

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.3e-79  Score=702.02  Aligned_cols=607  Identities=22%  Similarity=0.335  Sum_probs=501.6

Q ss_pred             CCChHHHHHHHHhhc--cChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHH
Q 004744           80 RLNSVIIVEVLYRLR--DNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVD  157 (732)
Q Consensus        80 ~l~~~~~~~~l~~~~--~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  157 (732)
                      ..+...+..++..|.  +.+..+.++|..+....+  ..+...+++|+..|++.|++++|+.+|++|.            
T Consensus        83 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~------------  148 (857)
T PLN03077         83 PVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHP--SLGVRLGNAMLSMFVRFGELVHAWYVFGKMP------------  148 (857)
T ss_pred             CCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCC--CCCchHHHHHHHHHHhCCChHHHHHHHhcCC------------
Confidence            344444455555443  456777777777665443  4566777888888888888888888877773            


Q ss_pred             hhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCC
Q 004744          158 SFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIE  237 (732)
Q Consensus       158 ~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  237 (732)
                               .+|..+|+.+|.+|++.|++++|+++|++|...|+.||..+|+.++.+|.+.++.+.+.+++..+.+.|+.
T Consensus       149 ---------~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~  219 (857)
T PLN03077        149 ---------ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFE  219 (857)
T ss_pred             ---------CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCC
Confidence                     25688999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHH
Q 004744          238 LNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLI  317 (732)
Q Consensus       238 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li  317 (732)
                      ||+.++|.|+.+|++.|++++|.++|++|.+    ||.++||++|.+|++.|++++|+++|++|.+.|+.||..||+.++
T Consensus       220 ~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll  295 (857)
T PLN03077        220 LDVDVVNALITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVI  295 (857)
T ss_pred             cccchHhHHHHHHhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHH
Confidence            9999999999999999999999999988864    588889999999999999999999999998888889999999999


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHH
Q 004744          318 NGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLD  397 (732)
Q Consensus       318 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~  397 (732)
                      .+|++.|+.+.|.+++..|.+.|+.||..+|++|+.+|++.|++++|.++|++|..    ||..+|+.++.+|++.|+++
T Consensus       296 ~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~  371 (857)
T PLN03077        296 SACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPD  371 (857)
T ss_pred             HHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHH
Confidence            98888888888888888888888888888888888888888888888888888863    57788888888888888888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          398 RALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEML  477 (732)
Q Consensus       398 ~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  477 (732)
                      +|.++|++|.+.|+.||..||+.++.+|++.|++++|.++++.+.+.|+.++..+|+.|+.+|++.|++++|.++|++|.
T Consensus       372 ~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~  451 (857)
T PLN03077        372 KALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP  451 (857)
T ss_pred             HHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCC
Confidence            88888888888888888888888888888888888888888888888887777777777777777777777777777765


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH----------------------------------HCCCCCCHHHH
Q 004744          478 ERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMT----------------------------------QKSIKPDIVTY  523 (732)
Q Consensus       478 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----------------------------------~~~~~~~~~~~  523 (732)
                      +    +|..+|+.++.+|++.|+.++|+.+|++|.                                  +.|+.+|..++
T Consensus       452 ~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~  527 (857)
T PLN03077        452 E----KDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLP  527 (857)
T ss_pred             C----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceec
Confidence            4    244555555555555555555555555554                                  44444444455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 004744          524 NTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRS  603 (732)
Q Consensus       524 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  603 (732)
                      ++|+++|+++|++++|.++|+++     .+|..+|+++|.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|++.
T Consensus       528 naLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~  602 (857)
T PLN03077        528 NALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRS  602 (857)
T ss_pred             hHHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhc
Confidence            56666777777777777777665     4688899999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHH-HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004744          604 GDASKADEFLSKMV-SEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELI  682 (732)
Q Consensus       604 g~~~~A~~~~~~~~-~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~  682 (732)
                      |++++|.++|+.|. +.|+.|+..+|++++++|++.|++++|.+++++|.   +.||..+|++|+.+|..+|+.+.|+..
T Consensus       603 g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~---~~pd~~~~~aLl~ac~~~~~~e~~e~~  679 (857)
T PLN03077        603 GMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMP---ITPDPAVWGALLNACRIHRHVELGELA  679 (857)
T ss_pred             ChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCC---CCCCHHHHHHHHHHHHHcCChHHHHHH
Confidence            99999999999998 56899999999999999999999999999999885   689999999999999999999999999


Q ss_pred             HHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC
Q 004744          683 LWRMIEKGLNPD-RSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDDA  731 (732)
Q Consensus       683 ~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  731 (732)
                      .+++.+  +.|+ ...|..|.+.|+..|+|++|.++.+.|.++|++++..
T Consensus       680 a~~l~~--l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g  727 (857)
T PLN03077        680 AQHIFE--LDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPG  727 (857)
T ss_pred             HHHHHh--hCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCC
Confidence            888888  7885 5778888899999999999999999999999998763

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.5e-78  Score=689.51  Aligned_cols=593  Identities=20%  Similarity=0.300  Sum_probs=566.8

Q ss_pred             cChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHH
Q 004744           95 DNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFD  174 (732)
Q Consensus        95 ~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  174 (732)
                      +.++.|..+|+.....  ++.++..+|..++..+.+.+.++.|..++..+++.                 ....+..+++
T Consensus        65 g~~~~A~~l~~~m~~~--g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----------------~~~~~~~~~n  125 (857)
T PLN03077         65 GQLEQALKLLESMQEL--RVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSS-----------------HPSLGVRLGN  125 (857)
T ss_pred             CCHHHHHHHHHHHHhc--CCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHc-----------------CCCCCchHHH
Confidence            6899999999987653  46778899999999999999999999999988752                 2335678899


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 004744          175 LVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDH  254 (732)
Q Consensus       175 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  254 (732)
                      .|+.+|++.|+++.|.++|++|.+    ||..+||.++.+|++.|++++|.++|++|...|+.||.+||+.++++|++.+
T Consensus       126 ~li~~~~~~g~~~~A~~~f~~m~~----~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~  201 (857)
T PLN03077        126 AMLSMFVRFGELVHAWYVFGKMPE----RDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIP  201 (857)
T ss_pred             HHHHHHHhCCChHHHHHHHhcCCC----CCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCcc
Confidence            999999999999999999999975    5899999999999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHH
Q 004744          255 KIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLD  334 (732)
Q Consensus       255 ~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  334 (732)
                      +++.+.+++..|.+.|+.||..+||+||.+|++.|++++|.++|++|..    ||..+||++|.+|++.|++++|.++|+
T Consensus       202 ~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~d~~s~n~li~~~~~~g~~~eAl~lf~  277 (857)
T PLN03077        202 DLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR----RDCISWNAMISGYFENGECLEGLELFF  277 (857)
T ss_pred             chhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCC----CCcchhHHHHHHHHhCCCHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999975    589999999999999999999999999


Q ss_pred             HHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCC
Q 004744          335 EMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPD  414 (732)
Q Consensus       335 ~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~  414 (732)
                      +|.+.|+.||..+|+.++.++++.|+.+.|.+++..|.+.|+.||..+|+.++.+|++.|++++|.++|++|.    .||
T Consensus       278 ~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d  353 (857)
T PLN03077        278 TMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKD  353 (857)
T ss_pred             HHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999996    368


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          415 NVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHG  494 (732)
Q Consensus       415 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  494 (732)
                      ..+|+.+|.+|++.|++++|+++|++|.+.|+.||..+|+.++.+|++.|++++|.++++.|.+.|+.|+..+++.|+.+
T Consensus       354 ~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~  433 (857)
T PLN03077        354 AVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEM  433 (857)
T ss_pred             eeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 004744          495 HCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEA  574 (732)
Q Consensus       495 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  574 (732)
                      |++.|++++|.++|++|.+    +|..+|+.++.+|++.|+.++|..+|++|.. +..||..+|+.++.+|++.|+++.+
T Consensus       434 y~k~g~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~  508 (857)
T PLN03077        434 YSKCKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCG  508 (857)
T ss_pred             HHHcCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHh
Confidence            9999999999999999975    5889999999999999999999999999986 5899999999999999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          575 FRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQ  654 (732)
Q Consensus       575 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  654 (732)
                      .+++..+.+.|+.+|..++++++++|++.|++++|.++|+.+     .||..+|+++|.+|++.|+.++|+++|++|.+.
T Consensus       509 ~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~  583 (857)
T PLN03077        509 KEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVES  583 (857)
T ss_pred             HHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            999999999999999999999999999999999999999987     589999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCCC
Q 004744          655 GLVPDVITYNVILTGFCRQGRMHDSELILWRMI-EKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDDA  731 (732)
Q Consensus       655 g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  731 (732)
                      |+.||..||+.++.+|++.|++++|.++|++|. +.|+.|+..+|++++++|++.|++++|.+++++|   +++||..
T Consensus       584 g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m---~~~pd~~  658 (857)
T PLN03077        584 GVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPA  658 (857)
T ss_pred             CCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHC---CCCCCHH
Confidence            999999999999999999999999999999999 6899999999999999999999999999999999   6888853

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8e-73  Score=631.17  Aligned_cols=547  Identities=20%  Similarity=0.299  Sum_probs=433.1

Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGI-CFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIM  246 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  246 (732)
                      .+...+..++..|++.|++++|+++|++|.+.|+ .++...++.++.+|.+.|..++|.++|+.|..    ||..+|+.+
T Consensus       368 ~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~L  443 (1060)
T PLN03218        368 RKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNML  443 (1060)
T ss_pred             CCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHHH
Confidence            4456677777777778888888888888877774 35666677777778888888888887777753    778888888


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCCh
Q 004744          247 VNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRC  326 (732)
Q Consensus       247 ~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  326 (732)
                      +.+|++.|++++|.++|++|.+.|+.||..+|++||.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++
T Consensus       444 L~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~  523 (1060)
T PLN03218        444 MSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQV  523 (1060)
T ss_pred             HHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCH
Confidence            88888888888888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             hHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHh--CCCCCCHhHHHHHHHHHHhCCCHHHHHHHHH
Q 004744          327 DRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSR--RGVAPDIVSFSTLIGIFSRNGQLDRALMYFR  404 (732)
Q Consensus       327 ~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~  404 (732)
                      ++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|++++.+|++.|++++|.++|+
T Consensus       524 eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~  603 (1060)
T PLN03218        524 AKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQ  603 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            88888888888888888888888888888888888888888888865  5677788888888888888888888888888


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 004744          405 EMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPD  484 (732)
Q Consensus       405 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~  484 (732)
                      +|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.||
T Consensus       604 ~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd  683 (1060)
T PLN03218        604 MIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLG  683 (1060)
T ss_pred             HHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC
Confidence            88888888888888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004744          485 FYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILING  564 (732)
Q Consensus       485 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  564 (732)
                      ..+|+.+|.+|++.|++++|.++|++|...|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+
T Consensus       684 ~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a  763 (1060)
T PLN03218        684 TVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVA  763 (1060)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            88888888888888888888888888877777888888888888888888888888888888877788888888888888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 004744          565 YCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKA  644 (732)
Q Consensus       565 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  644 (732)
                      |++.|++++|.++|.+|.+.|+.||..+|+.++..|.  +.+++|.++.+.+....  +        .......+..++|
T Consensus       764 ~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~--~~y~ka~~l~~~v~~f~--~--------g~~~~~n~w~~~A  831 (1060)
T PLN03218        764 SERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCL--RRFEKACALGEPVVSFD--S--------GRPQIENKWTSWA  831 (1060)
T ss_pred             HHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--HHHHHHhhhhhhhhhhh--c--------cccccccchHHHH
Confidence            8888888888888888888888888888888775543  24555555544333210  0        0111122345679


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          645 FALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQR  724 (732)
Q Consensus       645 ~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  724 (732)
                      ..+|++|.+.|+.||..||+.++.++++.+..+.+..+++.|...+..|+..+|++|++++.+.  .++|..++++|.+.
T Consensus       832 l~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~  909 (1060)
T PLN03218        832 LMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASL  909 (1060)
T ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHc
Confidence            9999999999999999999999988889999999999999998888888999999999998432  36899999999999


Q ss_pred             CCCCCCCC
Q 004744          725 GFVPDDAF  732 (732)
Q Consensus       725 g~~pd~~~  732 (732)
                      |+.|+..|
T Consensus       910 Gi~p~~~~  917 (1060)
T PLN03218        910 GVVPSVSF  917 (1060)
T ss_pred             CCCCCccc
Confidence            99999763

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.9e-72  Score=624.19  Aligned_cols=550  Identities=19%  Similarity=0.273  Sum_probs=496.1

Q ss_pred             HHhCCChHHHHHHHHHHHHhcCC-ChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHH
Q 004744          128 LVRGRRISDAQALILRMVRKSGV-SRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSIN  206 (732)
Q Consensus       128 l~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  206 (732)
                      +.......+-..++..+.+.... ....+++.+.. ....+++...++.++..|.+.|.+++|+.+|+.|..    ||..
T Consensus       364 ~~~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~-~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~  438 (1060)
T PLN03218        364 VSGKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEK-RGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLS  438 (1060)
T ss_pred             cCCCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHh-CCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHH
Confidence            33445556667777777643221 22344555543 112346778889999999999999999999999975    7999


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 004744          207 ACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYC  286 (732)
Q Consensus       207 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~  286 (732)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|+
T Consensus       439 Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~  518 (1060)
T PLN03218        439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCA  518 (1060)
T ss_pred             HHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHH--CCCCCCHHhHHHHHHHHHcCCCHhHH
Q 004744          287 REGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQ--MGLSPDTATYNTLLVESCRKENMSEA  364 (732)
Q Consensus       287 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~g~~~~~~~~~~li~~~~~~g~~~~A  364 (732)
                      +.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|..  .|+.||..+|+++|.+|++.|++++|
T Consensus       519 k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA  598 (1060)
T PLN03218        519 RAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRA  598 (1060)
T ss_pred             HCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHH
Confidence            9999999999999999999999999999999999999999999999999986  67899999999999999999999999


Q ss_pred             HHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 004744          365 EEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEK  444 (732)
Q Consensus       365 ~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  444 (732)
                      .++|++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.+.
T Consensus       599 ~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~  678 (1060)
T PLN03218        599 KEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQ  678 (1060)
T ss_pred             HHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004744          445 GCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYN  524 (732)
Q Consensus       445 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  524 (732)
                      |+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|...|+.||..+|+
T Consensus       679 G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~  758 (1060)
T PLN03218        679 GIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYS  758 (1060)
T ss_pred             CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC
Q 004744          525 TLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSG  604 (732)
Q Consensus       525 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  604 (732)
                      .++.+|++.|++++|.++|.+|.+.|+.||..+|+.++..|.  +++++|..+.+.+....  +        .......+
T Consensus       759 sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~--~~y~ka~~l~~~v~~f~--~--------g~~~~~n~  826 (1060)
T PLN03218        759 ILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCL--RRFEKACALGEPVVSFD--S--------GRPQIENK  826 (1060)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--HHHHHHhhhhhhhhhhh--c--------cccccccc
Confidence            999999999999999999999999999999999999997654  25666666655444221  0        01111123


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          605 DASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILW  684 (732)
Q Consensus       605 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  684 (732)
                      ..++|..+|++|.+.|+.||..||+.++.++++.+..+.+..+++.|...+..|+..+|+++++++++.  .++|..+++
T Consensus       827 w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~  904 (1060)
T PLN03218        827 WTSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLE  904 (1060)
T ss_pred             hHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHH
Confidence            346799999999999999999999999998889999999999999998888889999999999998543  368999999


Q ss_pred             HHHHcCCCCCHH
Q 004744          685 RMIEKGLNPDRS  696 (732)
Q Consensus       685 ~~~~~g~~p~~~  696 (732)
                      +|.+.|+.|+..
T Consensus       905 em~~~Gi~p~~~  916 (1060)
T PLN03218        905 EAASLGVVPSVS  916 (1060)
T ss_pred             HHHHcCCCCCcc
Confidence            999999999864

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

Probab=100.00  E-value=1.1e-64  Score=565.52  Aligned_cols=476  Identities=24%  Similarity=0.349  Sum_probs=377.4

Q ss_pred             ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHH
Q 004744          202 CFSINACNSLLGGLVKIGWVDLAREVYAEVVRSG-IELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNT  280 (732)
Q Consensus       202 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~  280 (732)
                      ..+..+|+.++.+|.+.|++++|.++|+.|...+ ..||..+|+.++.+|++.++++.|.+++..|.+.|+.||..+|+.
T Consensus        84 ~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~  163 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNR  163 (697)
T ss_pred             CCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHH
Confidence            3466788888888888888888888888887654 578888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCC
Q 004744          281 LINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKEN  360 (732)
Q Consensus       281 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  360 (732)
                      |+.+|++.|++++|.++|++|.+    ||..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.++++.|.
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~  239 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGS  239 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCc
Confidence            88888888888888888888864    57777777777777777777777777777777777777777777777777666


Q ss_pred             HhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 004744          361 MSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDE  440 (732)
Q Consensus       361 ~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  440 (732)
                      .+.+.+++..+.+.|+.||..+|++|+.+|++.|++++|.++|++|.                                 
T Consensus       240 ~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~---------------------------------  286 (697)
T PLN03081        240 ARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP---------------------------------  286 (697)
T ss_pred             HHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC---------------------------------
Confidence            66666666666666666666666666666666665555555555543                                 


Q ss_pred             HHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 004744          441 MLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDI  520 (732)
Q Consensus       441 ~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~  520 (732)
                        +    +|.++||.++.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.||.
T Consensus       287 --~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~  360 (697)
T PLN03081        287 --E----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDI  360 (697)
T ss_pred             --C----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCe
Confidence              2    3566677777777777777777777777777777777777777777777888888888888888887878888


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004744          521 VTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGY  600 (732)
Q Consensus       521 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  600 (732)
                      .+|++|+++|+++|++++|.++|++|.+    ||..+||.||.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|
T Consensus       361 ~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~  436 (697)
T PLN03081        361 VANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSAC  436 (697)
T ss_pred             eehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            8888888888888888888888887753    578888888888888888888888888888888888888888888888


Q ss_pred             HHcCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 004744          601 CRSGDASKADEFLSKMVS-EGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDS  679 (732)
Q Consensus       601 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A  679 (732)
                      ++.|.+++|.++|+.|.+ .|+.|+..+|++++++|++.|++++|.+++++|.   +.|+..+|++|+.+|+.+|+++.|
T Consensus       437 ~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~---~~p~~~~~~~Ll~a~~~~g~~~~a  513 (697)
T PLN03081        437 RYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAP---FKPTVNMWAALLTACRIHKNLELG  513 (697)
T ss_pred             hcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCC---CCCCHHHHHHHHHHHHHcCCcHHH
Confidence            888888888888888876 4888888888888888888888888888887763   678888888888888888888888


Q ss_pred             HHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 004744          680 ELILWRMIEKGLNPD-RSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPD  729 (732)
Q Consensus       680 ~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd  729 (732)
                      ..+++++.+  +.|+ ..+|..|+++|++.|++++|.+++++|.++|+++.
T Consensus       514 ~~~~~~l~~--~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~  562 (697)
T PLN03081        514 RLAAEKLYG--MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMH  562 (697)
T ss_pred             HHHHHHHhC--CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccC
Confidence            888888876  6774 57888888888888888888888888888888654

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

Probab=100.00  E-value=1.4e-64  Score=564.69  Aligned_cols=477  Identities=19%  Similarity=0.312  Sum_probs=445.4

Q ss_pred             CCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCC-CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 004744          167 GSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKG-ICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNI  245 (732)
Q Consensus       167 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  245 (732)
                      ..+...|+.+|..|.+.|++++|+++|+.|...+ +.||..+|+.++.+|.+.++.+.|.+++..|.+.|+.||..+++.
T Consensus        84 ~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~  163 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNR  163 (697)
T ss_pred             CCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHH
Confidence            3456789999999999999999999999998765 679999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCC
Q 004744          246 MVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGR  325 (732)
Q Consensus       246 l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  325 (732)
                      ++.+|++.|++++|.++|++|.+    ||.++||++|.+|++.|++++|+++|++|.+.|+.|+..+|+.++.++++.|.
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~  239 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGS  239 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCc
Confidence            99999999999999999999974    79999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHH
Q 004744          326 CDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFRE  405 (732)
Q Consensus       326 ~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~  405 (732)
                      .+.+.+++..+.+.|+.||..+|++|+.+|++.|++++|.++|++|.+    +|..+||+++.+|++.|+.++|.++|++
T Consensus       240 ~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~  315 (697)
T PLN03081        240 ARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYE  315 (697)
T ss_pred             HHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999965    5899999999999999999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          406 MKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDF  485 (732)
Q Consensus       406 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~  485 (732)
                      |.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.+|..+++.|+.+|++.|++++|.++|++|.+    ||.
T Consensus       316 M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~  391 (697)
T PLN03081        316 MRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNL  391 (697)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCe
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999864    588


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHHH
Q 004744          486 YTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMIS-RKISPNYISYGILING  564 (732)
Q Consensus       486 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~li~~  564 (732)
                      .+|+.||.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .|+.|+..+|+.++++
T Consensus       392 ~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~  471 (697)
T PLN03081        392 ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIEL  471 (697)
T ss_pred             eeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHH
Confidence            899999999999999999999999999999999999999999999999999999999999976 5888999999999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHH
Q 004744          565 YCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDP-DSISYNTLINGFVREENMDK  643 (732)
Q Consensus       565 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~  643 (732)
                      |++.|++++|.+++++|   ++.|+..+|++++.+|...|+++.|..+++++.+.  .| +..+|..|++.|++.|++++
T Consensus       472 l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~--~p~~~~~y~~L~~~y~~~G~~~~  546 (697)
T PLN03081        472 LGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGM--GPEKLNNYVVLLNLYNSSGRQAE  546 (697)
T ss_pred             HHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCC--CCCCCcchHHHHHHHHhCCCHHH
Confidence            99999999999988766   46889999999999999999999999998888753  44 46688899999999999999


Q ss_pred             HHHHHHHHHHCCCCCCH
Q 004744          644 AFALVSKMENQGLVPDV  660 (732)
Q Consensus       644 A~~~~~~~~~~g~~p~~  660 (732)
                      |.+++++|.+.|+...+
T Consensus       547 A~~v~~~m~~~g~~k~~  563 (697)
T PLN03081        547 AAKVVETLKRKGLSMHP  563 (697)
T ss_pred             HHHHHHHHHHcCCccCC
Confidence            99999999998876543

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

Probab=100.00  E-value=9.1e-39  Score=375.32  Aligned_cols=609  Identities=12%  Similarity=0.056  Sum_probs=496.8

Q ss_pred             hccChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhH----------------HH
Q 004744           93 LRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLE----------------IV  156 (732)
Q Consensus        93 ~~~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~----------------~~  156 (732)
                      ..++++.|...|..+....|.+   ..++..+..++...|++++|...+.+++...+..+..                ..
T Consensus       273 ~~~~~~~A~~~~~~~l~~~~~~---~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A~  349 (899)
T TIGR02917       273 QKKNYEDARETLQDALKSAPEY---LPALLLAGASEYQLGNLEQAYQYLNQILKYAPNSHQARRLLASIQLRLGRVDEAI  349 (899)
T ss_pred             HhcCHHHHHHHHHHHHHhCCCc---hhHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHH
Confidence            3466777777776666555542   3344455566666777777777776666543322110                00


Q ss_pred             HhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC
Q 004744          157 DSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGI  236 (732)
Q Consensus       157 ~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  236 (732)
                      ..+.......+.++..+..++..|.+.|++++|.+.|+++.+..+. +...+..+...+...|++++|.+.|+.+.+.. 
T Consensus       350 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-  427 (899)
T TIGR02917       350 ATLSPALGLDPDDPAALSLLGEAYLALGDFEKAAEYLAKATELDPE-NAAARTQLGISKLSQGDPSEAIADLETAAQLD-  427 (899)
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHhCCChHHHHHHHHHHHhhC-
Confidence            1111111334556788888999999999999999999999887655 67788888889999999999999999988765 


Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHH
Q 004744          237 ELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSL  316 (732)
Q Consensus       237 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  316 (732)
                      +........++..+.+.|++++|..+++.+.+.. +++..+|..++..|...|++++|.+.|+++.+... .+...+..+
T Consensus       428 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l  505 (899)
T TIGR02917       428 PELGRADLLLILSYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEP-DFFPAAANL  505 (899)
T ss_pred             CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCC-CcHHHHHHH
Confidence            3445566677888999999999999999988764 34677889999999999999999999999987643 366778888


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCH
Q 004744          317 INGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQL  396 (732)
Q Consensus       317 i~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~  396 (732)
                      +..+...|++++|.+.++++.+.+ +.+..++..+...+.+.|+.++|...+.++.+.+. .+...+..++..+...|++
T Consensus       506 a~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~  583 (899)
T TIGR02917       506 ARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNP-QEIEPALALAQYYLGKGQL  583 (899)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchhHHHHHHHHHHHCCCH
Confidence            899999999999999999998765 45677888899999999999999999999887653 3677888899999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          397 DRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEM  476 (732)
Q Consensus       397 ~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~  476 (732)
                      ++|..+++++.+.. +.+...|..+...|...|++++|+..++++.+..+. +...+..+...+.+.|++++|...|+++
T Consensus       584 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~  661 (899)
T TIGR02917       584 KKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPD-SALALLLLADAYAVMKNYAKAITSLKRA  661 (899)
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999998753 446788999999999999999999999999886543 6778888999999999999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 004744          477 LERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYI  556 (732)
Q Consensus       477 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  556 (732)
                      .+..+. +..++..++..+...|++++|..+++.+.+.. +.+...+..+...+.+.|++++|.+.|+++....  |+..
T Consensus       662 ~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~  737 (899)
T TIGR02917       662 LELKPD-NTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQ  737 (899)
T ss_pred             HhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCch
Confidence            887543 67888999999999999999999999998875 3477788888899999999999999999998874  3446


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004744          557 SYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFV  636 (732)
Q Consensus       557 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  636 (732)
                      ++..++.++.+.|++++|.+.++++.+.. +.+...+..+...|...|+.++|.+.|+++.+.. +.+...++.++..+.
T Consensus       738 ~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~  815 (899)
T TIGR02917       738 NAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYL  815 (899)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            77788899999999999999999998874 6788899999999999999999999999998864 457888999999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 004744          637 REENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAF  715 (732)
Q Consensus       637 ~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~  715 (732)
                      ..|+ ++|+.+++++.+.  .| ++.++..++.++...|++++|..+++++++.+.. +..++..++.++.+.|++++|.
T Consensus       816 ~~~~-~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A~  891 (899)
T TIGR02917       816 ELKD-PRALEYAEKALKL--APNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAEAR  891 (899)
T ss_pred             hcCc-HHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHHHH
Confidence            9999 8899999999884  44 5567888899999999999999999999994332 7889999999999999999999


Q ss_pred             HHHHHHH
Q 004744          716 RFHDEML  722 (732)
Q Consensus       716 ~~~~~m~  722 (732)
                      +++++|+
T Consensus       892 ~~~~~~~  898 (899)
T TIGR02917       892 KELDKLL  898 (899)
T ss_pred             HHHHHHh
Confidence            9999986

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

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

Probab=100.00  E-value=1.5e-37  Score=365.00  Aligned_cols=611  Identities=13%  Similarity=0.083  Sum_probs=519.8

Q ss_pred             ccChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHH----------------HH
Q 004744           94 RDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEI----------------VD  157 (732)
Q Consensus        94 ~~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~----------------~~  157 (732)
                      .++++.|...++.+....|+   ++..+.....++...|++++|...+.+++...+......                ..
T Consensus       240 ~g~~~~A~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~g~~~~A~~  316 (899)
T TIGR02917       240 AGEFEEAEKHADALLKKAPN---SPLAHYLKALVDFQKKNYEDARETLQDALKSAPEYLPALLLAGASEYQLGNLEQAYQ  316 (899)
T ss_pred             cCCHHHHHHHHHHHHHhCCC---CchHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHcCCHHHHHH
Confidence            47899999999998877664   445556666777889999999999999986543322110                11


Q ss_pred             hhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCC
Q 004744          158 SFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIE  237 (732)
Q Consensus       158 ~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  237 (732)
                      .+.......+.+...+..++..+.+.|++++|...++.+.+.++. +...+..+...+.+.|++++|.++|+++.+.. +
T Consensus       317 ~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~  394 (899)
T TIGR02917       317 YLNQILKYAPNSHQARRLLASIQLRLGRVDEAIATLSPALGLDPD-DPAALSLLGEAYLALGDFEKAAEYLAKATELD-P  394 (899)
T ss_pred             HHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-C
Confidence            111112234566778888999999999999999999999887655 78889999999999999999999999998764 5


Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHH
Q 004744          238 LNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLI  317 (732)
Q Consensus       238 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li  317 (732)
                      .+...+..+...+...|++++|...++.+.+.... ....+..++..+.+.|++++|.++++.+... .+++..+|..+.
T Consensus       395 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~  472 (899)
T TIGR02917       395 ENAAARTQLGISKLSQGDPSEAIADLETAAQLDPE-LGRADLLLILSYLRSGQFDKALAAAKKLEKK-QPDNASLHNLLG  472 (899)
T ss_pred             CCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHh-CCCCcHHHHHHH
Confidence            67778888889999999999999999999887543 3456677888999999999999999999875 344788999999


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHH
Q 004744          318 NGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLD  397 (732)
Q Consensus       318 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~  397 (732)
                      ..+...|++++|.+.|+++.+.. +.+...+..++..+...|++++|.+.++++.+.+. .+..++..+...+.+.|+.+
T Consensus       473 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~  550 (899)
T TIGR02917       473 AIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDP-KNLRAILALAGLYLRTGNEE  550 (899)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999998764 44566788899999999999999999999988753 37888999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          398 RALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEML  477 (732)
Q Consensus       398 ~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  477 (732)
                      +|..+++++.+.+ +.+...+..++..|.+.|++++|..+++.+.+..+ .+...|..++..+.+.|++++|...|+.+.
T Consensus       551 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  628 (899)
T TIGR02917       551 EAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAAP-DSPEAWLMLGRAQLAAGDLNKAVSSFKKLL  628 (899)
T ss_pred             HHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999998764 34667888899999999999999999999987654 478899999999999999999999999998


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 004744          478 ERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYIS  557 (732)
Q Consensus       478 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  557 (732)
                      +.... +...+..+...+...|++++|...++.+.+.. +.+...+..++..+...|++++|..+++.+.+.. +.+...
T Consensus       629 ~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  705 (899)
T TIGR02917       629 ALQPD-SALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALG  705 (899)
T ss_pred             HhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHH
Confidence            87543 67788899999999999999999999998764 3467889999999999999999999999998875 457788


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004744          558 YGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVR  637 (732)
Q Consensus       558 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  637 (732)
                      +..+...+...|++++|.+.|+++...+  |+..++..++.++.+.|++++|.+.++++.+.. +.+...+..++..|.+
T Consensus       706 ~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~  782 (899)
T TIGR02917       706 FELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLA  782 (899)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            8899999999999999999999999874  555778889999999999999999999998864 4578889999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHH
Q 004744          638 EENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTLINGHVSQNNLKEAFR  716 (732)
Q Consensus       638 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~  716 (732)
                      .|++++|.+.|+++.+.. +++..+++.++..+...|+ .+|..+++++.+  ..| +...+..++.++...|++++|.+
T Consensus       783 ~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~--~~~~~~~~~~~~~~~~~~~g~~~~A~~  858 (899)
T TIGR02917       783 QKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALK--LAPNIPAILDTLGWLLVEKGEADRALP  858 (899)
T ss_pred             CcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHh--hCCCCcHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999999853 4567889999999999999 889999999998  566 45788899999999999999999


Q ss_pred             HHHHHHHCC
Q 004744          717 FHDEMLQRG  725 (732)
Q Consensus       717 ~~~~m~~~g  725 (732)
                      +++++++.+
T Consensus       859 ~~~~a~~~~  867 (899)
T TIGR02917       859 LLRKAVNIA  867 (899)
T ss_pred             HHHHHHhhC
Confidence            999999754

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=2.3e-28  Score=286.68  Aligned_cols=615  Identities=13%  Similarity=0.029  Sum_probs=443.9

Q ss_pred             cChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHH
Q 004744           95 DNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFD  174 (732)
Q Consensus        95 ~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  174 (732)
                      ++.+.|.+.+..+....|+   ++..+..++.++.+.|+.++|...+++.++..+..+...  .+...+....++.....
T Consensus        42 ~~~d~a~~~l~kl~~~~p~---~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~~~~~~--~~~~~~~~~~~~~~~~l  116 (1157)
T PRK11447         42 HREDLVRQSLYRLELIDPN---NPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPDSNAYR--SSRTTMLLSTPEGRQAL  116 (1157)
T ss_pred             CChHHHHHHHHHHHccCCC---CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCChHHH--HHHHHHHhcCCchhhHH
Confidence            6788888888888877776   688999999999999999999999999987654433211  11111112233344456


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 004744          175 LVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDH  254 (732)
Q Consensus       175 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  254 (732)
                      .+++.+.+.|++++|+..|+++.+.++.................|+.++|++.|+++++.. |.+...+..+...+...|
T Consensus       117 ~~A~ll~~~g~~~eA~~~~~~~l~~~p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~~~g  195 (1157)
T PRK11447        117 QQARLLATTGRTEEALASYDKLFNGAPPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLLFSSG  195 (1157)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHccCCCCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHccC
Confidence            6777899999999999999999877544222221111222234589999999999998875 667788889999999999


Q ss_pred             ChhHHHHHHHHHHhCCC------------------C--------------CCHHHH---------------------HHH
Q 004744          255 KIDSAKMFLCEMEQKGV------------------Y--------------PDTVTY---------------------NTL  281 (732)
Q Consensus       255 ~~~~A~~~~~~~~~~g~------------------~--------------p~~~~~---------------------~~l  281 (732)
                      +.++|+..++++.+...                  .              |+....                     ...
T Consensus       196 ~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~  275 (1157)
T PRK11447        196 RRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQ  275 (1157)
T ss_pred             CHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHH
Confidence            99999999998765321                  0              000000                     011


Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-CHHhH------------
Q 004744          282 INAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSP-DTATY------------  348 (732)
Q Consensus       282 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~-~~~~~------------  348 (732)
                      ...+...|++++|+..|++..+.... +..++..+...+.+.|++++|+..|++.++..... +...+            
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~P~-~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRANPK-DSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            34456678888888888888776433 67778888888888888888888888887653211 11111            


Q ss_pred             HHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 004744          349 NTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRN  428 (732)
Q Consensus       349 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~  428 (732)
                      ......+.+.|++++|.+.|+++.+... .+...+..+...+...|++++|++.|+++.+... .+...+..+...|. .
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p-~~~~a~~~L~~l~~-~  431 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVDN-TDSYAVLGLGDVAMARKDYAAAERYYQQALRMDP-GNTNAVRGLANLYR-Q  431 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH-h
Confidence            1223456678888888888888877643 2566777788888888888888888888876532 24455666666664 4


Q ss_pred             CCHHHHHHHHHHHHHCCCC--------cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 004744          429 GFVLEALKMRDEMLEKGCV--------MDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGN  500 (732)
Q Consensus       429 g~~~~A~~~~~~~~~~~~~--------~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  500 (732)
                      ++.++|+..++.+......        .....+..+...+...|++++|++.|++.++..+. +...+..+...|.+.|+
T Consensus       432 ~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~  510 (1157)
T PRK11447        432 QSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQ  510 (1157)
T ss_pred             cCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCC
Confidence            5678887777654332100        01223455667788889999999999999887654 66777888888999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH---------HHHHHHHHHHhcCCH
Q 004744          501 MNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYI---------SYGILINGYCSMGHV  571 (732)
Q Consensus       501 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---------~~~~li~~~~~~g~~  571 (732)
                      +++|...++++.+... .+...+..+...+.+.++.++|...++.+......++..         .+..+...+...|+.
T Consensus       511 ~~~A~~~l~~al~~~P-~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~  589 (1157)
T PRK11447        511 RSQADALMRRLAQQKP-NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKE  589 (1157)
T ss_pred             HHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCH
Confidence            9999999999887543 244555555556677889999999888765432222221         123456778889999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          572 TEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKM  651 (732)
Q Consensus       572 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  651 (732)
                      ++|..+++.     .+.+...+..+...+.+.|++++|++.|+++++.. +.+...+..++..+...|++++|++.++.+
T Consensus       590 ~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~l  663 (1157)
T PRK11447        590 AEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKL  663 (1157)
T ss_pred             HHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            999998872     35677778889999999999999999999999864 335788899999999999999999999998


Q ss_pred             HHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-C
Q 004744          652 ENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGL--NP---DRSTYTTLINGHVSQNNLKEAFRFHDEMLQ-R  724 (732)
Q Consensus       652 ~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~--~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-~  724 (732)
                      .+  ..| +..++..+..++...|++++|..+++++.+...  .|   +...+..++..+...|++++|...+++.+. .
T Consensus       664 l~--~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~  741 (1157)
T PRK11447        664 PA--TANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVAS  741 (1157)
T ss_pred             hc--cCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc
Confidence            87  345 456777888899999999999999999987321  12   224677788999999999999999999974 4


Q ss_pred             CCCCC
Q 004744          725 GFVPD  729 (732)
Q Consensus       725 g~~pd  729 (732)
                      |+.|+
T Consensus       742 ~~~~~  746 (1157)
T PRK11447        742 GITPT  746 (1157)
T ss_pred             CCCCC
Confidence            56553

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=100.00  E-value=7.7e-27  Score=273.88  Aligned_cols=568  Identities=11%  Similarity=0.011  Sum_probs=385.8

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCC
Q 004744          121 LSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKG  200 (732)
Q Consensus       121 ~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  200 (732)
                      .-..++..-..++.+.|.+.+.+++                  ...+.++.++..++..+.+.|+.++|.+.++++.+..
T Consensus        31 Ll~q~~~~~~~~~~d~a~~~l~kl~------------------~~~p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~   92 (1157)
T PRK11447         31 LLEQVRLGEATHREDLVRQSLYRLE------------------LIDPNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLA   92 (1157)
T ss_pred             HHHHHHHHHhhCChHHHHHHHHHHH------------------ccCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC
Confidence            4566677778899999999999987                  3456778999999999999999999999999999987


Q ss_pred             CccCHHHH----------------HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH-HHHHHHHHHhcCChhHHHHHH
Q 004744          201 ICFSINAC----------------NSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYT-LNIMVNALCKDHKIDSAKMFL  263 (732)
Q Consensus       201 ~~~~~~~~----------------~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~~~  263 (732)
                      +. +...+                ..+...+.+.|++++|.+.|+.+.+.+ +++... ...+.......|+.++|+..+
T Consensus        93 P~-~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L  170 (1157)
T PRK11447         93 PD-SNAYRSSRTTMLLSTPEGRQALQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQL  170 (1157)
T ss_pred             CC-ChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHH
Confidence            65 33332                334457889999999999999998764 444432 111222223459999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCC------------------CC-HhhHH----------
Q 004744          264 CEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLK------------------PG-VFTYN----------  314 (732)
Q Consensus       264 ~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~------------------p~-~~~~~----------  314 (732)
                      +++.+..+. +...+..+...+...|+.++|++.++++......                  +. ...+.          
T Consensus       171 ~~ll~~~P~-~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~  249 (1157)
T PRK11447        171 QRLNADYPG-NTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGD  249 (1157)
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCch
Confidence            999998533 6677889999999999999999999998653210                  00 00000          


Q ss_pred             ------------------------HHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHH
Q 004744          315 ------------------------SLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCE  370 (732)
Q Consensus       315 ------------------------~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  370 (732)
                                              .....+...|++++|+..|++.++.. +.+..++..+...+.+.|++++|++.|++
T Consensus       250 ~~~~A~~~L~~~~~~~~dp~~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~  328 (1157)
T PRK11447        250 SVAAARSQLAEQQKQLADPAFRARAQGLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEK  328 (1157)
T ss_pred             HHHHHHHHHHHHHHhccCcchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                                    11223445566666666666666543 23455666666666666666666666666


Q ss_pred             HHhCCCCC-CHhHH------------HHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 004744          371 MSRRGVAP-DIVSF------------STLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKM  437 (732)
Q Consensus       371 ~~~~g~~~-~~~~~------------~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  437 (732)
                      ..+..... ....|            ......+.+.|++++|...|+++.+... .+...+..+...+...|++++|++.
T Consensus       329 Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~  407 (1157)
T PRK11447        329 ALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDN-TDSYAVLGLGDVAMARKDYAAAERY  407 (1157)
T ss_pred             HHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            66543221 11111            1123345566666666666666665532 2444555566666666666666666


Q ss_pred             HHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--------CCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          438 RDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVF--------PDFYTFTTLIHGHCKDGNMNKALNLFD  509 (732)
Q Consensus       438 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~  509 (732)
                      |++.++..+. +...+..+...+. .++.++|..+++.+......        .....+..+...+...|++++|+..++
T Consensus       408 y~~aL~~~p~-~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~  485 (1157)
T PRK11447        408 YQQALRMDPG-NTNAVRGLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQR  485 (1157)
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHH
Confidence            6666655333 3444555555443 34556666665543321100        011223445566667788888888888


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 004744          510 IMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPT  589 (732)
Q Consensus       510 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~  589 (732)
                      +.++.... +...+..+...|.+.|++++|...++++.+... .+...+..+...+...|+.++|+..++.+......++
T Consensus       486 ~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P-~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~  563 (1157)
T PRK11447        486 QRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRRLAQQKP-NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSN  563 (1157)
T ss_pred             HHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChh
Confidence            87776432 556666777778888888888888888776532 2444444455556677888888887776543322222


Q ss_pred             HH---------HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-C
Q 004744          590 LV---------SCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVP-D  659 (732)
Q Consensus       590 ~~---------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~  659 (732)
                      ..         .+......+...|+.++|+++++.     .+.+...+..+...+.+.|++++|+..++++.+.  .| +
T Consensus       564 ~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~  636 (1157)
T PRK11447        564 IQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGN  636 (1157)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCC
Confidence            11         122445667888999999988872     2345667778899999999999999999999984  45 5


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          660 VITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-RSTYTTLINGHVSQNNLKEAFRFHDEMLQR  724 (732)
Q Consensus       660 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  724 (732)
                      ...+..++..+...|++++|+..++++.+  ..|+ ...+..++.++...|++++|.++++++++.
T Consensus       637 ~~a~~~la~~~~~~g~~~eA~~~l~~ll~--~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        637 ADARLGLIEVDIAQGDLAAARAQLAKLPA--TANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhc--cCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            67889999999999999999999999887  6664 577888999999999999999999999863

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.97  E-value=1.7e-24  Score=241.85  Aligned_cols=589  Identities=11%  Similarity=0.027  Sum_probs=379.9

Q ss_pred             hHHHHHHHHhhccChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhh
Q 004744           83 SVIIVEVLYRLRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVST  162 (732)
Q Consensus        83 ~~~~~~~l~~~~~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  162 (732)
                      +......+....++++.|...|+.+....|+   +..++..|+.+|...|++++|...+.++++.               
T Consensus        46 ~~f~~a~~~~~~Gd~~~A~~~l~~Al~~dP~---n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~l---------------  107 (987)
T PRK09782         46 PRLDKALKAQKNNDEATAIREFEYIHQQVPD---NIPLTLYLAEAYRHFGHDDRARLLLEDQLKR---------------  107 (987)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---------------
Confidence            3344455555568999999999999998886   5889999999999999999999999999843               


Q ss_pred             cCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHH--------HHHcCChHHHHHHHHHHHHc
Q 004744          163 YSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGG--------LVKIGWVDLAREVYAEVVRS  234 (732)
Q Consensus       163 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~--------~~~~g~~~~a~~~~~~~~~~  234 (732)
                         .+.|...+..+...    ++.++|..+|+++.+..+. +...+..+...        |.+.   ++|.+.++ ....
T Consensus       108 ---dP~n~~~~~~La~i----~~~~kA~~~ye~l~~~~P~-n~~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~  175 (987)
T PRK09782        108 ---HPGDARLERSLAAI----PVEVKSVTTVEELLAQQKA-CDAVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATF  175 (987)
T ss_pred             ---CcccHHHHHHHHHh----ccChhHHHHHHHHHHhCCC-ChhHHHHHHHHhhccchhhhhhH---HHHHHHHH-Hhhh
Confidence               44555556555333    8889999999999988766 55566555555        6655   44444444 2222


Q ss_pred             CCCCCHHHHHHH-HHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH-cCCHHHHHHHHHHHhhCCCCCCHhh
Q 004744          235 GIELNVYTLNIM-VNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCR-EGFLEEAFQLMNSMSGKGLKPGVFT  312 (732)
Q Consensus       235 ~~~~~~~~~~~l-~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~g~~p~~~~  312 (732)
                      ...|+..+.... ...|.+.|++++|+..+.++.+.++. +......|..+|.. .++ +++..+++..    ++.+...
T Consensus       176 ~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~~----lk~d~~l  249 (987)
T PRK09782        176 AASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQG----IFTDPQS  249 (987)
T ss_pred             CCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhchh----cccCHHH
Confidence            233345544544 88999999999999999999998654 45557777778887 477 8888886542    2348888


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCC-CCHHhHHH------------------------------HHHHHHcCCCH
Q 004744          313 YNSLINGLCKKGRCDRAKEVLDEMLQMGLS-PDTATYNT------------------------------LLVESCRKENM  361 (732)
Q Consensus       313 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~-~~~~~~~~------------------------------li~~~~~~g~~  361 (732)
                      +..++..|.+.|+.++|.++++++...... |+..+|.-                              ++..+.+.+++
T Consensus       250 ~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  329 (987)
T PRK09782        250 RITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQY  329 (987)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHH
Confidence            999999999999999999999887643211 33222221                              13444455555


Q ss_pred             hHHHHHHHHHHhCCCCCCHhHHHHHHHHH--HhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 004744          362 SEAEEIFCEMSRRGVAPDIVSFSTLIGIF--SRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRD  439 (732)
Q Consensus       362 ~~A~~~~~~~~~~g~~~~~~~~~~l~~~~--~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  439 (732)
                      +.+.++.+      +.|....  ..+...  ...+...++...+..|.+.. +-+......+.-...+.|+.++|..+++
T Consensus       330 ~~~~~~~~------~~~~~~~--~~~r~~~~~~~~~~~~~~~~~~~~y~~~-~~~~~~l~q~~~~~~~~~~~~~a~~~~~  400 (987)
T PRK09782        330 DAAQKLLA------TLPANEM--LEERYAVSVATRNKAEALRLARLLYQQE-PANLTRLDQLTWQLMQNGQSREAADLLL  400 (987)
T ss_pred             HHHHHHhc------CCCcchH--HHHHHhhccccCchhHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcccHHHHHHHHH
Confidence            54444321      2222221  122111  12345555555555555431 1244444444445567777777777777


Q ss_pred             HHHHC-C-CCcCHHHHHHHHHHHHhcCC---HHHHHHH----------------------HHHHHHc-CC-CC--CHHHH
Q 004744          440 EMLEK-G-CVMDVVTYNTILNGLCRAKM---LTEADDL----------------------FNEMLER-GV-FP--DFYTF  488 (732)
Q Consensus       440 ~~~~~-~-~~~~~~~~~~li~~~~~~~~---~~~A~~~----------------------~~~~~~~-~~-~~--~~~~~  488 (732)
                      ..... + -..+.....-++..|.+.+.   ..++..+                      +...... +. ++  +...|
T Consensus       401 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~  480 (987)
T PRK09782        401 QRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAW  480 (987)
T ss_pred             HhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHH
Confidence            77652 1 12234444456666666554   2222222                      1111111 11 22  45566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004744          489 TTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSM  568 (732)
Q Consensus       489 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  568 (732)
                      ..+..++.. ++.++|+..+.+.....  |+......+...+...|++++|...|+++...  +|+...+..+...+.+.
T Consensus       481 ~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~  555 (987)
T PRK09782        481 NRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAA  555 (987)
T ss_pred             HHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHC
Confidence            666666655 67777887777666542  44433333444445778888888888776554  33444455666677778


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 004744          569 GHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALV  648 (732)
Q Consensus       569 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  648 (732)
                      |+.++|...+++.++.. +.+...+..+.....+.|++++|...+++.++.  .|+...+..+...+.+.|++++|+..+
T Consensus       556 Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l  632 (987)
T PRK09782        556 GNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDL  632 (987)
T ss_pred             CCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            88888888888777663 333333333444444558888888888887764  356677777777788888888888888


Q ss_pred             HHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004744          649 SKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGF  726 (732)
Q Consensus       649 ~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  726 (732)
                      +++..  ..| +...++.+..++...|+.++|+..++++++  ..| +...+..++.++...|++++|...+++.+  .+
T Consensus       633 ~~AL~--l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~--l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al--~l  706 (987)
T PRK09782        633 RAALE--LEPNNSNYQAALGYALWDSGDIAQSREMLERAHK--GLPDDPALIRQLAYVNQRLDDMAATQHYARLVI--DD  706 (987)
T ss_pred             HHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH--hc
Confidence            88877  445 345667777777788888888888888877  666 45777788888888888888888888877  34


Q ss_pred             CCCC
Q 004744          727 VPDD  730 (732)
Q Consensus       727 ~pd~  730 (732)
                      .|+.
T Consensus       707 ~P~~  710 (987)
T PRK09782        707 IDNQ  710 (987)
T ss_pred             CCCC
Confidence            4543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.96  E-value=9.6e-23  Score=227.98  Aligned_cols=553  Identities=13%  Similarity=0.063  Sum_probs=402.5

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCc
Q 004744          123 AMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGIC  202 (732)
Q Consensus       123 ~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  202 (732)
                      .....+...|++++|...|.++++.                  .|.++.++..|...|.+.|+.++|+..+++..+..+.
T Consensus        49 ~~a~~~~~~Gd~~~A~~~l~~Al~~------------------dP~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~  110 (987)
T PRK09782         49 DKALKAQKNNDEATAIREFEYIHQQ------------------VPDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPG  110 (987)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHh------------------CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcc
Confidence            3334445569999999999999843                  5566888999999999999999999999999998653


Q ss_pred             cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH--------HHhcCChhHHHHHHHHHHhCCCCCC
Q 004744          203 FSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA--------LCKDHKIDSAKMFLCEMEQKGVYPD  274 (732)
Q Consensus       203 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--------~~~~g~~~~A~~~~~~~~~~g~~p~  274 (732)
                       |...+..+ ..+   +++++|.++|+++.+.. |.+..++..+...        |.+.   ++|.+.++ .......|+
T Consensus       111 -n~~~~~~L-a~i---~~~~kA~~~ye~l~~~~-P~n~~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~~  180 (987)
T PRK09782        111 -DARLERSL-AAI---PVEVKSVTTVEELLAQQ-KACDAVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASPE  180 (987)
T ss_pred             -cHHHHHHH-HHh---ccChhHHHHHHHHHHhC-CCChhHHHHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCCC
Confidence             55555554 222   99999999999999875 5666677666665        5555   55555555 443333445


Q ss_pred             HHHHHHH-HHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh-cCChhHHHHHHHHHHHCCCCCCHHhHHHHH
Q 004744          275 TVTYNTL-INAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCK-KGRCDRAKEVLDEMLQMGLSPDTATYNTLL  352 (732)
Q Consensus       275 ~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~~g~~~~~~~~~~li  352 (732)
                      ..+.... ...|.+.|++++|++++.++.+.+.. +......|...|.. .++ +++..+++.    .+..+...+..++
T Consensus       181 ~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala  254 (987)
T PRK09782        181 GKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYA  254 (987)
T ss_pred             cHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHH
Confidence            5544444 89999999999999999999998654 56667778888888 477 888888654    2346788899999


Q ss_pred             HHHHcCCCHhHHHHHHHHHHhCCCC-CCHhHH------------------------------HHHHHHHHhCCCHHHHHH
Q 004744          353 VESCRKENMSEAEEIFCEMSRRGVA-PDIVSF------------------------------STLIGIFSRNGQLDRALM  401 (732)
Q Consensus       353 ~~~~~~g~~~~A~~~~~~~~~~g~~-~~~~~~------------------------------~~l~~~~~~~g~~~~A~~  401 (732)
                      ..|.+.|+.++|.+++.++...-.. |...+|                              ..++..+.+.++++.+.+
T Consensus       255 ~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  334 (987)
T PRK09782        255 TALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQK  334 (987)
T ss_pred             HHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHH
Confidence            9999999999999999987543211 222221                              222555666677775554


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHH--HHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004744          402 YFREMKSAGLVPDNVLYTIIINGY--CRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLER  479 (732)
Q Consensus       402 l~~~~~~~~~~~~~~~~~~li~~~--~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  479 (732)
                      +..      +.|.....  .++..  ...+...++.+.+..|.+..+. +......+.....+.|+.++|..+|+.....
T Consensus       335 ~~~------~~~~~~~~--~~r~~~~~~~~~~~~~~~~~~~~y~~~~~-~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~  405 (987)
T PRK09782        335 LLA------TLPANEML--EERYAVSVATRNKAEALRLARLLYQQEPA-NLTRLDQLTWQLMQNGQSREAADLLLQRYPF  405 (987)
T ss_pred             Hhc------CCCcchHH--HHHHhhccccCchhHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHhcCC
Confidence            421      33333322  22222  2346777777777777776433 5666666666688999999999999998763


Q ss_pred             --CCCCCHHHHHHHHHHHHhcCC---HHHHHHH----------------------HHHHHHC-C-CCC--CHHHHHHHHH
Q 004744          480 --GVFPDFYTFTTLIHGHCKDGN---MNKALNL----------------------FDIMTQK-S-IKP--DIVTYNTLID  528 (732)
Q Consensus       480 --~~~~~~~~~~~li~~~~~~g~---~~~A~~~----------------------~~~~~~~-~-~~~--~~~~~~~li~  528 (732)
                        +-.++......++..|.+.+.   ...+..+                      +...... + .++  +...|..+..
T Consensus       406 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~  485 (987)
T PRK09782        406 QGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAK  485 (987)
T ss_pred             CcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHH
Confidence              122344455577888877765   3333322                      1111111 1 133  5677777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHH
Q 004744          529 GFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASK  608 (732)
Q Consensus       529 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  608 (732)
                      ++.. ++.++|...+.+.....  |+......+...+...|++++|...|+++...  +|+...+..+...+.+.|+.++
T Consensus       486 ~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~e  560 (987)
T PRK09782        486 CYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAA  560 (987)
T ss_pred             HHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHH
Confidence            7776 89999999888888763  45544444555567899999999999998665  5555667777888999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          609 ADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       609 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      |..++++.++.. +.+...+..+...+.+.|++++|...+++..+  ..|+...|..+..++.+.|+.++|+..++++++
T Consensus       561 A~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~--l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~  637 (987)
T PRK09782        561 RDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLN--IAPSANAYVARATIYRQRHNVPAAVSDLRAALE  637 (987)
T ss_pred             HHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH--hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999998864 22333333444455567999999999999998  678888999999999999999999999999999


Q ss_pred             cCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCC
Q 004744          689 KGLNPD-RSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDD  730 (732)
Q Consensus       689 ~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~  730 (732)
                        ..|+ ...+..++.++...|++++|...+++.++  ..|+.
T Consensus       638 --l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~--l~P~~  676 (987)
T PRK09782        638 --LEPNNSNYQAALGYALWDSGDIAQSREMLERAHK--GLPDD  676 (987)
T ss_pred             --hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCC
Confidence              7885 68899999999999999999999999985  45554

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

Probab=99.96  E-value=2.1e-22  Score=209.77  Aligned_cols=599  Identities=13%  Similarity=0.111  Sum_probs=453.4

Q ss_pred             ChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHH
Q 004744           96 NLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDL  175 (732)
Q Consensus        96 ~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  175 (732)
                      +.+.|.+.|.++...+|+   +...+-.-+.+....|+|..|..+|..+++.++.               |.+++.+  .
T Consensus       145 ~~~~A~a~F~~Vl~~sp~---Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~---------------~~aD~rI--g  204 (1018)
T KOG2002|consen  145 SMDDADAQFHFVLKQSPD---NILALLGKARIAYNKKDYRGALKYYKKALRINPA---------------CKADVRI--G  204 (1018)
T ss_pred             cHHHHHHHHHHHHhhCCc---chHHHHHHHHHHhccccHHHHHHHHHHHHhcCcc---------------cCCCccc--h
Confidence            357899999999888765   6666666777777889999999999998865432               3333332  3


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHc---CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004744          176 VIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKI---GWVDLAREVYAEVVRSGIELNVYTLNIMVNALCK  252 (732)
Q Consensus       176 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~---g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  252 (732)
                      +..++.+.|+.+.|+..|.++.+.++. ++.++-.|...-...   ..+..+...+..+-..+ +.|+.+.+.|.+.|.-
T Consensus       205 ig~Cf~kl~~~~~a~~a~~ralqLdp~-~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyf  282 (1018)
T KOG2002|consen  205 IGHCFWKLGMSEKALLAFERALQLDPT-CVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYF  282 (1018)
T ss_pred             hhhHHHhccchhhHHHHHHHHHhcChh-hHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhh
Confidence            457788999999999999999998653 455554444433333   35777888888877765 7888999999999999


Q ss_pred             cCChhHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHH
Q 004744          253 DHKIDSAKMFLCEMEQKGVYP--DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAK  330 (732)
Q Consensus       253 ~g~~~~A~~~~~~~~~~g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  330 (732)
                      .|+++.+..+.+.+......-  -..+|..+..+|...|++++|...|.+.......-.+..+--|...|.+.|+++.+.
T Consensus       283 K~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~  362 (1018)
T KOG2002|consen  283 KKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESK  362 (1018)
T ss_pred             cccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHH
Confidence            999999999999998763211  134578899999999999999999999887643322455667788999999999999


Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHHHHHcCC----CHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHH
Q 004744          331 EVLDEMLQMGLSPDTATYNTLLVESCRKE----NMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREM  406 (732)
Q Consensus       331 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g----~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~  406 (732)
                      ..|+.+.+.. +.+..+...|...|...+    ..+.|..++.+..+.- +.|...|-.+...+.+..-+.. +..|..+
T Consensus       363 ~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~~s-L~~~~~A  439 (1018)
T KOG2002|consen  363 FCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPWAS-LDAYGNA  439 (1018)
T ss_pred             HHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChHHH-HHHHHHH
Confidence            9999999863 445567777777777765    5678888888887764 3377888888877766554444 7776654


Q ss_pred             H----HCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC---CCCcC------HHHHHHHHHHHHhcCCHHHHHHHH
Q 004744          407 K----SAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEK---GCVMD------VVTYNTILNGLCRAKMLTEADDLF  473 (732)
Q Consensus       407 ~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~------~~~~~~li~~~~~~~~~~~A~~~~  473 (732)
                      .    ..+..+.+...|.+...+...|.+++|...|......   ...+|      ..+-..+...+-..++.+.|.+.|
T Consensus       440 ~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Y  519 (1018)
T KOG2002|consen  440 LDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMY  519 (1018)
T ss_pred             HHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHH
Confidence            3    4555678889999999999999999999999988765   12222      223445666677788999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CC
Q 004744          474 NEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRK-IS  552 (732)
Q Consensus       474 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~  552 (732)
                      ..+.+..+. -+..|..+.......+...+|...++.....+ ..++..++.+.+.+.+..++..|.+-|..+.+.- ..
T Consensus       520 k~Ilkehp~-YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~  597 (1018)
T KOG2002|consen  520 KSILKEHPG-YIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTK  597 (1018)
T ss_pred             HHHHHHCch-hHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccC
Confidence            999987432 23345555544445678999999999988753 3366677777888999999999999777776542 22


Q ss_pred             CCHHHHHHHHHHHHh------------cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 004744          553 PNYISYGILINGYCS------------MGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEG  620 (732)
Q Consensus       553 ~~~~~~~~li~~~~~------------~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  620 (732)
                      +|..+.-+|.+.|.+            .+..++|+++|.+.++.. |.|...-|.+.-.++..|++.+|..+|.+..+..
T Consensus       598 ~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~  676 (1018)
T KOG2002|consen  598 TDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREAT  676 (1018)
T ss_pred             CchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHH
Confidence            577777777776543            245788999999999874 7788888899999999999999999999999864


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-H-HH
Q 004744          621 VDPDSISYNTLINGFVREENMDKAFALVSKMENQ-GLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-R-ST  697 (732)
Q Consensus       621 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~-~~  697 (732)
                      . ....+|-.+.++|...|++..|+++|+...+. +...+..+...|..++.+.|.+.+|...+..+..  ..|. . ..
T Consensus       677 ~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~--~~p~~~~v~  753 (1018)
T KOG2002|consen  677 S-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARH--LAPSNTSVK  753 (1018)
T ss_pred             h-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHH--hCCccchHH
Confidence            3 34567889999999999999999999987763 3344677889999999999999999999999988  5663 2 33


Q ss_pred             HHHHH------------------HHHHhcCCHHHHHHHHHHHHHCC
Q 004744          698 YTTLI------------------NGHVSQNNLKEAFRFHDEMLQRG  725 (732)
Q Consensus       698 ~~~l~------------------~~~~~~g~~~~A~~~~~~m~~~g  725 (732)
                      ++..+                  ......+..++|.++|.+|...+
T Consensus       754 FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~  799 (1018)
T KOG2002|consen  754 FNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNG  799 (1018)
T ss_pred             hHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            33332                  22234456788888888887654

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

Probab=99.95  E-value=1.7e-24  Score=213.59  Aligned_cols=389  Identities=14%  Similarity=0.156  Sum_probs=250.8

Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHh-HHHHHHH
Q 004744          310 VFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIV-SFSTLIG  388 (732)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~-~~~~l~~  388 (732)
                      ..+|..+...+-..|++++|+..++.+++.. +.....|..+..++...|+.+.|.+.|.+.++.  .|+.. ..+.+..
T Consensus       116 ae~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgn  192 (966)
T KOG4626|consen  116 AEAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGN  192 (966)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhH
Confidence            3344444444444444444444444444432 112334444444444444444444444444432  12211 1222223


Q ss_pred             HHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 004744          389 IFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTE  468 (732)
Q Consensus       389 ~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  468 (732)
                      .+-..|++++|...|.+..+... -=...|+.|...+-..|++..|+..|++.++.++. -...|-.|...|...+.++.
T Consensus       193 Llka~Grl~ea~~cYlkAi~~qp-~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~-f~dAYiNLGnV~ke~~~~d~  270 (966)
T KOG4626|consen  193 LLKAEGRLEEAKACYLKAIETQP-CFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPN-FLDAYINLGNVYKEARIFDR  270 (966)
T ss_pred             HHHhhcccchhHHHHHHHHhhCC-ceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCc-chHHHhhHHHHHHHHhcchH
Confidence            33334444444444444443311 01234444444555555555555555555544322 23445556666666667777


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          469 ADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMIS  548 (732)
Q Consensus       469 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  548 (732)
                      |...|.......+. ..+.+..+...|..+|.+|.|+..|++.++.... =...|+.|..++-..|++.+|...|.+.+.
T Consensus       271 Avs~Y~rAl~lrpn-~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~  348 (966)
T KOG4626|consen  271 AVSCYLRALNLRPN-HAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALR  348 (966)
T ss_pred             HHHHHHHHHhcCCc-chhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHH
Confidence            77777666654332 4556667777777778888888888777765322 346777888888888888888888888877


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHH
Q 004744          549 RKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPD-SIS  627 (732)
Q Consensus       549 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~  627 (732)
                      ... ....+.+.|.+.|...|++++|..+|....+-. +.=....+.+...|-+.|++++|+..|++.+.  +.|+ ...
T Consensus       349 l~p-~hadam~NLgni~~E~~~~e~A~~ly~~al~v~-p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda  424 (966)
T KOG4626|consen  349 LCP-NHADAMNNLGNIYREQGKIEEATRLYLKALEVF-PEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADA  424 (966)
T ss_pred             hCC-ccHHHHHHHHHHHHHhccchHHHHHHHHHHhhC-hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHH
Confidence            632 255677788888888889999998888887652 33356788888899999999999999998887  6676 568


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHH
Q 004744          628 YNTLINGFVREENMDKAFALVSKMENQGLVPDV-ITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDR-STYTTLINGH  705 (732)
Q Consensus       628 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~  705 (732)
                      |+.+...|-..|+++.|++.+.+++.  +.|.. ..++.|.+.|...|++.+|+.-++++++  ++||. ..|-.++.++
T Consensus       425 ~~NmGnt~ke~g~v~~A~q~y~rAI~--~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDfpdA~cNllh~l  500 (966)
T KOG4626|consen  425 LSNMGNTYKEMGDVSAAIQCYTRAIQ--INPTFAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDFPDAYCNLLHCL  500 (966)
T ss_pred             HHhcchHHHHhhhHHHHHHHHHHHHh--cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCCchhhhHHHHHH
Confidence            88999999999999999999999998  66764 4788999999999999999999999999  88984 7888888877


Q ss_pred             HhcCCHHH
Q 004744          706 VSQNNLKE  713 (732)
Q Consensus       706 ~~~g~~~~  713 (732)
                      .-..+|.+
T Consensus       501 q~vcdw~D  508 (966)
T KOG4626|consen  501 QIVCDWTD  508 (966)
T ss_pred             HHHhcccc
Confidence            76666655

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

Probab=99.95  E-value=7.7e-24  Score=209.06  Aligned_cols=435  Identities=15%  Similarity=0.099  Sum_probs=362.2

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHc
Q 004744          278 YNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCR  357 (732)
Q Consensus       278 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~  357 (732)
                      ...|.+-..+.|++++|++.-...-..+. .+....-.+-..+.+..+.+.....-....+.. +.-..+|..+.+.+-.
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 RLELAHRLYQGGDYKQAEKHCNMVGQEDP-TNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccCC-Ccccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHH
Confidence            45567777888999999987665544432 233444444556777777776666555555432 4456789999999999


Q ss_pred             CCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHHcCCHHHHHH
Q 004744          358 KENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLY-TIIINGYCRNGFVLEALK  436 (732)
Q Consensus       358 ~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~-~~li~~~~~~g~~~~A~~  436 (732)
                      .|++++|+..++.+++...+ .+..|..+..++...|+.+.|.+.|.+..+.  .|+.... +.+.......|++++|..
T Consensus       129 rg~~~~al~~y~~aiel~p~-fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~  205 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIELKPK-FIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKA  205 (966)
T ss_pred             hchHHHHHHHHHHHHhcCch-hhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHH
Confidence            99999999999999987543 7889999999999999999999999998875  4555433 345555666899999999


Q ss_pred             HHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004744          437 MRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSI  516 (732)
Q Consensus       437 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  516 (732)
                      .+.+.++..+. =.+.|..|...+-.+|+...|+..|++..+.++. -...|..|...|...+.+++|+..|.+......
T Consensus       206 cYlkAi~~qp~-fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~-f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrp  283 (966)
T KOG4626|consen  206 CYLKAIETQPC-FAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPN-FLDAYINLGNVYKEARIFDRAVSCYLRALNLRP  283 (966)
T ss_pred             HHHHHHhhCCc-eeeeehhcchHHhhcchHHHHHHHHHHhhcCCCc-chHHHhhHHHHHHHHhcchHHHHHHHHHHhcCC
Confidence            99998886443 4577999999999999999999999999987543 356899999999999999999999999887633


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 004744          517 KPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTI  596 (732)
Q Consensus       517 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  596 (732)
                       .....+..+...|...|.+|-|+..|++.++..+. -...|+.|.+++...|++.+|.+.|++.+... +......+.+
T Consensus       284 -n~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NL  360 (966)
T KOG4626|consen  284 -NHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNL  360 (966)
T ss_pred             -cchhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHH
Confidence             25667777888899999999999999999987432 56789999999999999999999999999873 5557889999


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcC
Q 004744          597 IKGYCRSGDASKADEFLSKMVSEGVDPD-SISYNTLINGFVREENMDKAFALVSKMENQGLVPDV-ITYNVILTGFCRQG  674 (732)
Q Consensus       597 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g  674 (732)
                      ...|...|.+++|..+|.+..+  +.|. ....+.|...|-..|++++|+..+++++.  +.|+. ..|+.++..|-..|
T Consensus       361 gni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g  436 (966)
T KOG4626|consen  361 GNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMG  436 (966)
T ss_pred             HHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhh
Confidence            9999999999999999999987  4555 56789999999999999999999999998  88986 58999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCC
Q 004744          675 RMHDSELILWRMIEKGLNPD-RSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPDD  730 (732)
Q Consensus       675 ~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~  730 (732)
                      +++.|.+.+.+++.  +.|. ...++.|..+|..+|+..+|+.-+++.+  .++||.
T Consensus       437 ~v~~A~q~y~rAI~--~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aL--klkPDf  489 (966)
T KOG4626|consen  437 DVSAAIQCYTRAIQ--INPTFAEAHSNLASIYKDSGNIPEAIQSYRTAL--KLKPDF  489 (966)
T ss_pred             hHHHHHHHHHHHHh--cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHH--ccCCCC
Confidence            99999999999999  8897 5899999999999999999999999998  566663

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

Probab=99.94  E-value=1.3e-20  Score=196.58  Aligned_cols=561  Identities=13%  Similarity=0.061  Sum_probs=418.0

Q ss_pred             ChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHH
Q 004744          133 RISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLL  212 (732)
Q Consensus       133 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll  212 (732)
                      +++.|...|...++.+                  ++|.-.+-.-.......|++..|+.+|..++..++..-+...-.+.
T Consensus       145 ~~~~A~a~F~~Vl~~s------------------p~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rIgig  206 (1018)
T KOG2002|consen  145 SMDDADAQFHFVLKQS------------------PDNILALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRIGIG  206 (1018)
T ss_pred             cHHHHHHHHHHHHhhC------------------CcchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccchhh
Confidence            3577777777776543                  3333333333344456789999999999988765443333334445


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc---CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC
Q 004744          213 GGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKD---HKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREG  289 (732)
Q Consensus       213 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g  289 (732)
                      ..+++.|+.+.|+..|.++.+.+ |.++.++..|.-.-...   ..+..|...+...-..... |+++.+.|...|.-.|
T Consensus       207 ~Cf~kl~~~~~a~~a~~ralqLd-p~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~-nP~~l~~LAn~fyfK~  284 (1018)
T KOG2002|consen  207 HCFWKLGMSEKALLAFERALQLD-PTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNE-NPVALNHLANHFYFKK  284 (1018)
T ss_pred             hHHHhccchhhHHHHHHHHHhcC-hhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCC-CcHHHHHHHHHHhhcc
Confidence            67789999999999999999875 34444554444333333   3355677777776665433 7788899999999999


Q ss_pred             CHHHHHHHHHHHhhCCCC--CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH--HhHHHHHHHHHcCCCHhHHH
Q 004744          290 FLEEAFQLMNSMSGKGLK--PGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDT--ATYNTLLVESCRKENMSEAE  365 (732)
Q Consensus       290 ~~~~A~~~~~~m~~~g~~--p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~--~~~~~li~~~~~~g~~~~A~  365 (732)
                      +++.+..+...+......  .-...|-.+.++|...|++++|...|.+..+.  .+|.  ..+--|...|.+.|+++.+.
T Consensus       285 dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~--~~d~~~l~~~GlgQm~i~~~dle~s~  362 (1018)
T KOG2002|consen  285 DYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLPLVGLGQMYIKRGDLEESK  362 (1018)
T ss_pred             cHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCccccccchhHHHHHhchHHHHH
Confidence            999999999988765311  12345888999999999999999999888875  3444  44556789999999999999


Q ss_pred             HHHHHHHhCCCCCCHhHHHHHHHHHHhCC----CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 004744          366 EIFCEMSRRGVAPDIVSFSTLIGIFSRNG----QLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEM  441 (732)
Q Consensus       366 ~~~~~~~~~g~~~~~~~~~~l~~~~~~~g----~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  441 (732)
                      ..|+.+.+... .+..+...|...|...+    ..+.|..++.+..+.- +.|...|-.+...+-...-+.. +..+...
T Consensus       363 ~~fEkv~k~~p-~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~~s-L~~~~~A  439 (1018)
T KOG2002|consen  363 FCFEKVLKQLP-NNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPWAS-LDAYGNA  439 (1018)
T ss_pred             HHHHHHHHhCc-chHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChHHH-HHHHHHH
Confidence            99999988642 36677788888887775    5678888888877653 4477788887777765554443 6666554


Q ss_pred             H----HCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCCCH------HHHHHHHHHHHhcCCHHHHHHHH
Q 004744          442 L----EKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLER---GVFPDF------YTFTTLIHGHCKDGNMNKALNLF  508 (732)
Q Consensus       442 ~----~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~---~~~~~~------~~~~~li~~~~~~g~~~~A~~~~  508 (732)
                      .    ..+..+.+...|.+...+...|++++|...|......   ...+|.      .+-..+....-..++.+.|.+.|
T Consensus       440 ~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Y  519 (1018)
T KOG2002|consen  440 LDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMY  519 (1018)
T ss_pred             HHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHH
Confidence            3    4555688999999999999999999999999998765   112222      23445666777788999999999


Q ss_pred             HHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-C
Q 004744          509 DIMTQKSIKPD-IVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKG-I  586 (732)
Q Consensus       509 ~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~  586 (732)
                      ..+++..  |. +..|..++-+....+...+|...++...... ..++..++.+.+.+.+...+..|.+-|+...+.- .
T Consensus       520 k~Ilkeh--p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~  596 (1018)
T KOG2002|consen  520 KSILKEH--PGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTST  596 (1018)
T ss_pred             HHHHHHC--chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhcc
Confidence            9999862  33 2333334333334577889999999988764 4477788888889999999999999887776542 2


Q ss_pred             CCCHHHHHHHHHHHHH------------cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          587 KPTLVSCNTIIKGYCR------------SGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQ  654 (732)
Q Consensus       587 ~~~~~~~~~l~~~~~~------------~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  654 (732)
                      .+|..+..+|...|.+            .+..++|+++|.+.++.. +-|...-|.+.-.++..|++.+|..+|.+..+.
T Consensus       597 ~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa  675 (1018)
T KOG2002|consen  597 KTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREA  675 (1018)
T ss_pred             CCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHH
Confidence            3677777777776643            245788999999998854 346777888888999999999999999999986


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          655 GLVPDVITYNVILTGFCRQGRMHDSELILWRMIEK-GLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       655 g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      . .-+..+|..++.+|..+|++..|++.|+...++ +-.-+......|.+++.+.|++.+|.+.+...+.
T Consensus       676 ~-~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~  744 (1018)
T KOG2002|consen  676 T-SDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARH  744 (1018)
T ss_pred             H-hhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3 335568999999999999999999999998874 3233678899999999999999999999988874

>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=99.92  E-value=7.4e-20  Score=202.03  Aligned_cols=430  Identities=13%  Similarity=0.006  Sum_probs=303.3

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHH
Q 004744          241 YTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGL  320 (732)
Q Consensus       241 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  320 (732)
                      ..+....+.+.+.|++++|+..|++.++.  .|+...|..+..+|.+.|++++|++.++..++.+.. +..+|..+..+|
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--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPD-YSKALNRRANAY  204 (615)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHH
Confidence            45667788999999999999999999876  567888999999999999999999999999887433 677899999999


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHH
Q 004744          321 CKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRAL  400 (732)
Q Consensus       321 ~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~  400 (732)
                      ...|++++|+.-|......+-..+. ....++..+..    ..+........+.. +++...+..+...+ .....+.+.
T Consensus       205 ~~lg~~~eA~~~~~~~~~~~~~~~~-~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~~~-~~~~~~~~~  277 (615)
T TIGR00990       205 DGLGKYADALLDLTASCIIDGFRNE-QSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGNYL-QSFRPKPRP  277 (615)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCccH-HHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHHHH-HHccCCcch
Confidence            9999999999988877654322222 22222222222    22333333333322 11222333333222 221222222


Q ss_pred             HHHHHHHHCCCCCCH-HHHHHHHHH---HHHcCCHHHHHHHHHHHHHCCC--CcCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          401 MYFREMKSAGLVPDN-VLYTIIING---YCRNGFVLEALKMRDEMLEKGC--VMDVVTYNTILNGLCRAKMLTEADDLFN  474 (732)
Q Consensus       401 ~l~~~~~~~~~~~~~-~~~~~li~~---~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~A~~~~~  474 (732)
                      .-+.+..+.  .+.. ..+..+...   ....+++++|++.|++.++.+.  +.....++.+...+...|++++|+..|+
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            212211111  1111 111111111   1234688999999999987641  2345678888888889999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 004744          475 EMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPN  554 (732)
Q Consensus       475 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~  554 (732)
                      +.++..+. +...|..+...+...|++++|...|+.+++... .+...+..+...+...|++++|...|++.++..+ .+
T Consensus       356 kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P-~~  432 (615)
T TIGR00990       356 KSIELDPR-VTQSYIKRASMNLELGDPDKAEEDFDKALKLNS-EDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDP-DF  432 (615)
T ss_pred             HHHHcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCc-cC
Confidence            98887543 466788888888999999999999999887643 3677888888899999999999999999988743 36


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH------HH
Q 004744          555 YISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSI------SY  628 (732)
Q Consensus       555 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~------~~  628 (732)
                      ...+..+...+.+.|++++|+..|++.++. .+.+...++.+...+...|++++|++.|++.+......+..      .+
T Consensus       433 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~  511 (615)
T TIGR00990       433 IFSHIQLGVTQYKEGSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLI  511 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHH
Confidence            677788888899999999999999998876 35567888888999999999999999999988753221111      12


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          629 NTLINGFVREENMDKAFALVSKMENQGLVPD-VITYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       629 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      +..+..+...|++++|.++++++..  +.|+ ...+..++..+.+.|++++|..+|+++.+
T Consensus       512 ~~a~~~~~~~~~~~eA~~~~~kAl~--l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~  570 (615)
T TIGR00990       512 NKALALFQWKQDFIEAENLCEKALI--IDPECDIAVATMAQLLLQQGDVDEALKLFERAAE  570 (615)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            2222334446899999999999887  3454 45688889999999999999999999987

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.91  E-value=2e-21  Score=203.85  Aligned_cols=297  Identities=13%  Similarity=0.091  Sum_probs=139.4

Q ss_pred             HcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCCHHH
Q 004744          427 RNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPD---FYTFTTLIHGHCKDGNMNK  503 (732)
Q Consensus       427 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~  503 (732)
                      ..|++++|+..|.++.+.++. +..++..+...+...|++++|..+++.+...+..++   ...+..+...|...|++++
T Consensus        47 ~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~  125 (389)
T PRK11788         47 LNEQPDKAIDLFIEMLKVDPE-TVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDR  125 (389)
T ss_pred             hcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHH
Confidence            334444444444444433221 233344444444444444444444444433221111   1233444444444444444


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          504 ALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNY----ISYGILINGYCSMGHVTEAFRLWY  579 (732)
Q Consensus       504 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~  579 (732)
                      |..+|+++.+.. +.+..++..++..+.+.|++++|.+.++.+.+.+..+..    ..+..++..+.+.|++++|...|+
T Consensus       126 A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  204 (389)
T PRK11788        126 AEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLK  204 (389)
T ss_pred             HHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            444444444331 123344444444455555555555555544443222111    123334444555555555555555


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 004744          580 EMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPD  659 (732)
Q Consensus       580 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~  659 (732)
                      ++.+.. +.+...+..++..+.+.|++++|.++++++.+.+......+++.++.+|.+.|++++|...++++.+  ..|+
T Consensus       205 ~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~--~~p~  281 (389)
T PRK11788        205 KALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALE--EYPG  281 (389)
T ss_pred             HHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCC
Confidence            555432 2234444555555555555555555555555432111123445555555555566666665555555  2344


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHCCCCCCC
Q 004744          660 VITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVS---QNNLKEAFRFHDEMLQRGFVPDD  730 (732)
Q Consensus       660 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~---~g~~~~A~~~~~~m~~~g~~pd~  730 (732)
                      ...+..++..+.+.|++++|..+++++.+  ..|+...+..++..+..   .|+.+++...+++|+++++.||.
T Consensus       282 ~~~~~~la~~~~~~g~~~~A~~~l~~~l~--~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p  353 (389)
T PRK11788        282 ADLLLALAQLLEEQEGPEAAQALLREQLR--RHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKP  353 (389)
T ss_pred             chHHHHHHHHHHHhCCHHHHHHHHHHHHH--hCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCC
Confidence            44445555555555666666666655555  44555555555544443   33555556556655555555543

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

Probab=99.91  E-value=3.9e-19  Score=196.33  Aligned_cols=430  Identities=12%  Similarity=0.011  Sum_probs=209.5

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 004744          172 IFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALC  251 (732)
Q Consensus       172 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  251 (732)
                      .+..++..|.+.|++++|+..|+++++..  |+...|..+..+|.+.|++++|++.+..+++.+ +.+...+..+..+|.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~~--p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~  205 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIECK--PDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            35566777777888888888888777653  456667777777777788888887777777654 455667777777777


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHH
Q 004744          252 KDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKE  331 (732)
Q Consensus       252 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  331 (732)
                      ..|++++|...|......+...+.. ...++..+..    ..+........+.. +++...+..+.. |........+..
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            7777777777776655442211211 1111111111    11222222222221 112222222222 211111111111


Q ss_pred             HHHHHHHCCCCCCH-HhHHHHHHH---HHcCCCHhHHHHHHHHHHhCC-CCC-CHhHHHHHHHHHHhCCCHHHHHHHHHH
Q 004744          332 VLDEMLQMGLSPDT-ATYNTLLVE---SCRKENMSEAEEIFCEMSRRG-VAP-DIVSFSTLIGIFSRNGQLDRALMYFRE  405 (732)
Q Consensus       332 ~~~~~~~~g~~~~~-~~~~~li~~---~~~~g~~~~A~~~~~~~~~~g-~~~-~~~~~~~l~~~~~~~g~~~~A~~l~~~  405 (732)
                      -+.+..+.  .++. ..+..+...   ....+++++|.+.|++..+.+ ..| ....|+.+...                
T Consensus       279 ~~~~~~~~--~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~----------------  340 (615)
T TIGR00990       279 GLEDSNEL--DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTF----------------  340 (615)
T ss_pred             hhhccccc--ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHH----------------
Confidence            11111110  0100 000001000   011234445555555444432 111 22334444444                


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          406 MKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDF  485 (732)
Q Consensus       406 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~  485 (732)
                                         +...|++++|+..+++.++..+. +...|..+...+...|++++|...|+++++..+. +.
T Consensus       341 -------------------~~~~g~~~eA~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~-~~  399 (615)
T TIGR00990       341 -------------------KCLKGKHLEALADLSKSIELDPR-VTQSYIKRASMNLELGDPDKAEEDFDKALKLNSE-DP  399 (615)
T ss_pred             -------------------HHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CH
Confidence                               44445555555554444443221 2334444444455555555555555555444322 34


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004744          486 YTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGY  565 (732)
Q Consensus       486 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  565 (732)
                      .++..+...+...|++++|+..|++.++... .+...+..+...+.+.|++++|+..|++.++.. +.+...++.+...+
T Consensus       400 ~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~  477 (615)
T TIGR00990       400 DIYYHRAQLHFIKGEFAQAGKDYQKSIDLDP-DFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELL  477 (615)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCc-cCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            4455555555555555555555555554422 134444445555555555555555555555432 22445555555555


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCH------HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 004744          566 CSMGHVTEAFRLWYEMVGKGIKPTL------VSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREE  639 (732)
Q Consensus       566 ~~~g~~~~A~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  639 (732)
                      ...|++++|++.|++.+......+.      ..++..+..+...|++++|.+++++.+... +.+...+..++..+.+.|
T Consensus       478 ~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~~a~~~la~~~~~~g  556 (615)
T TIGR00990       478 LDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID-PECDIAVATMAQLLLQQG  556 (615)
T ss_pred             HHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcc
Confidence            6666666666666655543211000      111222222334567777777777766543 123345666677777777


Q ss_pred             CHHHHHHHHHHHHH
Q 004744          640 NMDKAFALVSKMEN  653 (732)
Q Consensus       640 ~~~~A~~~~~~~~~  653 (732)
                      ++++|+++|+++.+
T Consensus       557 ~~~eAi~~~e~A~~  570 (615)
T TIGR00990       557 DVDEALKLFERAAE  570 (615)
T ss_pred             CHHHHHHHHHHHHH
Confidence            77777777777766

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.90  E-value=1e-20  Score=198.49  Aligned_cols=302  Identities=13%  Similarity=0.080  Sum_probs=193.8

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhc
Q 004744          177 IRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELN---VYTLNIMVNALCKD  253 (732)
Q Consensus       177 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~  253 (732)
                      +..+...|++++|+..|+++.+.++. +..++..+...+.+.|++++|..+++.+++....++   ..++..++..|.+.
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVDPE-TVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHC
Confidence            44567788899999999999887654 667888888888888888888888888876432111   24567777888888


Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCH----hhHHHHHHHHHhcCChhHH
Q 004744          254 HKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGV----FTYNSLINGLCKKGRCDRA  329 (732)
Q Consensus       254 g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~A  329 (732)
                      |++++|..+|+++.+.. .++..+++.++..+.+.|++++|.+.++.+...+..+..    ..+..++..+.+.|++++|
T Consensus       121 g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  199 (389)
T PRK11788        121 GLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAA  199 (389)
T ss_pred             CCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHH
Confidence            88888888888887653 235667788888888888888888888887765433221    2344555666667777777


Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHC
Q 004744          330 KEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSA  409 (732)
Q Consensus       330 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~  409 (732)
                      ...|+++.+.. +.+...+..+...+.+.|++++|.++++++.+.+......+++.++.+|...|++++|...++++.+.
T Consensus       200 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  278 (389)
T PRK11788        200 RALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE  278 (389)
T ss_pred             HHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            77777766543 22344555666666666666666666666665432222344556666666666666666666666554


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHcCCCCCH
Q 004744          410 GLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCR---AKMLTEADDLFNEMLERGVFPDF  485 (732)
Q Consensus       410 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~---~~~~~~A~~~~~~~~~~~~~~~~  485 (732)
                        .|+...+..++..+.+.|++++|..+++++.+.  .|+...++.++..+..   .|+.+++..++++|.+.++.|++
T Consensus       279 --~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p  353 (389)
T PRK11788        279 --YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKP  353 (389)
T ss_pred             --CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCC
Confidence              234344455556666666666666666655554  3455555555554443   33555666666666555444433

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

Probab=99.90  E-value=2.4e-16  Score=157.59  Aligned_cols=594  Identities=11%  Similarity=0.065  Sum_probs=459.7

Q ss_pred             ChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChh-----------HHHHhhh-hhc
Q 004744           96 NLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRL-----------EIVDSFV-STY  163 (732)
Q Consensus        96 ~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~~l~-~~~  163 (732)
                      +...|+.++..+...+|.   .+..|-+-.+.=-..|.++.|..++.+-.+....+.+           +....++ ...
T Consensus       266 DikKaR~llKSvretnP~---hp~gWIAsArLEEvagKl~~Ar~~I~~GCe~cprSeDvWLeaiRLhp~d~aK~vvA~Av  342 (913)
T KOG0495|consen  266 DIKKARLLLKSVRETNPK---HPPGWIASARLEEVAGKLSVARNLIMKGCEECPRSEDVWLEAIRLHPPDVAKTVVANAV  342 (913)
T ss_pred             HHHHHHHHHHHHHhcCCC---CCchHHHHHHHHHHhhHHHHHHHHHHHHHhhCCchHHHHHHHHhcCChHHHHHHHHHHH
Confidence            556678888777776664   4567777666667788888888777665443332221           1111111 111


Q ss_pred             CCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH
Q 004744          164 SPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTL  243 (732)
Q Consensus       164 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  243 (732)
                      ..+|.++..|-.-+..   ..+...=.+|++++++.-+. ++..|-.    -+.....++|+-++.++++. ++.+...|
T Consensus       343 r~~P~Sv~lW~kA~dL---E~~~~~K~RVlRKALe~iP~-sv~LWKa----AVelE~~~darilL~rAvec-cp~s~dLw  413 (913)
T KOG0495|consen  343 RFLPTSVRLWLKAADL---ESDTKNKKRVLRKALEHIPR-SVRLWKA----AVELEEPEDARILLERAVEC-CPQSMDLW  413 (913)
T ss_pred             HhCCCChhhhhhHHhh---hhHHHHHHHHHHHHHHhCCc-hHHHHHH----HHhccChHHHHHHHHHHHHh-ccchHHHH
Confidence            3344555555433322   22334445678888877544 5555544    34456777799999998875 35555555


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH----hhCCCCCCHhhHHHHHHH
Q 004744          244 NIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSM----SGKGLKPGVFTYNSLING  319 (732)
Q Consensus       244 ~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~g~~p~~~~~~~li~~  319 (732)
                      .    +|.+..-++.|.+++....+. ++-+...|.+-...--..|+.+...+++++-    ...|+..+...|..=...
T Consensus       414 l----AlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~  488 (913)
T KOG0495|consen  414 L----ALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEA  488 (913)
T ss_pred             H----HHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHH
Confidence            4    556678889999999998886 4447788888777777889999998887764    456888888899988889


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCC--HHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHH
Q 004744          320 LCKKGRCDRAKEVLDEMLQMGLSPD--TATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLD  397 (732)
Q Consensus       320 ~~~~g~~~~A~~~~~~~~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~  397 (732)
                      |-..|..-.+..+....+..|+.-.  ..+|+.-...|.+.+.++-|..+|...++.- +-+...|...+..--..|..+
T Consensus       489 ~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvf-p~k~slWlra~~~ek~hgt~E  567 (913)
T KOG0495|consen  489 CEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVF-PCKKSLWLRAAMFEKSHGTRE  567 (913)
T ss_pred             HhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhc-cchhHHHHHHHHHHHhcCcHH
Confidence            9999999999999999998887543  3488888899999999999999999988763 336788888888888899999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          398 RALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEML  477 (732)
Q Consensus       398 ~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  477 (732)
                      .-..+|+++... ++-....|......+-..|++..|..++....+..+. +...|-.-+.....+.+++.|..+|.+..
T Consensus       568 sl~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar  645 (913)
T KOG0495|consen  568 SLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKAR  645 (913)
T ss_pred             HHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHh
Confidence            999999999876 3445667888888888899999999999999988666 78889999999999999999999999887


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 004744          478 ERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYIS  557 (732)
Q Consensus       478 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  557 (732)
                      ..  .|....|.--+..-...++.++|++++++.++. ++.-...|..+.+.+-+.++++.|.+.|..-.+. .+.....
T Consensus       646 ~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipL  721 (913)
T KOG0495|consen  646 SI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPL  721 (913)
T ss_pred             cc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchH
Confidence            65  557777877777777889999999999999876 4434567888888999999999999999877665 4446677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004744          558 YGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVR  637 (732)
Q Consensus       558 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  637 (732)
                      |-.|...--+.|.+-.|..+++....++ |.+...|...+.+-.+.|+.+.|..+..++++. .+.+...|..-|.+.-+
T Consensus       722 WllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~  799 (913)
T KOG0495|consen  722 WLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPR  799 (913)
T ss_pred             HHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccC
Confidence            8888888888899999999999998875 778899999999999999999999999998884 45566778888887777


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCCHHHHHH
Q 004744          638 EENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDR-STYTTLINGHVSQNNLKEAFR  716 (732)
Q Consensus       638 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~  716 (732)
                      .++-......++   +  ...|+.+...+...+....++++|...|.++++  +.||. .+|..+...+.+.|.-++-.+
T Consensus       800 ~~rkTks~DALk---k--ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk--~d~d~GD~wa~fykfel~hG~eed~ke  872 (913)
T KOG0495|consen  800 PQRKTKSIDALK---K--CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVK--KDPDNGDAWAWFYKFELRHGTEEDQKE  872 (913)
T ss_pred             cccchHHHHHHH---h--ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHc--cCCccchHHHHHHHHHHHhCCHHHHHH
Confidence            777444444333   3  566888888888888888999999999999999  77865 788889999999999888888


Q ss_pred             HHHHHH
Q 004744          717 FHDEML  722 (732)
Q Consensus       717 ~~~~m~  722 (732)
                      ++++..
T Consensus       873 v~~~c~  878 (913)
T KOG0495|consen  873 VLKKCE  878 (913)
T ss_pred             HHHHHh
Confidence            888876

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

Probab=99.89  E-value=3.1e-17  Score=170.57  Aligned_cols=585  Identities=12%  Similarity=0.087  Sum_probs=376.0

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCC
Q 004744          121 LSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKG  200 (732)
Q Consensus       121 ~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  200 (732)
                      .-..+..+...|++++|..++.++++.                  .+.++..|-.|+..|-+.|+.++++..+-.+...+
T Consensus       142 ll~eAN~lfarg~~eeA~~i~~EvIkq------------------dp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~  203 (895)
T KOG2076|consen  142 LLGEANNLFARGDLEEAEEILMEVIKQ------------------DPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN  203 (895)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHh------------------CccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            334444555569999999999999954                  56778999999999999999999999999888888


Q ss_pred             CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHH-
Q 004744          201 ICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYN-  279 (732)
Q Consensus       201 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~-  279 (732)
                      +. |..-|..+.....+.|.+++|.-+|.++++.. |++....---...|-+.|+...|...|.++....+..|..-.. 
T Consensus       204 p~-d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d  281 (895)
T KOG2076|consen  204 PK-DYELWKRLADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIED  281 (895)
T ss_pred             CC-ChHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHH
Confidence            77 77999999999999999999999999999986 5555544455677889999999999999999885422222222 


Q ss_pred             ---HHHHHHHHcCCHHHHHHHHHHHhhCC-CCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhH-------
Q 004744          280 ---TLINAYCREGFLEEAFQLMNSMSGKG-LKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATY-------  348 (732)
Q Consensus       280 ---~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~-------  348 (732)
                         .+++.|...++-+.|.+.++.....+ -.-+...++.++..|.+...++.|......+......+|..-+       
T Consensus       282 ~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~  361 (895)
T KOG2076|consen  282 LIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRR  361 (895)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhcc
Confidence               34566777888899999998887632 2235667889999999999999999988887762222222111       


Q ss_pred             ---------------H----HHHHHHHcCCCHhHHHHHHHHHHhCC--CCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 004744          349 ---------------N----TLLVESCRKENMSEAEEIFCEMSRRG--VAPDIVSFSTLIGIFSRNGQLDRALMYFREMK  407 (732)
Q Consensus       349 ---------------~----~li~~~~~~g~~~~A~~~~~~~~~~g--~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~  407 (732)
                                     .    -+.-++......+....+.....+.+  +.-++..|.-+..+|...|++.+|+.+|..+.
T Consensus       362 ~~~~~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~  441 (895)
T KOG2076|consen  362 EEPNALCEVGKELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPIT  441 (895)
T ss_pred             ccccccccCCCCCCccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHh
Confidence                           1    12233444444455555555555555  33356778889999999999999999999998


Q ss_pred             HCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--------c
Q 004744          408 SAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLE--------R  479 (732)
Q Consensus       408 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--------~  479 (732)
                      .....-+...|-.+..+|...|..++|.+.++..+...+. +...--.|...+.+.|+.++|.+.+..+..        .
T Consensus       442 ~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~-~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~  520 (895)
T KOG2076|consen  442 NREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPD-NLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEAC  520 (895)
T ss_pred             cCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-chhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhc
Confidence            8766667789999999999999999999999999887544 555666777888999999999999988642        2


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC----------------------CCCCHH----------------
Q 004744          480 GVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKS----------------------IKPDIV----------------  521 (732)
Q Consensus       480 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----------------------~~~~~~----------------  521 (732)
                      +..|+..........+.+.|+.++=+.+-..|+...                      ......                
T Consensus       521 a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~  600 (895)
T KOG2076|consen  521 AWEPERRILAHRCDILFQVGKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDN  600 (895)
T ss_pred             cccHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchH
Confidence            233444455556666777777766554444433210                      000001                


Q ss_pred             ---------------------------HHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCCH---HHHHHHHHHHHhcC
Q 004744          522 ---------------------------TYNTLIDGFCKVGEMEKANKLWADMISRKI--SPNY---ISYGILINGYCSMG  569 (732)
Q Consensus       522 ---------------------------~~~~li~~~~~~g~~~~A~~~~~~~~~~~~--~~~~---~~~~~li~~~~~~g  569 (732)
                                                 .+.-++..+++.+++++|+.+...+.....  .++.   ..-...+.+.+..+
T Consensus       601 ~~~~~l~d~~~~~~~e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~  680 (895)
T KOG2076|consen  601 VMEKALSDGTEFRAVELRGLSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYAR  680 (895)
T ss_pred             HhhhcccchhhhhhhhhccCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcC
Confidence                                       112233344444555555554444443210  0011   11122333334445


Q ss_pred             CHHHHHHHHHHHHhC-CC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 004744          570 HVTEAFRLWYEMVGK-GI---KPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAF  645 (732)
Q Consensus       570 ~~~~A~~~~~~~~~~-~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  645 (732)
                      ++..|...++.|+.. +.   +--...||...+...+.|+-.--..++..+.......+........+.+..++.+..|+
T Consensus       681 d~~~a~~~lR~~i~~~~~~~~~~q~~l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al  760 (895)
T KOG2076|consen  681 DPGDAFSYLRSVITQFQFYLDVYQLNLWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHAL  760 (895)
T ss_pred             CHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHH
Confidence            555555555544433 00   11122333333333333332222222222221111111111111223344567788899


Q ss_pred             HHHHHHHHCCCCCCHHHHH-HHHHHHHh----------cCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHH
Q 004744          646 ALVSKMENQGLVPDVITYN-VILTGFCR----------QGRMHDSELILWRMIEKGLNP-DRSTYTTLINGHVSQNNLKE  713 (732)
Q Consensus       646 ~~~~~~~~~g~~p~~~~~~-~l~~~~~~----------~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~  713 (732)
                      ..+-++..  ..||...++ +++.++.+          +-.+-++..++++..+....- ...++..++++|-..|-..-
T Consensus       761 ~~y~ra~~--~~pd~Pl~nl~lglafih~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~L  838 (895)
T KOG2076|consen  761 QEYMRAFR--QNPDSPLINLCLGLAFIHLALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHL  838 (895)
T ss_pred             HHHHHHHH--hCCCCcHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHH
Confidence            88888877  467644443 33333432          223445667776666621221 35788999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCC
Q 004744          714 AFRFHDEMLQRGFVPDD  730 (732)
Q Consensus       714 A~~~~~~m~~~g~~pd~  730 (732)
                      |..++++.+  ++.|-.
T Consensus       839 A~~YYekvL--~~~p~~  853 (895)
T KOG2076|consen  839 AVSYYEKVL--EVSPKD  853 (895)
T ss_pred             HHHHHHHHh--CCCccc
Confidence            999999999  555433

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.89  E-value=1.2e-18  Score=191.37  Aligned_cols=333  Identities=12%  Similarity=0.035  Sum_probs=277.2

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCc
Q 004744          123 AMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGIC  202 (732)
Q Consensus       123 ~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  202 (732)
                      -.+..+.+.|++++|..++...+..                  .+.++..+..++.++...|++++|+..|+++.+..+.
T Consensus        47 ~~~~~~~~~g~~~~A~~l~~~~l~~------------------~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~  108 (656)
T PRK15174         47 LFAIACLRKDETDVGLTLLSDRVLT------------------AKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVC  108 (656)
T ss_pred             HHHHHHHhcCCcchhHHHhHHHHHh------------------CCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCC
Confidence            3455667899999999999988743                  4455677777888888999999999999999998776


Q ss_pred             cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHH
Q 004744          203 FSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLI  282 (732)
Q Consensus       203 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li  282 (732)
                       +...+..+...+.+.|++++|...|+++++.. +.+...+..++..+...|++++|...++.+...... +...+..+ 
T Consensus       109 -~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-  184 (656)
T PRK15174        109 -QPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-  184 (656)
T ss_pred             -ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-
Confidence             78889999999999999999999999999864 667788999999999999999999999998876443 33344333 


Q ss_pred             HHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHh
Q 004744          283 NAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMS  362 (732)
Q Consensus       283 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  362 (732)
                      ..+...|++++|...++.+......++...+..+...+...|++++|...++++.+.. +.+...+..+...+...|+++
T Consensus       185 ~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~  263 (656)
T PRK15174        185 LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSR  263 (656)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCch
Confidence            3478899999999999998876544455566666788999999999999999999875 456778888999999999998


Q ss_pred             H----HHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 004744          363 E----AEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMR  438 (732)
Q Consensus       363 ~----A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  438 (732)
                      +    |...|+++.+.... +...+..+...+.+.|++++|...+++..+.... +...+..+...+.+.|++++|+..+
T Consensus       264 eA~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-~~~a~~~La~~l~~~G~~~eA~~~l  341 (656)
T PRK15174        264 EAKLQAAEHWRHALQFNSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-LPYVRAMYARALRQVGQYTAASDEF  341 (656)
T ss_pred             hhHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            6    89999999886433 7788999999999999999999999999886433 5567788899999999999999999


Q ss_pred             HHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 004744          439 DEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGV  481 (732)
Q Consensus       439 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~  481 (732)
                      +.+.+.++. +...+..+...+...|+.++|...|++..+..+
T Consensus       342 ~~al~~~P~-~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P  383 (656)
T PRK15174        342 VQLAREKGV-TSKWNRYAAAALLQAGKTSEAESVFEHYIQARA  383 (656)
T ss_pred             HHHHHhCcc-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCh
Confidence            999987543 334455567788999999999999999988743

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.88  E-value=5.8e-18  Score=186.09  Aligned_cols=336  Identities=10%  Similarity=-0.006  Sum_probs=269.3

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 004744          171 LIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNAL  250 (732)
Q Consensus       171 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  250 (732)
                      .-...++..+.++|++++|+.+++..+...+. +...+..++.++...|++++|.+.|+++++.. |.+...+..+...+
T Consensus        43 ~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l  120 (656)
T PRK15174         43 QNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVL  120 (656)
T ss_pred             cCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            33455677888999999999999999988776 56667777788888999999999999998875 66778888889999


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHH
Q 004744          251 CKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAK  330 (732)
Q Consensus       251 ~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  330 (732)
                      ...|++++|...++++.+.... +...+..++..+...|++++|...++.+...... +...+..+ ..+...|++++|.
T Consensus       121 ~~~g~~~~Ai~~l~~Al~l~P~-~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~  197 (656)
T PRK15174        121 LKSKQYATVADLAEQAWLAFSG-NSQIFALHLRTLVLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDH  197 (656)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHH
Confidence            9999999999999999887432 5678888999999999999999999988766433 33344333 3478899999999


Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHH----HHHHHHHH
Q 004744          331 EVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDR----ALMYFREM  406 (732)
Q Consensus       331 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~----A~~l~~~~  406 (732)
                      ..++.+++....++...+..+...+.+.|++++|.+.++++.+.... +...+..+...+...|++++    |...|++.
T Consensus       198 ~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~A  276 (656)
T PRK15174        198 DLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHA  276 (656)
T ss_pred             HHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHH
Confidence            99999887643344455556677888999999999999999877533 67788889999999999885    78899988


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH
Q 004744          407 KSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFY  486 (732)
Q Consensus       407 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  486 (732)
                      .+... .+...+..+...+.+.|++++|+..+++..+..+. +...+..+...+.+.|++++|...|+.+.+.++. +..
T Consensus       277 l~l~P-~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~-~~~  353 (656)
T PRK15174        277 LQFNS-DNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-LPYVRAMYARALRQVGQYTAASDEFVQLAREKGV-TSK  353 (656)
T ss_pred             HhhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-chH
Confidence            87643 35678888899999999999999999998887654 6677778888899999999999999988876433 233


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 004744          487 TFTTLIHGHCKDGNMNKALNLFDIMTQKS  515 (732)
Q Consensus       487 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~  515 (732)
                      .+..+...+...|+.++|...|+...+..
T Consensus       354 ~~~~~a~al~~~G~~deA~~~l~~al~~~  382 (656)
T PRK15174        354 WNRYAAAALLQAGKTSEAESVFEHYIQAR  382 (656)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            34445677888999999999999888763

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.87  E-value=7.7e-18  Score=189.28  Aligned_cols=409  Identities=9%  Similarity=0.014  Sum_probs=249.6

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 004744          274 DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLV  353 (732)
Q Consensus       274 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~  353 (732)
                      +.....-.+......|+.++|++++.+..... +.+...+..+...+...|++++|..++++.++.. +.+...+..++.
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            33344445566677889999998888887622 3355568888888888899999999998888763 345566777888


Q ss_pred             HHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH
Q 004744          354 ESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLE  433 (732)
Q Consensus       354 ~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  433 (732)
                      .+...|+.++|...++++.+... .+.. +..+..++...|+.++|+..++++.+.... +...+..+...+...+..++
T Consensus        92 ~l~~~g~~~eA~~~l~~~l~~~P-~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~  168 (765)
T PRK10049         92 TLADAGQYDEALVKAKQLVSGAP-DKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAP  168 (765)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCC-CCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHH
Confidence            88888899999988888877632 2555 778888888888889998888888876433 45556667777778888888


Q ss_pred             HHHHHHHHHHCCCCcCH------HHHHHHHHHHH-----hcCCH---HHHHHHHHHHHHc-CCCCCHH-HH----HHHHH
Q 004744          434 ALKMRDEMLEKGCVMDV------VTYNTILNGLC-----RAKML---TEADDLFNEMLER-GVFPDFY-TF----TTLIH  493 (732)
Q Consensus       434 A~~~~~~~~~~~~~~~~------~~~~~li~~~~-----~~~~~---~~A~~~~~~~~~~-~~~~~~~-~~----~~li~  493 (732)
                      |++.++....   .|+.      .....++....     ..+++   ++|++.++.+.+. ...|+.. .+    ...+.
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            8888876554   1221      01111222211     11223   5666666666643 1122211 11    11123


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcC
Q 004744          494 GHCKDGNMNKALNLFDIMTQKSIK-PDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISP---NYISYGILINGYCSMG  569 (732)
Q Consensus       494 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g  569 (732)
                      .+...|++++|+..|+.+.+.+.+ |+. ....+...|...|++++|+..|+++.+.....   .......+..++...|
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            344567777777777776665422 221 11224556777777777777777766542211   1233445555666777


Q ss_pred             CHHHHHHHHHHHHhCCC-----------CCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004744          570 HVTEAFRLWYEMVGKGI-----------KPT---LVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGF  635 (732)
Q Consensus       570 ~~~~A~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  635 (732)
                      ++++|...++.+.....           .|+   ...+..+...+...|+.++|++.++++.... +.+...+..++..+
T Consensus       325 ~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~  403 (765)
T PRK10049        325 NYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVL  403 (765)
T ss_pred             cHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            77777777777665420           012   1233445555666666666666666666542 22355566666666


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH
Q 004744          636 VREENMDKAFALVSKMENQGLVPD-VITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRS  696 (732)
Q Consensus       636 ~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  696 (732)
                      ...|++++|++.++++.+  ..|+ ...+...+..+...|++++|+..++++++  ..|+..
T Consensus       404 ~~~g~~~~A~~~l~~al~--l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~--~~Pd~~  461 (765)
T PRK10049        404 QARGWPRAAENELKKAEV--LEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVA--REPQDP  461 (765)
T ss_pred             HhcCCHHHHHHHHHHHHh--hCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH--hCCCCH
Confidence            666666666666666666  3454 34445555556666666666666666666  555443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.87  E-value=1.2e-17  Score=187.89  Aligned_cols=405  Identities=10%  Similarity=0.015  Sum_probs=248.4

Q ss_pred             chHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          169 NSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVN  248 (732)
Q Consensus       169 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  248 (732)
                      ++....-.+......|+.++|++++.+..... ..+...+..+..++.+.|++++|.++|+++++.. |.+...+..++.
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            34444455677888999999999999998643 3366779999999999999999999999998864 666777888889


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhH
Q 004744          249 ALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDR  328 (732)
Q Consensus       249 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  328 (732)
                      .+...|++++|...++++.+..+. +.. +..+...+...|+.++|+..++++.+..+. +...+..+...+...|..++
T Consensus        92 ~l~~~g~~~eA~~~l~~~l~~~P~-~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~  168 (765)
T PRK10049         92 TLADAGQYDEALVKAKQLVSGAPD-KAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAP  168 (765)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-CHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHH
Confidence            999999999999999999887432 555 888899999999999999999999987544 66667778888888999999


Q ss_pred             HHHHHHHHHHCCCCCCH------HhHHHHHHHHH-----cCCCH---hHHHHHHHHHHhC-CCCCCHh-HH----HHHHH
Q 004744          329 AKEVLDEMLQMGLSPDT------ATYNTLLVESC-----RKENM---SEAEEIFCEMSRR-GVAPDIV-SF----STLIG  388 (732)
Q Consensus       329 A~~~~~~~~~~g~~~~~------~~~~~li~~~~-----~~g~~---~~A~~~~~~~~~~-g~~~~~~-~~----~~l~~  388 (732)
                      |+..++....   .|+.      .....++....     ..+++   ++|++.++.+.+. ...|+.. .+    ...+.
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            9998887654   2331      01112222221     11223   5666666666643 1122211 11    11123


Q ss_pred             HHHhCCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCc---CHHHHHHHHHHHHhcC
Q 004744          389 IFSRNGQLDRALMYFREMKSAGLV-PDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVM---DVVTYNTILNGLCRAK  464 (732)
Q Consensus       389 ~~~~~g~~~~A~~l~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~~li~~~~~~~  464 (732)
                      .+...|++++|+..|+++.+.+.. |+. ....+...|...|++++|+..++++.+.....   .......+..++.+.|
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            345567777777777777665422 221 12224556677777777777777766543221   1233444555566677


Q ss_pred             CHHHHHHHHHHHHHcCCC-----------CC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004744          465 MLTEADDLFNEMLERGVF-----------PD---FYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGF  530 (732)
Q Consensus       465 ~~~~A~~~~~~~~~~~~~-----------~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  530 (732)
                      ++++|..+++.+.+..+.           |+   ...+..+...+...|++++|+.+++++.... +.+...+..+...+
T Consensus       325 ~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~  403 (765)
T PRK10049        325 NYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVL  403 (765)
T ss_pred             cHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            777777777766654211           11   1122334444444555555555555544432 22344444444455


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 004744          531 CKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGK  584 (732)
Q Consensus       531 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  584 (732)
                      ...|++++|++.+++.++.. +.+...+...+..+...|++++|..+++++++.
T Consensus       404 ~~~g~~~~A~~~l~~al~l~-Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        404 QARGWPRAAENELKKAEVLE-PRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             HhcCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            55555555555555544432 112333334444444445555555555555443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.86  E-value=1.2e-16  Score=175.60  Aligned_cols=434  Identities=13%  Similarity=0.099  Sum_probs=274.2

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcC
Q 004744          247 VNALCKDHKIDSAKMFLCEMEQKGVYPDT--VTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKG  324 (732)
Q Consensus       247 ~~~~~~~g~~~~A~~~~~~~~~~g~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  324 (732)
                      +-...+.|+++.|+..|++..+..  |+.  ..+ .++..+...|+.++|+..+++..... .........+...|...|
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~g  116 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEK  116 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcC
Confidence            345678899999999999998874  443  234 78888888999999999999988321 112333334466888889


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHH
Q 004744          325 RCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFR  404 (732)
Q Consensus       325 ~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~  404 (732)
                      ++++|+++++++++.. +.+...+..++..+...++.++|++.+.++...  .|+...+..++..+...++..+|++.++
T Consensus       117 dyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~e  193 (822)
T PRK14574        117 RWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASS  193 (822)
T ss_pred             CHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHH
Confidence            9999999999999875 345667777888889999999999999998876  3455555555555555667767999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHH----HHHHHhcC---------C---HHH
Q 004744          405 EMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTI----LNGLCRAK---------M---LTE  468 (732)
Q Consensus       405 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l----i~~~~~~~---------~---~~~  468 (732)
                      ++.+.. +.+...+..+..++.+.|-...|+++..+-... +  +...+.-+    +.-..+..         +   .+.
T Consensus       194 kll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f--~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~  269 (822)
T PRK14574        194 EAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-V--SAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADK  269 (822)
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-c--CHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHH
Confidence            998874 335677788888889999888888776653321 1  11111111    11112111         1   233


Q ss_pred             HHHHHHHHHHc-CCCCCH-H----HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004744          469 ADDLFNEMLER-GVFPDF-Y----TFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKL  542 (732)
Q Consensus       469 A~~~~~~~~~~-~~~~~~-~----~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  542 (732)
                      |+.-++.+... +..|.. .    +..-.+-++...|++.++++.|+.+...+.+....+-.++.++|...+++++|..+
T Consensus       270 ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l  349 (822)
T PRK14574        270 ALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPI  349 (822)
T ss_pred             HHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHH
Confidence            44444444431 111221 1    11223445566777777777777777665543445666677777777777777777


Q ss_pred             HHHHHHCC-----CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-----------CC--CH-HHHHHHHHHHHHc
Q 004744          543 WADMISRK-----ISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGI-----------KP--TL-VSCNTIIKGYCRS  603 (732)
Q Consensus       543 ~~~~~~~~-----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-----------~~--~~-~~~~~l~~~~~~~  603 (732)
                      |.++....     .+++......|.-+|...+++++|..+++++.+...           .|  |- .....++..+...
T Consensus       350 ~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~  429 (822)
T PRK14574        350 LSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVAL  429 (822)
T ss_pred             HHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHc
Confidence            77765542     122333345666677777777777777777765310           01  11 1222344456666


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHH
Q 004744          604 GDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPD-VITYNVILTGFCRQGRMHDSELI  682 (732)
Q Consensus       604 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~  682 (732)
                      |+..+|++.++++.... +-|......+.+.+...|.+.+|.+.++.+..  +.|+ ..+....+.++...|++++|..+
T Consensus       430 gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~--l~P~~~~~~~~~~~~al~l~e~~~A~~~  506 (822)
T PRK14574        430 NDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVES--LAPRSLILERAQAETAMALQEWHQMELL  506 (822)
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh--hCCccHHHHHHHHHHHHhhhhHHHHHHH
Confidence            77777777777776543 33566666677777777777777777765555  3454 34555666666666777777777


Q ss_pred             HHHHHHcCCCCCHH
Q 004744          683 LWRMIEKGLNPDRS  696 (732)
Q Consensus       683 ~~~~~~~g~~p~~~  696 (732)
                      .+++.+  ..|+..
T Consensus       507 ~~~l~~--~~Pe~~  518 (822)
T PRK14574        507 TDDVIS--RSPEDI  518 (822)
T ss_pred             HHHHHh--hCCCch
Confidence            777766  556543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.86  E-value=6.7e-16  Score=169.85  Aligned_cols=438  Identities=13%  Similarity=0.065  Sum_probs=250.2

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 004744          175 LVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDH  254 (732)
Q Consensus       175 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  254 (732)
                      .-+-...++|+++.|++.|+++.+..+.-....+ .++..+...|+.++|+.++++.+.. .+........++..+...|
T Consensus        39 ~~aii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~g  116 (822)
T PRK14574         39 DSLIIRARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEK  116 (822)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcC
Confidence            3344567999999999999999988655212333 8888888999999999999998721 1333444445567888999


Q ss_pred             ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHH
Q 004744          255 KIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLD  334 (732)
Q Consensus       255 ~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  334 (732)
                      ++++|+++++++.+..+. +...+..++..|...++.++|++.++++...  .|+...+..++..+...++..+|++.++
T Consensus       117 dyd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~e  193 (822)
T PRK14574        117 RWDQALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASS  193 (822)
T ss_pred             CHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHH
Confidence            999999999999998654 5667778888999999999999999999876  4455555545445545667767999999


Q ss_pred             HHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHH--HHHHHHHHh---------CCC---HHHHH
Q 004744          335 EMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSF--STLIGIFSR---------NGQ---LDRAL  400 (732)
Q Consensus       335 ~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~--~~l~~~~~~---------~g~---~~~A~  400 (732)
                      ++.+.. +.+...+..+...+.+.|-...|.++..+-... +.+....+  ...+.-.++         .++   .+.|+
T Consensus       194 kll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~al  271 (822)
T PRK14574        194 EAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKAL  271 (822)
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHH
Confidence            999874 446677788888999999988888776653321 11111111  000000110         111   22233


Q ss_pred             HHHHHHHHC-CCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          401 MYFREMKSA-GLVPDN-VLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLE  478 (732)
Q Consensus       401 ~l~~~~~~~-~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  478 (732)
                      .-++.+... +..|.. ..|.                               ...--.+-++...+++.++++.|+.+..
T Consensus       272 a~~~~l~~~~~~~p~~~~~~~-------------------------------~~~~Drl~aL~~r~r~~~vi~~y~~l~~  320 (822)
T PRK14574        272 ADYQNLLTRWGKDPEAQADYQ-------------------------------RARIDRLGALLVRHQTADLIKEYEAMEA  320 (822)
T ss_pred             HHHHHHHhhccCCCccchHHH-------------------------------HHHHHHHHHHHHhhhHHHHHHHHHHhhh
Confidence            333333221 111111 1110                               0011122234444445555555555544


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC---
Q 004744          479 RGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKS-----IKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRK---  550 (732)
Q Consensus       479 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---  550 (732)
                      .+.+....+-..+.++|...+++++|..+++.+....     ..++......|.-+|...+++++|..+++++.+..   
T Consensus       321 ~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~  400 (822)
T PRK14574        321 EGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQ  400 (822)
T ss_pred             cCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcE
Confidence            4433233344444555555555555555555443321     11122223344444555555555555555554421   


Q ss_pred             ----------CCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 004744          551 ----------ISPNYI-SYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSE  619 (732)
Q Consensus       551 ----------~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  619 (732)
                                ..||.. .+..++..+.-.|++.+|.+.++++.... |-|......+...+...|...+|++.++.+...
T Consensus       401 ~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l  479 (822)
T PRK14574        401 VGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVESL  479 (822)
T ss_pred             EeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh
Confidence                      111222 22333444555566666666666665543 555556666666666666666666666444432


Q ss_pred             CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          620 GVDP-DSISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       620 ~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                        .| +..+....+..+...|++++|..+.+.+.+
T Consensus       480 --~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~  512 (822)
T PRK14574        480 --APRSLILERAQAETAMALQEWHQMELLTDDVIS  512 (822)
T ss_pred             --CCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence              23 233444555555556666666666666555

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

Probab=99.86  E-value=5.5e-15  Score=148.04  Aligned_cols=560  Identities=11%  Similarity=0.030  Sum_probs=434.3

Q ss_pred             CChHHHHHHHHHHHHhcCCChhHHHH----------------hhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHH
Q 004744          132 RRISDAQALILRMVRKSGVSRLEIVD----------------SFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRL  195 (732)
Q Consensus       132 ~~~~~a~~~~~~~~~~~~~~~~~~~~----------------~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  195 (732)
                      ++...|..++.+..+.++..+..++.                .+......|+.+..+|---+    +..-.+.|..+.-.
T Consensus       265 ~DikKaR~llKSvretnP~hp~gWIAsArLEEvagKl~~Ar~~I~~GCe~cprSeDvWLeai----RLhp~d~aK~vvA~  340 (913)
T KOG0495|consen  265 EDIKKARLLLKSVRETNPKHPPGWIASARLEEVAGKLSVARNLIMKGCEECPRSEDVWLEAI----RLHPPDVAKTVVAN  340 (913)
T ss_pred             HHHHHHHHHHHHHHhcCCCCCchHHHHHHHHHHhhHHHHHHHHHHHHHhhCCchHHHHHHHH----hcCChHHHHHHHHH
Confidence            45567888888877666554433211                12222334555555554433    33455666666666


Q ss_pred             HHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH
Q 004744          196 LRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDT  275 (732)
Q Consensus       196 ~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  275 (732)
                      +.+..+. ++..|-.-...   ..+...=.++++.+++. +|.++..|-..+    ...+.++|+.++.+..+.- ..+.
T Consensus       341 Avr~~P~-Sv~lW~kA~dL---E~~~~~K~RVlRKALe~-iP~sv~LWKaAV----elE~~~darilL~rAvecc-p~s~  410 (913)
T KOG0495|consen  341 AVRFLPT-SVRLWLKAADL---ESDTKNKKRVLRKALEH-IPRSVRLWKAAV----ELEEPEDARILLERAVECC-PQSM  410 (913)
T ss_pred             HHHhCCC-ChhhhhhHHhh---hhHHHHHHHHHHHHHHh-CCchHHHHHHHH----hccChHHHHHHHHHHHHhc-cchH
Confidence            6665433 44444322221   22344445677777664 577777776544    4577788999999998862 2234


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHH----HCCCCCCHHhHHHH
Q 004744          276 VTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEML----QMGLSPDTATYNTL  351 (732)
Q Consensus       276 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~g~~~~~~~~~~l  351 (732)
                      ..|    -+|.+..-|+.|.++++...+. ++.+...|.+-...--..|..+...+++++.+    ..|+..+...|..=
T Consensus       411 dLw----lAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~e  485 (913)
T KOG0495|consen  411 DLW----LALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKE  485 (913)
T ss_pred             HHH----HHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHH
Confidence            444    4566778899999999999875 67789999998888889999999999987754    45888888888888


Q ss_pred             HHHHHcCCCHhHHHHHHHHHHhCCCCC--CHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 004744          352 LVESCRKENMSEAEEIFCEMSRRGVAP--DIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNG  429 (732)
Q Consensus       352 i~~~~~~g~~~~A~~~~~~~~~~g~~~--~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g  429 (732)
                      ...+-..|..-.+..+....+..|+.-  --.+|..-...|.+.+.++-|..+|....+. .+.+...|...+..--..|
T Consensus       486 Ae~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hg  564 (913)
T KOG0495|consen  486 AEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHG  564 (913)
T ss_pred             HHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcC
Confidence            888888999999999999998887753  3468999999999999999999999998876 3446678888777777789


Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          430 FVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFD  509 (732)
Q Consensus       430 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  509 (732)
                      ..++-..++++....-+. ....|-.....+-..|+...|..++..+.+..+. +...|..-+..-.....++.|..+|.
T Consensus       565 t~Esl~Allqkav~~~pk-ae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~lla  642 (913)
T KOG0495|consen  565 TRESLEALLQKAVEQCPK-AEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLA  642 (913)
T ss_pred             cHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHH
Confidence            999999999999987443 6777888888888999999999999999988665 77889999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 004744          510 IMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPT  589 (732)
Q Consensus       510 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~  589 (732)
                      +....  .|+...|.--+....-.++.++|.+++++.++. ++.-...|..+...+-+.++++.|.+.|..-.+. .|..
T Consensus       643 kar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~  718 (913)
T KOG0495|consen  643 KARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNS  718 (913)
T ss_pred             HHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCC
Confidence            98764  567777777777777889999999999999986 4445567888889999999999999999887776 4667


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004744          590 LVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTG  669 (732)
Q Consensus       590 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~  669 (732)
                      ...|..+.+.-.+.|..-+|+.++++..-.+ +.+...|-..|.+-.+.|..+.|..+..++... ++.+...|..-|..
T Consensus       719 ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~l  796 (913)
T KOG0495|consen  719 IPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWL  796 (913)
T ss_pred             chHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHh
Confidence            7888888888899999999999999998765 347888999999999999999999999998875 45566788888888


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          670 FCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQR  724 (732)
Q Consensus       670 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  724 (732)
                      .-+.++-..+...+++.     +-|+.....+...+....+++.|.++|++.++.
T Consensus       797 e~~~~rkTks~DALkkc-----e~dphVllaia~lfw~e~k~~kar~Wf~Ravk~  846 (913)
T KOG0495|consen  797 EPRPQRKTKSIDALKKC-----EHDPHVLLAIAKLFWSEKKIEKAREWFERAVKK  846 (913)
T ss_pred             ccCcccchHHHHHHHhc-----cCCchhHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            77777755555555544     447788888999999999999999999999853

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

Probab=99.85  E-value=4e-15  Score=155.17  Aligned_cols=601  Identities=12%  Similarity=0.083  Sum_probs=391.0

Q ss_pred             hccChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHH
Q 004744           93 LRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLI  172 (732)
Q Consensus        93 ~~~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  172 (732)
                      .+|+.+.|.+.+..+++..|.   .+..|.+|..+|-..|+..++...+.-+...                  .+.+...
T Consensus       151 arg~~eeA~~i~~EvIkqdp~---~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL------------------~p~d~e~  209 (895)
T KOG2076|consen  151 ARGDLEEAEEILMEVIKQDPR---NPIAYYTLGEIYEQRGDIEKALNFWLLAAHL------------------NPKDYEL  209 (895)
T ss_pred             HhCCHHHHHHHHHHHHHhCcc---chhhHHHHHHHHHHcccHHHHHHHHHHHHhc------------------CCCChHH
Confidence            468999999999999988876   5789999999999999999998776555422                  3456688


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH----HHHHH
Q 004744          173 FDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTL----NIMVN  248 (732)
Q Consensus       173 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~  248 (732)
                      |-.+.....+.|++++|.-.|.++++..+. +....-.-...|-+.|+...|.+-|.++.....+.|-.-.    -.+++
T Consensus       210 W~~ladls~~~~~i~qA~~cy~rAI~~~p~-n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~  288 (895)
T KOG2076|consen  210 WKRLADLSEQLGNINQARYCYSRAIQANPS-NWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAH  288 (895)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHH
Confidence            999999999999999999999999998766 5555555667889999999999999999886532222222    23456


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhH--------------
Q 004744          249 ALCKDHKIDSAKMFLCEMEQKGV-YPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTY--------------  313 (732)
Q Consensus       249 ~~~~~g~~~~A~~~~~~~~~~g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~--------------  313 (732)
                      .+...++-+.|.+.++.....+. .-+...++.++..|.+...++.|......+......+|..-|              
T Consensus       289 ~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~  368 (895)
T KOG2076|consen  289 YFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALC  368 (895)
T ss_pred             HHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccc
Confidence            67777888999999988877321 235567889999999999999999988888762222221111              


Q ss_pred             ------------HHHHHHHHhcCChhHHHHHHHHHHHCCC--CCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCC
Q 004744          314 ------------NSLINGLCKKGRCDRAKEVLDEMLQMGL--SPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPD  379 (732)
Q Consensus       314 ------------~~li~~~~~~g~~~~A~~~~~~~~~~g~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~  379 (732)
                                  .-+.-++......+....+.....+..+  .-+...|.-+..+|...|++.+|+.+|..+......-+
T Consensus       369 ~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~  448 (895)
T KOG2076|consen  369 EVGKELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQN  448 (895)
T ss_pred             cCCCCCCccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccc
Confidence                        1222233333333333333333444432  23445677778888888888888888888877655456


Q ss_pred             HhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--------CCCcCHH
Q 004744          380 IVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEK--------GCVMDVV  451 (732)
Q Consensus       380 ~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--------~~~~~~~  451 (732)
                      ...|-.+..+|...|..++|.+.|+...... +.+...-..|...+-+.|+.++|++.++.+..-        +..|+..
T Consensus       449 ~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~r  527 (895)
T KOG2076|consen  449 AFVWYKLARCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERR  527 (895)
T ss_pred             hhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHH
Confidence            6778888888888888888888888877652 123345556666777888888888887775421        1223333


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHc----------------------------------------------------
Q 004744          452 TYNTILNGLCRAKMLTEADDLFNEMLER----------------------------------------------------  479 (732)
Q Consensus       452 ~~~~li~~~~~~~~~~~A~~~~~~~~~~----------------------------------------------------  479 (732)
                      ..-.....+.+.|+.++=+..-..|+..                                                    
T Consensus       528 i~~~r~d~l~~~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~  607 (895)
T KOG2076|consen  528 ILAHRCDILFQVGKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALS  607 (895)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhccc
Confidence            3333344455555544432222222110                                                    


Q ss_pred             -----------CCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCHH----HHHHHHHHHHhcCCHHHHHH
Q 004744          480 -----------GVFPDF--YTFTTLIHGHCKDGNMNKALNLFDIMTQKSIK-PDIV----TYNTLIDGFCKVGEMEKANK  541 (732)
Q Consensus       480 -----------~~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~----~~~~li~~~~~~g~~~~A~~  541 (732)
                                 |...+.  ..+..++..+++.+++++|+.+...+...... .+..    .-...+.+.+..+++..|..
T Consensus       608 d~~~~~~~e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~  687 (895)
T KOG2076|consen  608 DGTEFRAVELRGLSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFS  687 (895)
T ss_pred             chhhhhhhhhccCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHH
Confidence                       000000  12345677888999999999999888765221 1222    22344566778899999999


Q ss_pred             HHHHHHHC-CC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 004744          542 LWADMISR-KI---SPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMV  617 (732)
Q Consensus       542 ~~~~~~~~-~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  617 (732)
                      .++.|+.. +.   +--...|+...+.+.+.++-.--.+.+..........+..............+.+..|+..+-++.
T Consensus       688 ~lR~~i~~~~~~~~~~q~~l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~  767 (895)
T KOG2076|consen  688 YLRSVITQFQFYLDVYQLNLWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAF  767 (895)
T ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHH
Confidence            99998865 11   113345665555555555544444444444333211112333233334566788999999887777


Q ss_pred             HCCCCCCHHHHHH-HHHHHH----------hcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004744          618 SEGVDPDSISYNT-LINGFV----------REENMDKAFALVSKMENQGLV-PDVITYNVILTGFCRQGRMHDSELILWR  685 (732)
Q Consensus       618 ~~~~~~~~~~~~~-li~~~~----------~~g~~~~A~~~~~~~~~~g~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~  685 (732)
                      ..  .||....+. ++-++.          ++-..-.++.++.+..+.... -...++..++.+|-..|-+.-|..++++
T Consensus       768 ~~--~pd~Pl~nl~lglafih~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYek  845 (895)
T KOG2076|consen  768 RQ--NPDSPLINLCLGLAFIHLALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEK  845 (895)
T ss_pred             Hh--CCCCcHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            64  355333332 222222          222345667777666652111 1345667799999999999999999999


Q ss_pred             HHHcCCCC---------C----HHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004744          686 MIEKGLNP---------D----RSTYTTLINGHVSQNNLKEAFRFHDE  720 (732)
Q Consensus       686 ~~~~g~~p---------~----~~~~~~l~~~~~~~g~~~~A~~~~~~  720 (732)
                      .++  +.|         +    ..+-..|.-.|.++|+...|.+++++
T Consensus       846 vL~--~~p~~~~~~~~d~~dLrkeAA~NL~LIY~~SGn~~lArqil~k  891 (895)
T KOG2076|consen  846 VLE--VSPKDVTDPKEDNYDLRKEAAYNLHLIYKKSGNMQLARQILEK  891 (895)
T ss_pred             HhC--CCccccccccCCcccHHHHHHhhhhhhhccCCcHHHHHHHHHh
Confidence            998  432         1    12334566689999999999999875

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

Probab=99.83  E-value=2.3e-16  Score=150.97  Aligned_cols=477  Identities=13%  Similarity=0.103  Sum_probs=305.3

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH-HHHHHHHhcCChhHHHHHHHHHHhCCCCCC------HHHH
Q 004744          206 NACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLN-IMVNALCKDHKIDSAKMFLCEMEQKGVYPD------TVTY  278 (732)
Q Consensus       206 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~------~~~~  278 (732)
                      .....|..-|..+..+.+|+..|+-+++...-|+.-... .+.+.+.+..++.+|+++++-.+..  .|+      ....
T Consensus       202 svl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldq--vpsink~~rikil  279 (840)
T KOG2003|consen  202 SVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQ--VPSINKDMRIKIL  279 (840)
T ss_pred             HHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhh--ccccchhhHHHHH
Confidence            344445555666666777777777777665555543322 2446667777777777777766654  222      2234


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH------------H
Q 004744          279 NTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDT------------A  346 (732)
Q Consensus       279 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~------------~  346 (732)
                      +.+...+.+.|+++.|+..|+...+.  .||..+-..|+-++...|+.++..+.|.+|+.....||.            .
T Consensus       280 ~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~  357 (840)
T KOG2003|consen  280 NNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDN  357 (840)
T ss_pred             hhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchH
Confidence            55555667777788887777777664  456666666666666777777777777777754323322            2


Q ss_pred             hHHHHHHH-----HHcCC--CHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHH-HHHHHCCCCC-CHHH
Q 004744          347 TYNTLLVE-----SCRKE--NMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYF-REMKSAGLVP-DNVL  417 (732)
Q Consensus       347 ~~~~li~~-----~~~~g--~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~-~~~~~~~~~~-~~~~  417 (732)
                      ..+..|..     .-+..  +.++++-.-.+++.--+.|+                +....++. +.++.....+ -...
T Consensus       358 ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~----------------fa~g~dwcle~lk~s~~~~la~dl  421 (840)
T KOG2003|consen  358 LLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPD----------------FAAGCDWCLESLKASQHAELAIDL  421 (840)
T ss_pred             HHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccc----------------hhcccHHHHHHHHHhhhhhhhhhh
Confidence            22221110     00000  01111111111111111111                11111111 1111110000 0000


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 004744          418 YTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCR--AKMLTEADDLFNEMLERGVFPDFYTFTTLIHGH  495 (732)
Q Consensus       418 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~--~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  495 (732)
                      -..-...|.+.|+++.|+++++-..++....-...-+.|-..+.-  .+++.+|..+-+..+..+- -+......-....
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            011233578899999999999888776544334444444333332  4467788887777665421 2333333333444


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 004744          496 CKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAF  575 (732)
Q Consensus       496 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  575 (732)
                      ...|++++|.+.|++.+..+..-....|+ +.-.+-+.|++++|++.|-++... +..+......+.+.|-...+...|+
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            56899999999999998763222222222 223467889999999999876543 2237777888899999999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 004744          576 RLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQG  655 (732)
Q Consensus       576 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  655 (732)
                      +++.+.... ++.|+.++..+...|-+.|+-.+|.+++-.-.. -++-+..+...|...|....-+++|+.+|+++.-  
T Consensus       579 e~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaal--  654 (840)
T KOG2003|consen  579 ELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--  654 (840)
T ss_pred             HHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--
Confidence            999888766 688999999999999999999999998765544 3566888888999999999999999999999887  


Q ss_pred             CCCCHHHHHHHHHHHH-hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 004744          656 LVPDVITYNVILTGFC-RQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNN  710 (732)
Q Consensus       656 ~~p~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~  710 (732)
                      +.|+..-|..++..|. +.|++.+|..+++....+ ++.|..+..-|++.+...|.
T Consensus       655 iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  655 IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            7999999988887664 789999999999998874 55588899999998887775

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.82  E-value=5.1e-15  Score=141.06  Aligned_cols=449  Identities=15%  Similarity=0.190  Sum_probs=288.6

Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHH--HcCChH-HHHHHHHHHHHcCCCCCHHHHH
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLV--KIGWVD-LAREVYAEVVRSGIELNVYTLN  244 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~g~~~-~a~~~~~~~~~~~~~~~~~~~~  244 (732)
                      ..+..-|.|+.. ..+|.+.++.-+|+.|...|++.+...--.|+..-+  ...+.- .-++.|-.|.+.| ..+..+| 
T Consensus       114 ~~V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~-E~S~~sW-  190 (625)
T KOG4422|consen  114 LQVETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG-EDSTSSW-  190 (625)
T ss_pred             hhhcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc-ccccccc-
Confidence            345556666654 567899999999999999998888877766665433  222222 2245555565554 4444444 


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcC
Q 004744          245 IMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKG  324 (732)
Q Consensus       245 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  324 (732)
                             +.|.+.+  -+|+... +    +..+|..||.++||.-..+.|.+++++......+.+..+||.+|.+-.-. 
T Consensus       191 -------K~G~vAd--L~~E~~P-K----T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~-  255 (625)
T KOG4422|consen  191 -------KSGAVAD--LLFETLP-K----TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS-  255 (625)
T ss_pred             -------ccccHHH--HHHhhcC-C----CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh-
Confidence                   3344333  3333332 2    66789999999999999999999999998887788899999998764432 


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhH----HHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHH-H
Q 004744          325 RCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSE----AEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDR-A  399 (732)
Q Consensus       325 ~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~----A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~-A  399 (732)
                         ...+++.+|....+.||..|+|+++.+..+.|+++.    |.+++.+|.+.|+.|...+|..+|..+++.++..+ |
T Consensus       256 ---~~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~a  332 (625)
T KOG4422|consen  256 ---VGKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVA  332 (625)
T ss_pred             ---ccHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhh
Confidence               237888999988889999999999999999998765    45788889999999999999999999988887644 4


Q ss_pred             HHHHHHHHHC----CC----CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC----CCc---CHHHHHHHHHHHHhcC
Q 004744          400 LMYFREMKSA----GL----VPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKG----CVM---DVVTYNTILNGLCRAK  464 (732)
Q Consensus       400 ~~l~~~~~~~----~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----~~~---~~~~~~~li~~~~~~~  464 (732)
                      ..++.++...    .+    +.|...+...+..|.+..+.+-|.++..-+....    +.+   ....|..+....|+..
T Consensus       333 s~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~e  412 (625)
T KOG4422|consen  333 SSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQME  412 (625)
T ss_pred             HHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHH
Confidence            4455444321    12    2244566677777778888888877766554321    111   2234556677777777


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          465 MLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWA  544 (732)
Q Consensus       465 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  544 (732)
                      ..+.-...|+.|.-.-.-|+..+...++++..-.|.++-.-+++.+++..|..-....                .++++.
T Consensus       413 s~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l----------------~eeil~  476 (625)
T KOG4422|consen  413 SIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDL----------------REEILM  476 (625)
T ss_pred             HHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHH----------------HHHHHH
Confidence            8888888888887776677777777777777777777777777777776543322221                123333


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhc-CCHHHHHH-HHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-
Q 004744          545 DMISRKISPNYISYGILINGYCSM-GHVTEAFR-LWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGV-  621 (732)
Q Consensus       545 ~~~~~~~~~~~~~~~~li~~~~~~-g~~~~A~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-  621 (732)
                      .+....+.|+...-..+-....++ -++.++.+ .-..|.+.  .-.....+.++-.+.+.|..++|.+++..+.+.+- 
T Consensus       477 ~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~--~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~  554 (625)
T KOG4422|consen  477 LLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQ--DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNK  554 (625)
T ss_pred             HHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhc--cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCc
Confidence            333333333322111111111111 01222221 12233333  33445566777778888888888888888765431 


Q ss_pred             CCCHHHHH---HHHHHHHhcCCHHHHHHHHHHHHHCC
Q 004744          622 DPDSISYN---TLINGFVREENMDKAFALVSKMENQG  655 (732)
Q Consensus       622 ~~~~~~~~---~li~~~~~~g~~~~A~~~~~~~~~~g  655 (732)
                      -|-....|   -+++.-........|...++-|...+
T Consensus       555 ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n  591 (625)
T KOG4422|consen  555 IPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFN  591 (625)
T ss_pred             CCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Confidence            22222333   44555556667777777777776543

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.80  E-value=5.9e-13  Score=128.81  Aligned_cols=434  Identities=12%  Similarity=0.053  Sum_probs=258.1

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNV-YTLNIMVN  248 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~  248 (732)
                      ...|-.-..-=..++++..|..+|+++++.... +...|-..+..=.++..+..|..++++++..-  |-+ ..|-..+.
T Consensus        73 ~~~WikYaqwEesq~e~~RARSv~ERALdvd~r-~itLWlkYae~Emknk~vNhARNv~dRAvt~l--PRVdqlWyKY~y  149 (677)
T KOG1915|consen   73 MQVWIKYAQWEESQKEIQRARSVFERALDVDYR-NITLWLKYAEFEMKNKQVNHARNVWDRAVTIL--PRVDQLWYKYIY  149 (677)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccc-cchHHHHHHHHHHhhhhHhHHHHHHHHHHHhc--chHHHHHHHHHH
Confidence            344555555556678899999999999987644 88899999999999999999999999998753  333 34545555


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhH
Q 004744          249 ALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDR  328 (732)
Q Consensus       249 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  328 (732)
                      +=-..|++..|+++|++..+.  .|+..+|++.|..-.+.+.++.|..++++..-.  .|++.+|.-....-.+.|....
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            555679999999999999887  799999999999999999999999999998864  6899999999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCH----HhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCC--HhHHHHHHHHHHhCCCHHHHHHH
Q 004744          329 AKEVLDEMLQMGLSPDT----ATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPD--IVSFSTLIGIFSRNGQLDRALMY  402 (732)
Q Consensus       329 A~~~~~~~~~~g~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~--~~~~~~l~~~~~~~g~~~~A~~l  402 (732)
                      |..+|....+.  ..|.    ..+.+...--.++..++.|.-+|.-.++.= +.+  ...|..+...--+-|+.....+.
T Consensus       226 aR~VyerAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~  302 (677)
T KOG1915|consen  226 ARSVYERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDA  302 (677)
T ss_pred             HHHHHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHH
Confidence            99999988764  1222    233444444445667777777777766642 212  23344444433344443322221


Q ss_pred             --------HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCH-HHHHHHH--------HHHHhcCC
Q 004744          403 --------FREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDV-VTYNTIL--------NGLCRAKM  465 (732)
Q Consensus       403 --------~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~li--------~~~~~~~~  465 (732)
                              |+.+.+.+ +-|-.+|-..++.-...|+.+...+++++.+..-++... ..|...|        -.-....+
T Consensus       303 Iv~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed  381 (677)
T KOG1915|consen  303 IVGKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAED  381 (677)
T ss_pred             HhhhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence                    22222221 223445555555555556666666666665554222111 1111111        11113445


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHH----HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004744          466 LTEADDLFNEMLERGVFPDFYTFTTLIHGH----CKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANK  541 (732)
Q Consensus       466 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~----~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  541 (732)
                      .+.+.++|+..++. ++....||.-+--.|    .++.++..|.+++...+  |.-|-..++...|+.-.+.+++|...+
T Consensus       382 ~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRk  458 (677)
T KOG1915|consen  382 VERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRK  458 (677)
T ss_pred             HHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHH
Confidence            55555555555542 222333333222222    23445555555555443  234444555555555555555555555


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 004744          542 LWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKG-IKPTLVSCNTIIKGYCRSGDASKADEFLSKMVS  618 (732)
Q Consensus       542 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  618 (732)
                      ++++.++-++. +..+|......-...|+.+.|..+|+-.+... .......|.+.|+.-...|.+++|..+|+++++
T Consensus       459 LYEkfle~~Pe-~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~  535 (677)
T KOG1915|consen  459 LYEKFLEFSPE-NCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLD  535 (677)
T ss_pred             HHHHHHhcChH-hhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHH
Confidence            55555554322 44455554444445555555555555554431 111223444444444455555555555555554

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

Probab=99.78  E-value=2.6e-15  Score=143.85  Aligned_cols=481  Identities=14%  Similarity=0.101  Sum_probs=321.1

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHH-HHHHHHHHHcCChHHHHHHHHHHHHcCCCCC----HHHHHH
Q 004744          171 LIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINAC-NSLLGGLVKIGWVDLAREVYAEVVRSGIELN----VYTLNI  245 (732)
Q Consensus       171 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~  245 (732)
                      .+...|..-|..+.+..+|+..|+-+.+....|+.... ..+...+.+...+..|+++|+-++..-...+    ....+.
T Consensus       202 svl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~n  281 (840)
T KOG2003|consen  202 SVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNN  281 (840)
T ss_pred             HHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhh
Confidence            34445677788889999999999999888777776544 4466778889999999999998775421111    223444


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhH--------HHHH
Q 004744          246 MVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTY--------NSLI  317 (732)
Q Consensus       246 l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~--------~~li  317 (732)
                      +.-.+.+.|.+++|+..|+...+.  .|+..+-..|+-.+.-.|+-++..+.|.+|+.-...||..-|        ..|+
T Consensus       282 igvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll  359 (840)
T KOG2003|consen  282 IGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLL  359 (840)
T ss_pred             cCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHH
Confidence            455678899999999999998877  578777666666667789999999999999865333332211        1222


Q ss_pred             HHHHh---------cC--ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHH
Q 004744          318 NGLCK---------KG--RCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTL  386 (732)
Q Consensus       318 ~~~~~---------~g--~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l  386 (732)
                      .--.+         ..  +.++++-.-.+++.--+.|+-..           | .+-+++.+..-.-..+.  ...--.-
T Consensus       360 ~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~-----------g-~dwcle~lk~s~~~~la--~dlei~k  425 (840)
T KOG2003|consen  360 NEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAA-----------G-CDWCLESLKASQHAELA--IDLEINK  425 (840)
T ss_pred             HHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhc-----------c-cHHHHHHHHHhhhhhhh--hhhhhhH
Confidence            21111         11  11112111111211111222110           0 12222222221111000  0011122


Q ss_pred             HHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH--cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 004744          387 IGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCR--NGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAK  464 (732)
Q Consensus       387 ~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  464 (732)
                      ...+.++|+++.|.++++-+.+..-+.-...-+.|-..+.-  -.++.+|.+.-+..+...- -+......-.......|
T Consensus       426 a~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dr-yn~~a~~nkgn~~f~ng  504 (840)
T KOG2003|consen  426 AGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDR-YNAAALTNKGNIAFANG  504 (840)
T ss_pred             HHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccc-cCHHHhhcCCceeeecC
Confidence            34578899999999999888776333222233333322222  2356677666665554321 13333333334445689


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          465 MLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWA  544 (732)
Q Consensus       465 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  544 (732)
                      ++++|.+.|++.+..+-.- ......+.-.+-..|++++|++.|-++-.. +..+..+...+...|-...+...|++++.
T Consensus       505 d~dka~~~ykeal~ndasc-~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~  582 (840)
T KOG2003|consen  505 DLDKAAEFYKEALNNDASC-TEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLM  582 (840)
T ss_pred             cHHHHHHHHHHHHcCchHH-HHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHH
Confidence            9999999999998763321 122223334567889999999998765432 12366677778888999999999999998


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 004744          545 DMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPD  624 (732)
Q Consensus       545 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  624 (732)
                      +.... ++.|+...+-|...|-+.|+-..|++.+-+-..- ++.+..+...+...|....-+++|+.+|++..-  +.|+
T Consensus       583 q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~  658 (840)
T KOG2003|consen  583 QANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPN  658 (840)
T ss_pred             Hhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCcc
Confidence            88765 5668999999999999999999999988777655 688889999999889988889999999998865  6899


Q ss_pred             HHHHHHHHHHH-HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004744          625 SISYNTLINGF-VREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGR  675 (732)
Q Consensus       625 ~~~~~~li~~~-~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~  675 (732)
                      ..-|..++..| .+.|++++|+.+++....+ ++.|.....-|++.+...|.
T Consensus       659 ~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  659 QSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            99999887554 5789999999999998875 66688888888888877764

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.77  E-value=1.4e-13  Score=131.35  Aligned_cols=448  Identities=16%  Similarity=0.199  Sum_probs=309.2

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--hcCChhHH-HHHHHHHHhCCCCCCHHHHHHH
Q 004744          205 INACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALC--KDHKIDSA-KMFLCEMEQKGVYPDTVTYNTL  281 (732)
Q Consensus       205 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~g~~~~A-~~~~~~~~~~g~~p~~~~~~~l  281 (732)
                      +.+-|.|+. +..+|.+.++.-+|+.|...|++.+...-..|.+..|  ...++--| .+.|-.|.+.|-. +..+|   
T Consensus       116 V~~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~-S~~sW---  190 (625)
T KOG4422|consen  116 VETENNLLK-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGED-STSSW---  190 (625)
T ss_pred             hcchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccc-ccccc---
Confidence            345566665 4567899999999999999999888888777765544  33333322 3455566666533 44455   


Q ss_pred             HHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCH
Q 004744          282 INAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENM  361 (732)
Q Consensus       282 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  361 (732)
                           |.|++.+   ++-+..-    -+..+|..+|.++|+-...+.|.+++++......+.+..++|.+|.+-.-    
T Consensus       191 -----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  191 -----KSGAVAD---LLFETLP----KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----  254 (625)
T ss_pred             -----ccccHHH---HHHhhcC----CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----
Confidence                 4455544   3333332    27889999999999999999999999999887778899999999876442    


Q ss_pred             hHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHH----HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH-HHH
Q 004744          362 SEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDR----ALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLE-ALK  436 (732)
Q Consensus       362 ~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~----A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-A~~  436 (732)
                      ....+++.+|....+.||..|+|+++.+..+.|+++.    |.+++.+|++.|+.|...+|..+|..+++.++..+ +..
T Consensus       255 ~~~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~  334 (625)
T KOG4422|consen  255 SVGKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASS  334 (625)
T ss_pred             hccHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHH
Confidence            2337899999999999999999999999999998775    45788899999999999999999999999888744 444


Q ss_pred             HHHHHHH----CCCC----cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC----CCCCH---HHHHHHHHHHHhcCCH
Q 004744          437 MRDEMLE----KGCV----MDVVTYNTILNGLCRAKMLTEADDLFNEMLERG----VFPDF---YTFTTLIHGHCKDGNM  501 (732)
Q Consensus       437 ~~~~~~~----~~~~----~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~----~~~~~---~~~~~li~~~~~~g~~  501 (732)
                      +..++..    +.+.    .|...+...+..|.+..+.+-|.++..-+....    +.|+.   .-|..+....|+....
T Consensus       335 ~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~  414 (625)
T KOG4422|consen  335 WINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESI  414 (625)
T ss_pred             HHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHH
Confidence            4444433    2222    245566677778888888888888776554321    22222   3456677788888999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          502 NKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEM  581 (732)
Q Consensus       502 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  581 (732)
                      +.-...|+.|+-.-.-|+..+...++.+..-.|.++-.-++|.++...|..-+.....                +++..|
T Consensus       415 ~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~e----------------eil~~L  478 (625)
T KOG4422|consen  415 DVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLRE----------------EILMLL  478 (625)
T ss_pred             HHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHH----------------HHHHHH
Confidence            9999999999888777888888888898888999999999998888765432222222                222333


Q ss_pred             HhCCCCCCHHHHHHHHHHHHHc-CCHHHH-HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-C
Q 004744          582 VGKGIKPTLVSCNTIIKGYCRS-GDASKA-DEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLV-P  658 (732)
Q Consensus       582 ~~~~~~~~~~~~~~l~~~~~~~-g~~~~A-~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~-p  658 (732)
                      ......|+...-..+-....+. -++.++ ...-.+|.+.  .-.....+.++-.+.+.|+.++|.+++.-..+.+-+ |
T Consensus       479 ~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~--~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip  556 (625)
T KOG4422|consen  479 ARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQ--DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIP  556 (625)
T ss_pred             hcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhc--cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCC
Confidence            3322233222111111111111 112222 2222334443  344556777888899999999999999998664422 3


Q ss_pred             CHHHHH---HHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 004744          659 DVITYN---VILTGFCRQGRMHDSELILWRMIEKGL  691 (732)
Q Consensus       659 ~~~~~~---~l~~~~~~~g~~~~A~~~~~~~~~~g~  691 (732)
                      -....+   -+.+.-.+..+...|...++-|...+.
T Consensus       557 ~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~  592 (625)
T KOG4422|consen  557 RSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNL  592 (625)
T ss_pred             CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCc
Confidence            233344   455666677889999999999977543

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.74  E-value=6.1e-12  Score=121.92  Aligned_cols=461  Identities=12%  Similarity=0.106  Sum_probs=351.3

Q ss_pred             HHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 004744          191 EVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKG  270 (732)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g  270 (732)
                      .-|+.-+.++ ..+...|.....-=..++++..|..+|++++..+ ..+...|...+.+=.++..+..|+.++++.... 
T Consensus        60 kefEd~irrn-R~~~~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~-  136 (677)
T KOG1915|consen   60 KEFEDQIRRN-RLNMQVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI-  136 (677)
T ss_pred             HHHHHHHHHH-HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh-
Confidence            3455444433 3467778888887788899999999999998865 667778888899999999999999999999886 


Q ss_pred             CCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHH
Q 004744          271 VYPDT-VTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYN  349 (732)
Q Consensus       271 ~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~  349 (732)
                       -|-+ ..|.-.+.+--..|++..|.++|++-.+  ..|+..+|.+.|+.-.+.+..+.|..++++.+-.  .|++.+|.
T Consensus       137 -lPRVdqlWyKY~ymEE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wi  211 (677)
T KOG1915|consen  137 -LPRVDQLWYKYIYMEEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWI  211 (677)
T ss_pred             -cchHHHHHHHHHHHHHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHH
Confidence             3433 3566667777778999999999999887  4899999999999999999999999999998864  69999999


Q ss_pred             HHHHHHHcCCCHhHHHHHHHHHHhC-CC-CCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHH
Q 004744          350 TLLVESCRKENMSEAEEIFCEMSRR-GV-APDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPD--NVLYTIIINGY  425 (732)
Q Consensus       350 ~li~~~~~~g~~~~A~~~~~~~~~~-g~-~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~--~~~~~~li~~~  425 (732)
                      -...--.+.|....|..+|....+. |- .-+...+.+....-..+..++.|.-+|+-.++. ++.+  ...|..+...=
T Consensus       212 kyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~-~pk~raeeL~k~~~~fE  290 (677)
T KOG1915|consen  212 KYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH-IPKGRAEELYKKYTAFE  290 (677)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcccHHHHHHHHHHHH
Confidence            9888889999999999999988653 11 113345666666666788899999999988876 2223  23454444444


Q ss_pred             HHcCCH---HHHHH-----HHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--HHHHHHHH--
Q 004744          426 CRNGFV---LEALK-----MRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDF--YTFTTLIH--  493 (732)
Q Consensus       426 ~~~g~~---~~A~~-----~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~li~--  493 (732)
                      -+-|+.   ++++-     -++.+++.++. |-.+|-..+..-...|+.+...++|+.++.. ++|-.  ..|...|-  
T Consensus       291 KqfGd~~gIEd~Iv~KRk~qYE~~v~~np~-nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLW  368 (677)
T KOG1915|consen  291 KQFGDKEGIEDAIVGKRKFQYEKEVSKNPY-NYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLW  368 (677)
T ss_pred             HHhcchhhhHHHHhhhhhhHHHHHHHhCCC-CchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHH
Confidence            445554   44432     24455555443 7788888888888889999999999999876 34422  12222221  


Q ss_pred             ------HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH----HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004744          494 ------GHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGF----CKVGEMEKANKLWADMISRKISPNYISYGILIN  563 (732)
Q Consensus       494 ------~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~----~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  563 (732)
                            .-....+.+.+.++|+..++. ++....|+.-+--+|    .++.++..|.+++...+  |..|...++...|.
T Consensus       369 inYalyeEle~ed~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIe  445 (677)
T KOG1915|consen  369 INYALYEELEAEDVERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIE  445 (677)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHH
Confidence                  113467899999999998874 555666766655444    46788999999998877  55778889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHH
Q 004744          564 GYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEG-VDPDSISYNTLINGFVREENMD  642 (732)
Q Consensus       564 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~  642 (732)
                      .-.+.+.++....+|+..++-+ |.|..+|......-...|+.+.|..+|+-++... .......|-+.|+.-...|.++
T Consensus       446 lElqL~efDRcRkLYEkfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~e  524 (677)
T KOG1915|consen  446 LELQLREFDRCRKLYEKFLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFE  524 (677)
T ss_pred             HHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHH
Confidence            9999999999999999999875 7788899888888888999999999999988752 2223566777888888899999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004744          643 KAFALVSKMENQGLVPDVITYNVILT  668 (732)
Q Consensus       643 ~A~~~~~~~~~~g~~p~~~~~~~l~~  668 (732)
                      .|..+++++.+.  .+...+|-+.+.
T Consensus       525 kaR~LYerlL~r--t~h~kvWisFA~  548 (677)
T KOG1915|consen  525 KARALYERLLDR--TQHVKVWISFAK  548 (677)
T ss_pred             HHHHHHHHHHHh--cccchHHHhHHH
Confidence            999999999984  445556765543

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.72  E-value=3.3e-11  Score=121.25  Aligned_cols=545  Identities=14%  Similarity=0.115  Sum_probs=317.5

Q ss_pred             hHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 004744          118 SMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLR  197 (732)
Q Consensus       118 ~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  197 (732)
                      +..|-.-+..+..+|+...-+..|+++++.-++.                ....+|...++..-..|.++-++.++++.+
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvt----------------qH~rIW~lyl~Fv~~~~lPets~rvyrRYL  165 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVT----------------QHDRIWDLYLKFVESHGLPETSIRVYRRYL  165 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchH----------------hhccchHHHHHHHHhCCChHHHHHHHHHHH
Confidence            5677777778888999998899999988653321                235678899999999999999999999999


Q ss_pred             HCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC------CCCCHHHHHHHHHHHHhcCChh---HHHHHHHHHHh
Q 004744          198 NKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSG------IELNVYTLNIMVNALCKDHKID---SAKMFLCEMEQ  268 (732)
Q Consensus       198 ~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~---~A~~~~~~~~~  268 (732)
                      +.    ++..-+-.+.-+++.++.++|.+.+..++...      .+.+...|..+-+...+.-+.-   ....+++.+..
T Consensus       166 k~----~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~  241 (835)
T KOG2047|consen  166 KV----APEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIR  241 (835)
T ss_pred             hc----CHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcc
Confidence            86    55567888899999999999999999886431      2455566776666655543332   23344555444


Q ss_pred             CCCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHH-HCCCC-CC
Q 004744          269 KGVYPDT--VTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEML-QMGLS-PD  344 (732)
Q Consensus       269 ~g~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~g~~-~~  344 (732)
                      .  .+|.  ..|++|.+-|.+.|.+++|.++|++....  ...+..|..+.+.|++...-.-+..+  ++. +.+.. -+
T Consensus       242 r--ftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~m--e~a~~~~~n~ed  315 (835)
T KOG2047|consen  242 R--FTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKM--ELADEESGNEED  315 (835)
T ss_pred             c--CcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHH--hhhhhcccChhh
Confidence            3  3454  57999999999999999999999998775  22555666777776643221111111  010 01101 11


Q ss_pred             HHhHHHHHHHHHcCCCHhHHHHHHHHHHhCC-----------CCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCC
Q 004744          345 TATYNTLLVESCRKENMSEAEEIFCEMSRRG-----------VAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVP  413 (732)
Q Consensus       345 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g-----------~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~  413 (732)
                      ...             ++-...-|+.+...+           -+.++..|..-+..  ..|+..+-...|.++.+. +.|
T Consensus       316 ~~d-------------l~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l--~e~~~~~~i~tyteAv~~-vdP  379 (835)
T KOG2047|consen  316 DVD-------------LELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKL--YEGNAAEQINTYTEAVKT-VDP  379 (835)
T ss_pred             hhh-------------HHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhhh--hcCChHHHHHHHHHHHHc-cCc
Confidence            111             111112222221110           11134444433332  245556666666665543 222


Q ss_pred             C------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--
Q 004744          414 D------NVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMD---VVTYNTILNGLCRAKMLTEADDLFNEMLERGVF--  482 (732)
Q Consensus       414 ~------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~--  482 (732)
                      .      ...|..+.+.|-..|+++.|..+|++..+-.+.--   ..+|.....+-.+..+++.|.++.+.....--.  
T Consensus       380 ~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~  459 (835)
T KOG2047|consen  380 KKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPE  459 (835)
T ss_pred             ccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchh
Confidence            1      13456666666677777777777776665433211   234444455555566666666666554432110  


Q ss_pred             --------C-------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          483 --------P-------DFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMI  547 (732)
Q Consensus       483 --------~-------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  547 (732)
                              |       +...|...++.--..|-++....+|+.++...+. ++.........+-...-++++.++|++-+
T Consensus       460 ~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI  538 (835)
T KOG2047|consen  460 LEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGI  538 (835)
T ss_pred             hhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCC
Confidence                    0       2234555566556667777777888877776443 22222222223344556777777777766


Q ss_pred             HCCCCCCHH-HHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 004744          548 SRKISPNYI-SYGILINGYCS---MGHVTEAFRLWYEMVGKGIKPTLVS--CNTIIKGYCRSGDASKADEFLSKMVSEGV  621 (732)
Q Consensus       548 ~~~~~~~~~-~~~~li~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  621 (732)
                      ..-..|++. .|+..+.-+.+   ..+++.|..+|++.++ |.+|...-  |-.....-.+-|....|+.+++++.. ++
T Consensus       539 ~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~-~v  616 (835)
T KOG2047|consen  539 SLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS-AV  616 (835)
T ss_pred             ccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh-cC
Confidence            654444443 45554444432   2357788888888887 45554322  22222223345777788888887655 33


Q ss_pred             CCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH---HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--C
Q 004744          622 DPD--SISYNTLINGFVREENMDKAFALVSKMENQGLVPDVIT---YNVILTGFCRQGRMHDSELILWRMIEKGLNP--D  694 (732)
Q Consensus       622 ~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p--~  694 (732)
                      ++.  ...||..|.--...--+..-..+|+++++  .-||...   .-.....=++.|.++.|..++....+. .+|  +
T Consensus       617 ~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe--~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~-~dPr~~  693 (835)
T KOG2047|consen  617 KEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIE--SLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQI-CDPRVT  693 (835)
T ss_pred             CHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHH--hCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhc-CCCcCC
Confidence            333  34566666444333334455667777776  3454432   222333445678888888887776663 334  4


Q ss_pred             HHHHHHHHHHHHhcCC
Q 004744          695 RSTYTTLINGHVSQNN  710 (732)
Q Consensus       695 ~~~~~~l~~~~~~~g~  710 (732)
                      ...|.+.=.-=.+.|+
T Consensus       694 ~~fW~twk~FEvrHGn  709 (835)
T KOG2047|consen  694 TEFWDTWKEFEVRHGN  709 (835)
T ss_pred             hHHHHHHHHHHHhcCC
Confidence            5667666666677777

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.68  E-value=1.3e-11  Score=119.71  Aligned_cols=366  Identities=15%  Similarity=0.063  Sum_probs=237.7

Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhH-
Q 004744          270 GVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATY-  348 (732)
Q Consensus       270 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~-  348 (732)
                      +..-|...+-.....+-+.|....|.+.|...... .+-+-.+|..|....   -+.+.+..+    . .|.+.|...+ 
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---TDIEILSIL----V-VGLPSDMHWMK  229 (559)
T ss_pred             cccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhc-CCcchHHHHHHHHhh---chHHHHHHH----H-hcCcccchHHH
Confidence            33446666666666777888999999999888765 122334444433322   222222221    1 1222221111 


Q ss_pred             -HHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHH
Q 004744          349 -NTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGL--VPDNVLYTIIINGY  425 (732)
Q Consensus       349 -~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~--~~~~~~~~~li~~~  425 (732)
                       --+..++-...+.+++.+-.......|++-+...-+....+.....++++|+.+|+++.+..+  --|..+|+.++  |
T Consensus       230 ~~F~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~L--Y  307 (559)
T KOG1155|consen  230 KFFLKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVL--Y  307 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHH--H
Confidence             123445555667888888888888888776666666666777788889999999998887631  11445676665  3


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 004744          426 CRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKAL  505 (732)
Q Consensus       426 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  505 (732)
                      .+..+-.-  ..+..-...-..--+.|...+.+.|.-.++.++|...|+..++.++. ....|+.+.+-|....+...|+
T Consensus       308 v~~~~skL--s~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi  384 (559)
T KOG1155|consen  308 VKNDKSKL--SYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAI  384 (559)
T ss_pred             HHhhhHHH--HHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHH
Confidence            33332211  11111111101123456667777788888888888888888887655 5667888888888888888888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 004744          506 NLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKG  585 (732)
Q Consensus       506 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  585 (732)
                      +-++.+++-.. .|-..|-.|.++|.-.+.+.-|+-.|++..... +.|...|.+|..+|.+.++.++|++.|......|
T Consensus       385 ~sYRrAvdi~p-~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~  462 (559)
T KOG1155|consen  385 ESYRRAVDINP-RDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG  462 (559)
T ss_pred             HHHHHHHhcCc-hhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc
Confidence            88888887643 377788888888888888888888888888764 4478888888888888888888888888888776


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          586 IKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSE----GVDPD--SISYNTLINGFVREENMDKAFALVSKME  652 (732)
Q Consensus       586 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~  652 (732)
                       ..+...+..+.+.|.+.++.++|...|++-++.    |...+  .....-|...+.+.+++++|..+.....
T Consensus       463 -dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~  534 (559)
T KOG1155|consen  463 -DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVL  534 (559)
T ss_pred             -ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHh
Confidence             445677888888888888888888888776652    32222  1122224455566666666655444433

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.68  E-value=4.5e-13  Score=130.32  Aligned_cols=220  Identities=13%  Similarity=0.065  Sum_probs=120.8

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004744          462 RAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANK  541 (732)
Q Consensus       462 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  541 (732)
                      -.|+.-.|.+-|+..++....++. .|..+...|....+.++-...|++....+.. ++.+|..-.+++.-.+++++|..
T Consensus       338 L~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~a  415 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIA  415 (606)
T ss_pred             hcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHH
Confidence            355666666666666665444222 2555555566666666666666666655433 44555555555555666666666


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 004744          542 LWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGV  621 (732)
Q Consensus       542 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  621 (732)
                      -|++.++..+. +...|..+.-+..+.++++++...|++.+++ +|.-+..|+-....+...+++++|.+.|+..++...
T Consensus       416 DF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~  493 (606)
T KOG0547|consen  416 DFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEP  493 (606)
T ss_pred             HHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhcc
Confidence            66666655322 4444555555555566666666666666655 444556666666666666666666666666655321


Q ss_pred             C-----CCHHHH--HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          622 D-----PDSISY--NTLINGFVREENMDKAFALVSKMENQGLVPD-VITYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       622 ~-----~~~~~~--~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      .     .+...+  -.++-.- -.+++..|.++++++.+  +.|. ...|..|...-.++|++++|+++|++...
T Consensus       494 ~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e--~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  494 REHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIE--LDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             ccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHc--cCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            1     011111  1111111 12566666666666665  3442 34555666666666666666666666554

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.67  E-value=1.1e-11  Score=120.23  Aligned_cols=362  Identities=11%  Similarity=0.035  Sum_probs=192.9

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCH--hHHHHH
Q 004744          309 GVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDI--VSFSTL  386 (732)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~--~~~~~l  386 (732)
                      |..-+-.....+.+.|..+.|+..|...+..- +-.-.+|..|....   .+.+.+    ...... .+.|.  ..---+
T Consensus       163 D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~-P~~W~AWleL~~li---t~~e~~----~~l~~~-l~~~~h~M~~~F~  233 (559)
T KOG1155|consen  163 DEFLLYLYGVVLKELGLLSLAIDSFVEVVNRY-PWFWSAWLELSELI---TDIEIL----SILVVG-LPSDMHWMKKFFL  233 (559)
T ss_pred             hhHHHHHHHHHHHhhchHHHHHHHHHHHHhcC-CcchHHHHHHHHhh---chHHHH----HHHHhc-CcccchHHHHHHH
Confidence            44443344444556667777777776665431 33334444333322   122222    111111 11111  111123


Q ss_pred             HHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC--cCHHHHHHHHHHHHhcC
Q 004744          387 IGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCV--MDVVTYNTILNGLCRAK  464 (732)
Q Consensus       387 ~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~li~~~~~~~  464 (732)
                      ..++....+.+++.+-.+.....|++-+...-+....+.-...++++|+.+|+++.+..+-  -|..+|..++-  .++.
T Consensus       234 ~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LY--v~~~  311 (559)
T KOG1155|consen  234 KKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLY--VKND  311 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHH--HHhh
Confidence            3444445566666666666666666655555555555556666777777777777665322  24455555542  2222


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          465 MLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWA  544 (732)
Q Consensus       465 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  544 (732)
                      +..-+  .+.+-.-.--+--+.|...+.+-|.-.++.+.|...|+..++.+.. ....|+.+..-|....+...|.+-++
T Consensus       312 ~skLs--~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYR  388 (559)
T KOG1155|consen  312 KSKLS--YLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYR  388 (559)
T ss_pred             hHHHH--HHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHH
Confidence            21111  1111110000112345555666666666777777777776665433 44556666666777777777777777


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 004744          545 DMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPD  624 (732)
Q Consensus       545 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  624 (732)
                      ..++.. +.|...|-.|..+|.-.+.+.-|+-.|++..... |.|...|.+|..+|.+.++.++|++.|......| ..+
T Consensus       389 rAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte  465 (559)
T KOG1155|consen  389 RAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTE  465 (559)
T ss_pred             HHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccc
Confidence            776653 3366666677777777777777777777666652 5566677777777777777777777777666643 224


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCCC-H-HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          625 SISYNTLINGFVREENMDKAFALVSKMEN----QGLVPD-V-ITYNVILTGFCRQGRMHDSELILWRMI  687 (732)
Q Consensus       625 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~g~~p~-~-~~~~~l~~~~~~~g~~~~A~~~~~~~~  687 (732)
                      ...+..|...|-+.++.++|...+++-++    .|...+ . ....-|..-+.+.+++++|..+.....
T Consensus       466 ~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~  534 (559)
T KOG1155|consen  466 GSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVL  534 (559)
T ss_pred             hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHh
Confidence            46666677777777777777666666554    221111 1 111123333445566666655544443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.67  E-value=5.2e-13  Score=138.57  Aligned_cols=285  Identities=11%  Similarity=0.077  Sum_probs=200.3

Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004744          428 NGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNL  507 (732)
Q Consensus       428 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  507 (732)
                      .|++++|.+.+....+.... ....+........+.|+++.|.+.+.++.+....+...........+...|+++.|...
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 EGDYQQVEKLMTRNADHAEQ-PVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHG  175 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccc-hHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHH
Confidence            57777777666655443211 12223333344467788888888888777653322222222335667778888888888


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-------HHHHHHHHHHhcCCHHHHHHHHHH
Q 004744          508 FDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYI-------SYGILINGYCSMGHVTEAFRLWYE  580 (732)
Q Consensus       508 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-------~~~~li~~~~~~g~~~~A~~~~~~  580 (732)
                      ++.+.+.... +......+...|.+.|++++|.+++..+.+.+..++..       .|..++.......+.+...++|+.
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            8887776533 56677777788888888888888888887765442221       223333333344556666777776


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-C
Q 004744          581 MVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVP-D  659 (732)
Q Consensus       581 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~  659 (732)
                      ..+. .+.++.....+...+...|+.++|.+.+++..+.  .||....  ++.+....++.+++++..++..+.  .| |
T Consensus       255 lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~--~P~~  327 (398)
T PRK10747        255 QSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQ--HGDT  327 (398)
T ss_pred             CCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhh--CCCC
Confidence            6544 3567888888999999999999999999998874  4454322  233444669999999999998884  45 5


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          660 VITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       660 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      +..+..++..|.+.|++++|...|+++.+  ..|+...+..+..++.+.|+.++|.+++++.+.
T Consensus       328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~--~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        328 PLLWSTLGQLLMKHGEWQEASLAFRAALK--QRPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            55678889999999999999999999998  889999989999999999999999999998864

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.66  E-value=3.5e-12  Score=124.25  Aligned_cols=220  Identities=11%  Similarity=0.082  Sum_probs=123.3

Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004744          428 NGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNL  507 (732)
Q Consensus       428 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  507 (732)
                      .|+...|..-|+..+.....++ ..|-.+...|....+.++-...|++..+.++. |+.+|..-...+.-.+++++|..-
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aD  416 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIAD  416 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHH
Confidence            4566666666666666544322 22555555666666666666666666665544 445555555555556666666666


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 004744          508 FDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIK  587 (732)
Q Consensus       508 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  587 (732)
                      |++.+..... +...|-.+.-+..+.+++++++..|++..++ ++..+..|+.....+..+++++.|.+.|+..++....
T Consensus       417 F~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~  494 (606)
T KOG0547|consen  417 FQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPR  494 (606)
T ss_pred             HHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccc
Confidence            6666654322 4444444444555666666666666666654 4445666666666666666666666666666654211


Q ss_pred             -----CCHHHH--HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          588 -----PTLVSC--NTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       588 -----~~~~~~--~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                           .+...+  ..++ .+.-.+++..|.+++++.++...+ ....|.+|...-.+.|+.++|+++|++...
T Consensus       495 ~~~~~v~~~plV~Ka~l-~~qwk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  495 EHLIIVNAAPLVHKALL-VLQWKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             cccccccchhhhhhhHh-hhchhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence                 011111  1111 111235666666666666653211 234566666666666666666666666554

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.66  E-value=8.3e-12  Score=124.12  Aligned_cols=474  Identities=12%  Similarity=0.043  Sum_probs=217.8

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004744          204 SINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLIN  283 (732)
Q Consensus       204 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~  283 (732)
                      +..-+..+++-+..+.++.-|.-+-+++...+  .|+..---++.+++-.|+++.|..++..-.-.  ..|..+......
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 SLEKYRRLVRDALMQHRYKTALFWADKVAGLT--NDPADIYWLAQVLYLGRQYERAAHLITTYKLE--KRDIACRYLAAK   90 (611)
T ss_pred             cHHHHHHHHHHHHHHHhhhHHHHHHHHHHhcc--CChHHHHHHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHHHHHH
Confidence            44555666666666677777777777766554  33333334567777777777777666553222  226666666777


Q ss_pred             HHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhH
Q 004744          284 AYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSE  363 (732)
Q Consensus       284 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  363 (732)
                      .+.+..++++|..++.....   .-++..|-.--.  ...-..+.+.    ++..  +......+-.-...|....+.++
T Consensus        91 ~l~~lk~~~~al~vl~~~~~---~~~~f~yy~~~~--~~~l~~n~~~----~~~~--~~~essic~lRgk~y~al~n~~~  159 (611)
T KOG1173|consen   91 CLVKLKEWDQALLVLGRGHV---ETNPFSYYEKDA--ANTLELNSAG----EDLM--INLESSICYLRGKVYVALDNREE  159 (611)
T ss_pred             HHHHHHHHHHHHHHhcccch---hhcchhhcchhh--hceeccCccc----cccc--ccchhceeeeeeehhhhhccHHH
Confidence            77778888888877763311   111111100000  0000000111    0000  00001111111223344455566


Q ss_pred             HHHHHHHHHhCCCCCCHhHHHHHHHHHHhC------------------CCHHHHHHHHHHH----------------HHC
Q 004744          364 AEEIFCEMSRRGVAPDIVSFSTLIGIFSRN------------------GQLDRALMYFREM----------------KSA  409 (732)
Q Consensus       364 A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~------------------g~~~~A~~l~~~~----------------~~~  409 (732)
                      |...|.+.....+. +...+..++....-.                  .+.+.-..+|+-.                .-.
T Consensus       160 ar~~Y~~Al~~D~~-c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~  238 (611)
T KOG1173|consen  160 ARDKYKEALLADAK-CFEAFEKLVSAHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLI  238 (611)
T ss_pred             HHHHHHHHHhcchh-hHHHHHHHHHHHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhh
Confidence            66666555543211 111111111111100                  0001111111100                000


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 004744          410 GLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFT  489 (732)
Q Consensus       410 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  489 (732)
                      +..-+........+-+...+++.+..++.+.+.+..+. ....+..-|.++...|+..+-..+=.++.+.-+. .+.+|-
T Consensus       239 ~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpf-h~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~-~a~sW~  316 (611)
T KOG1173|consen  239 GLAENLDLLAEKADRLYYGCRFKECLKITEELLEKDPF-HLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPS-KALSWF  316 (611)
T ss_pred             hhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCC-CcchHHHHHHHHHHhcccchHHHHHHHHHHhCCC-CCcchh
Confidence            11222333333344444555555565555555554322 3333333444555555555555555555554322 445555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 004744          490 TLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMG  569 (732)
Q Consensus       490 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  569 (732)
                      ++.--|...|+..+|.+.|.+....+.. =...|-.+...|.-.|+.|+|+..+....+.- +-...-+--+.--|.+.+
T Consensus       317 aVg~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~  394 (611)
T KOG1173|consen  317 AVGCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTN  394 (611)
T ss_pred             hHHHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhc
Confidence            5555555556666666665555443211 12345555555555555566555555544431 101111112223345555


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCCC----CHHHHHHHHHHHHhcCCHHH
Q 004744          570 HVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSE--GVDP----DSISYNTLINGFVREENMDK  643 (732)
Q Consensus       570 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~----~~~~~~~li~~~~~~g~~~~  643 (732)
                      +.+-|.+.|.+..... |.|+..++-+.-.....+.+.+|..+|+..+..  .+.+    -..+++.|++.|.+.+++++
T Consensus       395 n~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~e  473 (611)
T KOG1173|consen  395 NLKLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEE  473 (611)
T ss_pred             cHHHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHH
Confidence            5555666555555442 445555555555555555555666555555421  0001    12234555555555566666


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 004744          644 AFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTL  701 (732)
Q Consensus       644 A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l  701 (732)
                      |+..+++.+.. .+.+..++.+++-.|...|+++.|...|.+.+-  +.||..+-..+
T Consensus       474 AI~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~l  528 (611)
T KOG1173|consen  474 AIDYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISEL  528 (611)
T ss_pred             HHHHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHH
Confidence            66666555552 122445555555555555666666666655555  55554333333

>TIGR00540 hemY_coli hemY protein

Probab=99.65  E-value=8.9e-13  Score=137.64  Aligned_cols=290  Identities=10%  Similarity=0.041  Sum_probs=188.6

Q ss_pred             HcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004744          427 RNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALN  506 (732)
Q Consensus       427 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  506 (732)
                      ..|+++.|.+.+.+..+.... +...+-.......+.|+++.|.+.+.+..+....+...........+...|+++.|..
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~-~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~  174 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAE-PVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARH  174 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHH
Confidence            457777777777666554322 2333334455666677777777777776654332222233334666667777777777


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH-H---HHHHHHhcCCHHHHHHHHHHHH
Q 004744          507 LFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYG-I---LINGYCSMGHVTEAFRLWYEMV  582 (732)
Q Consensus       507 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~---li~~~~~~g~~~~A~~~~~~~~  582 (732)
                      .++.+.+..+. +......+...+...|++++|.+.+..+.+.+.. +...+. .   ....+...+..+++.+.+..+.
T Consensus       175 ~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~  252 (409)
T TIGR00540       175 GVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNWW  252 (409)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            77777766432 5566667777777777777777777777776543 222221 1   1111122233333334444444


Q ss_pred             hCC---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH---HHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004744          583 GKG---IKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSIS---YNTLINGFVREENMDKAFALVSKMENQGL  656 (732)
Q Consensus       583 ~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~~~~~g~  656 (732)
                      +..   .+.+...+..++..+...|+.++|.+.+++..+..  ||...   ...........++.+.+.+.+++..+.  
T Consensus       253 ~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--  328 (409)
T TIGR00540       253 KNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--  328 (409)
T ss_pred             HHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--
Confidence            431   12477888888888999999999999999888753  33321   112222234457788899999888873  


Q ss_pred             CCC-H--HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          657 VPD-V--ITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       657 ~p~-~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      .|+ +  ....++++.|.+.|++++|.++|++.......|+...+..++..+.+.|+.++|.+++++.+.
T Consensus       329 ~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       329 VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            454 4  556788999999999999999999533322788988888999999999999999999998754

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.

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.64  E-value=3.2e-09  Score=107.31  Aligned_cols=526  Identities=11%  Similarity=0.068  Sum_probs=343.2

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCC-CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKG-ICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVN  248 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  248 (732)
                      +.+|-.-+....++|++-.-..+|+.++..- +.-....|...+.-.-..|-.+-+..+|++.++.    ++..-+-.+.
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie  177 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIE  177 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHH
Confidence            6788888999999999999999999987652 2234567888999888999999999999999874    3334666788


Q ss_pred             HHHhcCChhHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHHcCCH---HHHHHHHHHHhhCCCCCCHhhHHHHHHH
Q 004744          249 ALCKDHKIDSAKMFLCEMEQKG------VYPDTVTYNTLINAYCREGFL---EEAFQLMNSMSGKGLKPGVFTYNSLING  319 (732)
Q Consensus       249 ~~~~~g~~~~A~~~~~~~~~~g------~~p~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~g~~p~~~~~~~li~~  319 (732)
                      .+++.++.++|.+.+.......      .+.+-..|..+-+...+.-+.   -...++++.+..+-...=...|++|.+.
T Consensus       178 ~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdY  257 (835)
T KOG2047|consen  178 YLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADY  257 (835)
T ss_pred             HHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHH
Confidence            8999999999999998876541      122444566655555543322   2333445555443111124568999999


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCC-CCCHhHHHHHHHHHHhCCCHHH
Q 004744          320 LCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGV-APDIVSFSTLIGIFSRNGQLDR  398 (732)
Q Consensus       320 ~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~-~~~~~~~~~l~~~~~~~g~~~~  398 (732)
                      |.+.|.+++|..++++.++.  ...+.-++.+.+.|..-....-+..+= ...+.+. .-+...             ++-
T Consensus       258 YIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me-~a~~~~~n~ed~~d-------------l~~  321 (835)
T KOG2047|consen  258 YIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKME-LADEESGNEEDDVD-------------LEL  321 (835)
T ss_pred             HHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHh-hhhhcccChhhhhh-------------HHH
Confidence            99999999999999998764  345555666666665533222222111 0111111 111111             222


Q ss_pred             HHHHHHHHHHCC-----------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-C----CcCHHHHHHHHHHHHh
Q 004744          399 ALMYFREMKSAG-----------LVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKG-C----VMDVVTYNTILNGLCR  462 (732)
Q Consensus       399 A~~l~~~~~~~~-----------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~----~~~~~~~~~li~~~~~  462 (732)
                      ...-|+.+....           -+-++..|..-+.  +..|+..+-...+.+..+.- +    -.-...|..+...|-.
T Consensus       322 ~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~  399 (835)
T KOG2047|consen  322 HMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYEN  399 (835)
T ss_pred             HHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHh
Confidence            233333333221           1223344444333  34567777777888777641 1    1124568888999999


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----------C------CCHHH
Q 004744          463 AKMLTEADDLFNEMLERGVFPD---FYTFTTLIHGHCKDGNMNKALNLFDIMTQKSI-----------K------PDIVT  522 (732)
Q Consensus       463 ~~~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-----------~------~~~~~  522 (732)
                      .|+++.|..+|++..+-..+--   ..+|..-...=.+..+++.|+.+.+....---           +      .+...
T Consensus       400 ~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlki  479 (835)
T KOG2047|consen  400 NGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKI  479 (835)
T ss_pred             cCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHH
Confidence            9999999999999887643311   34566666666778899999999887754211           1      12345


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHH
Q 004744          523 YNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTL-VSCNTIIKGYC  601 (732)
Q Consensus       523 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~  601 (732)
                      |+..++.--..|-++....+|+++++..+. ++...-.....+-.+.-++++.++|++-+..--.|+. ..|+..+.-+.
T Consensus       480 Ws~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi  558 (835)
T KOG2047|consen  480 WSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFI  558 (835)
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHH
Confidence            566677777788999999999999987654 3333333334455667789999999887765334443 46777666554


Q ss_pred             H---cCCHHHHHHHHHHHHHCCCCCCHHHHHHH--HHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcC
Q 004744          602 R---SGDASKADEFLSKMVSEGVDPDSISYNTL--INGFVREENMDKAFALVSKMENQGLVPDV--ITYNVILTGFCRQG  674 (732)
Q Consensus       602 ~---~g~~~~A~~~~~~~~~~~~~~~~~~~~~l--i~~~~~~g~~~~A~~~~~~~~~~g~~p~~--~~~~~l~~~~~~~g  674 (732)
                      +   ....+.|+.+|++.++ |.+|...-+-.|  ...--+.|....|+.+++++... +++..  ..|+..|.--...=
T Consensus       559 ~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~-v~~a~~l~myni~I~kaae~y  636 (835)
T KOG2047|consen  559 KRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSA-VKEAQRLDMYNIYIKKAAEIY  636 (835)
T ss_pred             HHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHh
Confidence            3   2358999999999998 666654333222  23334678899999999998764 45533  47777775443332


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHH---HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          675 RMHDSELILWRMIEKGLNPDRS---TYTTLINGHVSQNNLKEAFRFHDEML  722 (732)
Q Consensus       675 ~~~~A~~~~~~~~~~g~~p~~~---~~~~l~~~~~~~g~~~~A~~~~~~m~  722 (732)
                      -+..-..+|+++++  .-||..   ......+.=++.|..+.|..++.---
T Consensus       637 Gv~~TR~iYekaIe--~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~s  685 (835)
T KOG2047|consen  637 GVPRTREIYEKAIE--SLPDSKAREMCLRFADLETKLGEIDRARAIYAHGS  685 (835)
T ss_pred             CCcccHHHHHHHHH--hCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhh
Confidence            34556789999998  677643   34445566678899999998887654

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.64  E-value=2.4e-11  Score=113.52  Aligned_cols=491  Identities=12%  Similarity=0.084  Sum_probs=316.7

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHH
Q 004744          180 YVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSA  259 (732)
Q Consensus       180 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  259 (732)
                      +....++..|+.+++.-...+-+-...+---+...+...|++++|..+|..+.... .++...+..|.-++.-.|.+.+|
T Consensus        32 fls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~eA  110 (557)
T KOG3785|consen   32 FLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIEA  110 (557)
T ss_pred             HHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHHH
Confidence            44566778888877766544322111223334566778899999999999887754 56666666677666677999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 004744          260 KMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQM  339 (732)
Q Consensus       260 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  339 (732)
                      ..+-+...+     +...-..|.+.-.+.|+-++-..+.+.+..     ....-.+|.......-.+.+|++++.+++..
T Consensus       111 ~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD-----~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d  180 (557)
T KOG3785|consen  111 KSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQD-----TLEDQLSLASVHYMRMHYQEAIDVYKRVLQD  180 (557)
T ss_pred             HHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhh-----hHHHHHhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            887766543     333344556666778887777776666554     3344556666666666789999999999875


Q ss_pred             CCCCCHHhHHH-HHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHH
Q 004744          340 GLSPDTATYNT-LLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLY  418 (732)
Q Consensus       340 g~~~~~~~~~~-li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~  418 (732)
                        .|+-...|. +.-+|.+..-++-+.++++--.+. ++.+....|..+....+.=+-..|.+-.+++.+.+...    |
T Consensus       181 --n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~----~  253 (557)
T KOG3785|consen  181 --NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE----Y  253 (557)
T ss_pred             --ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc----c
Confidence              355555554 345677888888888888877665 33345566666655555433344444445554432211    1


Q ss_pred             HHHHHHHHHc-----CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          419 TIIINGYCRN-----GFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIH  493 (732)
Q Consensus       419 ~~li~~~~~~-----g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~  493 (732)
                       ..+.-+++.     ..-+.|++++-.+.+.    -+..--.|+-.|.+.+++.+|..+.+++.-  ..|.......++.
T Consensus       254 -~f~~~l~rHNLVvFrngEgALqVLP~L~~~----IPEARlNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~  326 (557)
T KOG3785|consen  254 -PFIEYLCRHNLVVFRNGEGALQVLPSLMKH----IPEARLNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVF  326 (557)
T ss_pred             -hhHHHHHHcCeEEEeCCccHHHhchHHHhh----ChHhhhhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHH
Confidence             122333443     3457888888777764    223333455568899999999998877632  2333333333333


Q ss_pred             HH-----HhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004744          494 GH-----CKDGNMNKALNLFDIMTQKSIKPDI-VTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCS  567 (732)
Q Consensus       494 ~~-----~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  567 (732)
                      +-     .....+.-|.+.|+..-+.+..-|. .--.++...+.-..++++.+..++.+..--...|...+| +..+++.
T Consensus       327 aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~a  405 (557)
T KOG3785|consen  327 AALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLA  405 (557)
T ss_pred             HHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHH
Confidence            21     1223466677777766555444332 223445556666678899999888887765555555555 6788999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH-HHHHHHhcCCHHHHHH
Q 004744          568 MGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNT-LINGFVREENMDKAFA  646 (732)
Q Consensus       568 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-li~~~~~~g~~~~A~~  646 (732)
                      .|++.+|.++|-.+....++.+..-...+.++|.+.+..+.|++++-++-   .+.+..+.-. +..-|.+++.+--|-+
T Consensus       406 tgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~---t~~e~fsLLqlIAn~CYk~~eFyyaaK  482 (557)
T KOG3785|consen  406 TGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTN---TPSERFSLLQLIANDCYKANEFYYAAK  482 (557)
T ss_pred             hcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcC---CchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999888765545444445566788999999999988875543   3334444443 4577889999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCC
Q 004744          647 LVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-RSTYTTLINGHVSQNN  710 (732)
Q Consensus       647 ~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~  710 (732)
                      .|+.+..  +.|++.-|.         |+-.....+|+.+....-.|- ......++..+...++
T Consensus       483 AFd~lE~--lDP~pEnWe---------GKRGACaG~f~~l~~~~~~~~p~~~~rEVvhllr~~~n  536 (557)
T KOG3785|consen  483 AFDELEI--LDPTPENWE---------GKRGACAGLFRQLANHKTDPIPISQMREVVHLLRMKPN  536 (557)
T ss_pred             hhhHHHc--cCCCccccC---------CccchHHHHHHHHHcCCCCCCchhHHHHHHHHHHhCCC
Confidence            9999887  688888774         333444566777666444443 3556666666666554

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.63  E-value=3.3e-11  Score=119.95  Aligned_cols=484  Identities=12%  Similarity=0.033  Sum_probs=327.7

Q ss_pred             CCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 004744          167 GSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIM  246 (732)
Q Consensus       167 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  246 (732)
                      ..+..-+..+++-+..+.++.-|.-+-++....+.  |+..---+..++.-.|.++.|..+...-.-.  ..|..+....
T Consensus        13 ~~s~~~~~~~~r~~l~q~~y~~a~f~adkV~~l~~--dp~d~~~~aq~l~~~~~y~ra~~lit~~~le--~~d~~cryL~   88 (611)
T KOG1173|consen   13 ELSLEKYRRLVRDALMQHRYKTALFWADKVAGLTN--DPADIYWLAQVLYLGRQYERAAHLITTYKLE--KRDIACRYLA   88 (611)
T ss_pred             cccHHHHHHHHHHHHHHHhhhHHHHHHHHHHhccC--ChHHHHHHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHHHH
Confidence            34566677888888888999999999998877764  4555556788888889999988887765322  4677777888


Q ss_pred             HHHHHhcCChhHHHHHHHHH----HhCC---------CCCCHHH----HHHHH-------HHHHHcCCHHHHHHHHHHHh
Q 004744          247 VNALCKDHKIDSAKMFLCEM----EQKG---------VYPDTVT----YNTLI-------NAYCREGFLEEAFQLMNSMS  302 (732)
Q Consensus       247 ~~~~~~~g~~~~A~~~~~~~----~~~g---------~~p~~~~----~~~li-------~~~~~~g~~~~A~~~~~~m~  302 (732)
                      ..++.+..++++|..++...    ....         +.+|..-    -+.-.       ..|....+.++|...|.+..
T Consensus        89 ~~~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al  168 (611)
T KOG1173|consen   89 AKCLVKLKEWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEAL  168 (611)
T ss_pred             HHHHHHHHHHHHHHHHhcccchhhcchhhcchhhhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHH
Confidence            89999999999999998832    1110         0111100    00111       12223334555555555555


Q ss_pred             hCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC----CCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCC
Q 004744          303 GKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGL----SPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAP  378 (732)
Q Consensus       303 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~  378 (732)
                      ..    |...|..+...-.  ...-.+.+.++.+.....    .-+......+.....-...-+++...-.+..-.+..-
T Consensus       169 ~~----D~~c~Ea~~~lvs--~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~  242 (611)
T KOG1173|consen  169 LA----DAKCFEAFEKLVS--AHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAE  242 (611)
T ss_pred             hc----chhhHHHHHHHHH--HHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhh
Confidence            44    3333222221110  011122222222221110    0111111111111100000011111111111122334


Q ss_pred             CHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHH
Q 004744          379 DIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILN  458 (732)
Q Consensus       379 ~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  458 (732)
                      +.........-+...+++.+..++++.+.+.. ++....+..-|..+...|+..+-..+-.++++.-+. .+.+|-++.-
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~-~a~sW~aVg~  320 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPS-KALSWFAVGC  320 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCC-CCcchhhHHH
Confidence            55666677778889999999999999998763 456666777777899999988888888888886544 7889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCH
Q 004744          459 GLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQK--SIKPDIVTYNTLIDGFCKVGEM  536 (732)
Q Consensus       459 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~li~~~~~~g~~  536 (732)
                      .|.-.|+.++|.+.|.+....+.. =...|....+.|+-.|..|+|+..+..+.+.  |.. -+..|  +.--|.+.++.
T Consensus       321 YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~h-lP~LY--lgmey~~t~n~  396 (611)
T KOG1173|consen  321 YYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCH-LPSLY--LGMEYMRTNNL  396 (611)
T ss_pred             HHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCc-chHHH--HHHHHHHhccH
Confidence            899999999999999998766433 3458999999999999999999999887764  211 12233  34457889999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CC---CC-CHHHHHHHHHHHHHcCCHHHHH
Q 004744          537 EKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGK--GI---KP-TLVSCNTIIKGYCRSGDASKAD  610 (732)
Q Consensus       537 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~---~~-~~~~~~~l~~~~~~~g~~~~A~  610 (732)
                      +-|.++|.+.... .+.|+...+.+.-.....+.+.+|...|+..+..  .+   .+ ...+++.+..+|.+.+.+++|+
T Consensus       397 kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI  475 (611)
T KOG1173|consen  397 KLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAI  475 (611)
T ss_pred             HHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHH
Confidence            9999999999886 3558888998888888889999999999988732  11   11 2456889999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004744          611 EFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGF  670 (732)
Q Consensus       611 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  670 (732)
                      ..+++.+... +.+..++.+++-.|...|+++.|.+.|.+...  +.|+..+...++..+
T Consensus       476 ~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  476 DYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLA  532 (611)
T ss_pred             HHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHH
Confidence            9999999864 45788999999999999999999999999998  789887776666533

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.62  E-value=2.9e-12  Score=132.99  Aligned_cols=291  Identities=10%  Similarity=0.062  Sum_probs=156.2

Q ss_pred             CCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHH--HHHHHHHHHcCCHHHHH
Q 004744          358 KENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLY--TIIINGYCRNGFVLEAL  435 (732)
Q Consensus       358 ~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~--~~li~~~~~~g~~~~A~  435 (732)
                      .|+++.|.+.+....+..-. ....|........+.|+++.|.+.+.++.+.  .|+...+  ......+...|++++|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~-p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQ-PVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccc-hHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            56666666555554433111 1122222233335566666666666666543  2332211  12244555555666666


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 004744          436 KMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKS  515 (732)
Q Consensus       436 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  515 (732)
                      ..++++.+..+. ++.....+...|.+.|++++|.+++..+.+.+..++ .....+-                       
T Consensus       174 ~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~-~~~~~l~-----------------------  228 (398)
T PRK10747        174 HGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDE-EHRAMLE-----------------------  228 (398)
T ss_pred             HHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCH-HHHHHHH-----------------------
Confidence            555555555433 445555555555555555555555555555433211 1111000                       


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 004744          516 IKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNT  595 (732)
Q Consensus       516 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  595 (732)
                          ...|..++.......+.+...++|+.+.+. .+.++.....+...+...|+.++|.+.+++..+.  ++|....  
T Consensus       229 ----~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--  299 (398)
T PRK10747        229 ----QQAWIGLMDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--  299 (398)
T ss_pred             ----HHHHHHHHHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--
Confidence                001112222222233344445555544332 2335666666777777777777777777777664  4444222  


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004744          596 IIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGR  675 (732)
Q Consensus       596 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~  675 (732)
                      ++.+....++.+++.+..++..+.. +-|...+.++...+.+.|++++|.+.|+.+.+  ..|+...+..+..++.+.|+
T Consensus       300 ~l~~~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~--~~P~~~~~~~La~~~~~~g~  376 (398)
T PRK10747        300 LLIPRLKTNNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALK--QRPDAYDYAWLADALDRLHK  376 (398)
T ss_pred             HHHhhccCCChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHcCC
Confidence            2223334577777777777776643 23455566777777777777777777777776  56777777777777777777


Q ss_pred             HHHHHHHHHHHHH
Q 004744          676 MHDSELILWRMIE  688 (732)
Q Consensus       676 ~~~A~~~~~~~~~  688 (732)
                      .++|..++++...
T Consensus       377 ~~~A~~~~~~~l~  389 (398)
T PRK10747        377 PEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHh
Confidence            7777777776654

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.60  E-value=4.3e-15  Score=147.36  Aligned_cols=260  Identities=17%  Similarity=0.155  Sum_probs=95.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004744          455 TILNGLCRAKMLTEADDLFNEMLERG-VFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKV  533 (732)
Q Consensus       455 ~li~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  533 (732)
                      .+...+.+.|++++|.++++...... ...|...|..+.......++.+.|...++++...+.. ++..+..++.. ...
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            33555666777777777775443332 2224444555555566677777777777777665433 44455555555 567


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 004744          534 GEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKG-IKPTLVSCNTIIKGYCRSGDASKADEF  612 (732)
Q Consensus       534 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~  612 (732)
                      +++++|.+++.+..+..  ++...+..++..+.+.++++++.++++.+.... .+.+...|..+...+.+.|+.++|++.
T Consensus        91 ~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             ccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            77777777776665442  355556667777777777777777777765432 345666777777777788888888888


Q ss_pred             HHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 004744          613 LSKMVSEGVDP-DSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGL  691 (732)
Q Consensus       613 ~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~  691 (732)
                      +++.++..  | |....+.++..+...|+.+++.++++...+.. +.|+..|..++.+|...|+.++|..+|++..+  .
T Consensus       169 ~~~al~~~--P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~--~  243 (280)
T PF13429_consen  169 YRKALELD--PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALK--L  243 (280)
T ss_dssp             HHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHH--H
T ss_pred             HHHHHHcC--CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccc--c
Confidence            88877743  4 46667777777888888888777777776642 34555677778888888888888888888777  5


Q ss_pred             CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          692 NP-DRSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       692 ~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      .| |......+++++...|+.++|.++..++.+
T Consensus       244 ~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  244 NPDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             STT-HHHHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccccccccc
Confidence            55 567777788888888888888887776653

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.60  E-value=1.2e-11  Score=128.74  Aligned_cols=498  Identities=14%  Similarity=0.113  Sum_probs=252.9

Q ss_pred             HHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 004744          191 EVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKG  270 (732)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g  270 (732)
                      .++-.+...|+.|+.++|.+++.-|+..|+.+.|- +|..|.-...+.+...|+.++.+....++.+.+.          
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            34555667777888888888888888888887777 7777766666777777888887777777776665          


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHH-Hh-------hCCCCCC--------------HhhHHHHHHHHHhcCChhH
Q 004744          271 VYPDTVTYNTLINAYCREGFLEEAFQLMNS-MS-------GKGLKPG--------------VFTYNSLINGLCKKGRCDR  328 (732)
Q Consensus       271 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~-m~-------~~g~~p~--------------~~~~~~li~~~~~~g~~~~  328 (732)
                       .|-..+|..|..+|.+.||+.- ++..++ |.       ..|+-.-              ...-.+++....-.|-++.
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaq  157 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQ  157 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHH
Confidence             4567778888888888887654 222222 11       0111000              0001112222223333333


Q ss_pred             HHHHHHHHHHCCC-CCCHHhHHHHHHHHHc-CCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHH
Q 004744          329 AKEVLDEMLQMGL-SPDTATYNTLLVESCR-KENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREM  406 (732)
Q Consensus       329 A~~~~~~~~~~g~-~~~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~  406 (732)
                      +.+++..+..... .|-.+    +++-... ...+++-..+.....+   .|++.++..++..-...|+++.|..++.+|
T Consensus       158 llkll~~~Pvsa~~~p~~v----fLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~em  230 (1088)
T KOG4318|consen  158 LLKLLAKVPVSAWNAPFQV----FLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEM  230 (1088)
T ss_pred             HHHHHhhCCcccccchHHH----HHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHH
Confidence            3333333221100 00000    1111111 1112222222222221   245556666666666666666666666666


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH
Q 004744          407 KSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFY  486 (732)
Q Consensus       407 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  486 (732)
                      ++.|++.+..-|-.|+-+   .++...+..++.-|.+.|+.|+..|+...+..+..+|....+.+        |.. ...
T Consensus       231 ke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e--------~sq-~~h  298 (1088)
T KOG4318|consen  231 KEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEE--------GSQ-LAH  298 (1088)
T ss_pred             HHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhccc--------ccc-hhh
Confidence            666655555544444433   55555555555666666666666665555544444333211111        111 111


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHH------------HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC---C
Q 004744          487 TFTTLIHGHCKDGNMNKALNLFD------------IMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRK---I  551 (732)
Q Consensus       487 ~~~~li~~~~~~g~~~~A~~~~~------------~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~  551 (732)
                      .+++-+..-.-.|  ..|.+.++            ...-.|+......|...+.. ...|+-++..++-..+..-.   .
T Consensus       299 g~tAavrsaa~rg--~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~l-~hQgk~e~veqlvg~l~npt~r~s  375 (1088)
T KOG4318|consen  299 GFTAAVRSAACRG--LLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEKL-RHQGKGEEVEQLVGQLLNPTLRDS  375 (1088)
T ss_pred             hhhHHHHHHHhcc--cHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHHH-HHcCCCchHHHHHhhhcCCccccC
Confidence            1122111111222  11111111            11112333233334333332 22566666666666554321   1


Q ss_pred             CCCHHHHHHHHHHHHhcCCH------H---HHHHH---------HHHHHhCCCCCCH-----------------------
Q 004744          552 SPNYISYGILINGYCSMGHV------T---EAFRL---------WYEMVGKGIKPTL-----------------------  590 (732)
Q Consensus       552 ~~~~~~~~~li~~~~~~g~~------~---~A~~~---------~~~~~~~~~~~~~-----------------------  590 (732)
                      ..++..|..++.-|.+.-+.      .   .++..         ..+.... ..||.                       
T Consensus       376 ~~~V~a~~~~lrqyFrr~e~~~~~~i~~~~qgls~~l~se~tp~vsell~~-lrkns~lr~lv~Lss~Eler~he~~~~~  454 (1088)
T KOG4318|consen  376 GQNVDAFGALLRQYFRRIERHICSRIYYAGQGLSLNLNSEDTPRVSELLEN-LRKNSFLRQLVGLSSTELERSHEPWPLI  454 (1088)
T ss_pred             cchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhhchhhhHHHHHHHHH-hCcchHHHHHhhhhHHHHhcccccchhh
Confidence            12344555555544432110      0   00000         0000000 11211                       


Q ss_pred             -----HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCCCHHHH
Q 004744          591 -----VSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQG--LVPDVITY  663 (732)
Q Consensus       591 -----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g--~~p~~~~~  663 (732)
                           ..-+.++..++..-+..+++..-++....- -+  ..|..||+.++...+.+.|..+.++.....  +..|..-+
T Consensus       455 ~h~irdi~~ql~l~l~se~n~lK~l~~~ekye~~l-f~--g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m  531 (1088)
T KOG4318|consen  455 AHLIRDIANQLHLTLNSEYNKLKILCDEEKYEDLL-FA--GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLM  531 (1088)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hh--hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhH
Confidence                 112333444554445555554433333211 11  457888999999999999999988876521  23355667


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 004744          664 NVILTGFCRQGRMHDSELILWRMIEKG-LNPD-RSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFV  727 (732)
Q Consensus       664 ~~l~~~~~~~g~~~~A~~~~~~~~~~g-~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  727 (732)
                      ..+.+.+.+.+...++..+++++.+.- ..|+ ..+...+.+..+..|+.+.-.++.+-+...|+.
T Consensus       532 ~~l~dLL~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~  597 (1088)
T KOG4318|consen  532 TSLQDLLQRLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLS  597 (1088)
T ss_pred             HHHHHHHHHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhh
Confidence            788888899999999999999988621 2332 456667777788889888888888777666654

>TIGR00540 hemY_coli hemY protein

Probab=99.60  E-value=5.6e-12  Score=131.67  Aligned_cols=294  Identities=11%  Similarity=0.055  Sum_probs=134.8

Q ss_pred             cCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 004744          357 RKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALK  436 (732)
Q Consensus       357 ~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  436 (732)
                      ..|+++.|.+.+.+..+.... ....+-.......+.|+.+.|.+.+.+..+....+...........+...|+++.|..
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~-~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~  174 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAE-PVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARH  174 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHH
Confidence            345555555555554443211 1222333344455555555555555555443211111222223445555555555555


Q ss_pred             HHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHH-HH---HHHhcCCHHHHHHHHHHHH
Q 004744          437 MRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTL-IH---GHCKDGNMNKALNLFDIMT  512 (732)
Q Consensus       437 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l-i~---~~~~~g~~~~A~~~~~~~~  512 (732)
                      .++.+.+..+. ++..+..+...+.+.|++++|.+.+..+.+.++. +...+..+ ..   +....+..+++.+.+..+.
T Consensus       175 ~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~  252 (409)
T TIGR00540       175 GVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNWW  252 (409)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            55555555433 4445555555555555555555555555555432 11111100 00   0011111111111222222


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 004744          513 QKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVS  592 (732)
Q Consensus       513 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  592 (732)
                      +.                               ..+. .+.+...+..++..+...|+.++|.+.+++..++.  ||...
T Consensus       253 ~~-------------------------------~p~~-~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~  298 (409)
T TIGR00540       253 KN-------------------------------QPRH-RRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRA  298 (409)
T ss_pred             HH-------------------------------CCHH-HhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCccc
Confidence            11                               1000 01144444455555555555555555555555442  22110


Q ss_pred             ---HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004744          593 ---CNTIIKGYCRSGDASKADEFLSKMVSEGVDPDS--ISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVIL  667 (732)
Q Consensus       593 ---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~  667 (732)
                         ...........++.+.+.+.+++..+.. +-|.  ....++...+.+.|++++|.+.|+........|+...+..++
T Consensus       299 ~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~-p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La  377 (409)
T TIGR00540       299 ISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV-DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAA  377 (409)
T ss_pred             chhHHHHHhhhcCCCChHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHH
Confidence               0111111223355566666666665532 1123  344566666667777777777777322222456666666666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 004744          668 TGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       668 ~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      ..+.+.|+.++|.+++++...
T Consensus       378 ~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       378 DAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            667777777777777766543

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.

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.59  E-value=5.9e-10  Score=112.93  Aligned_cols=466  Identities=17%  Similarity=0.133  Sum_probs=284.8

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 004744          171 LIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNAL  250 (732)
Q Consensus       171 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  250 (732)
                      ..|..++++| ..+.+...+...+.+++.-+. ...+.....-.+...|+.++|.+..+..++.+ ..+.+.|..+.-.+
T Consensus         9 ~lF~~~lk~y-E~kQYkkgLK~~~~iL~k~~e-HgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~   85 (700)
T KOG1156|consen    9 ALFRRALKCY-ETKQYKKGLKLIKQILKKFPE-HGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQ   85 (700)
T ss_pred             HHHHHHHHHH-HHHHHHhHHHHHHHHHHhCCc-cchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHH
Confidence            3444445544 556777777777777764333 44555555556677788888888777776644 55666777777777


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHH
Q 004744          251 CKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAK  330 (732)
Q Consensus       251 ~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  330 (732)
                      ....++++|.+.|..+.+.+.. |...|.-+.-.-.+.|+++.....-....+... .....|..++.++.-.|+...|.
T Consensus        86 R~dK~Y~eaiKcy~nAl~~~~d-N~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~-~~ra~w~~~Avs~~L~g~y~~A~  163 (700)
T KOG1156|consen   86 RSDKKYDEAIKCYRNALKIEKD-NLQILRDLSLLQIQMRDYEGYLETRNQLLQLRP-SQRASWIGFAVAQHLLGEYKMAL  163 (700)
T ss_pred             hhhhhHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhh-hhHHHHHHHHHHHHHHHHHHHHH
Confidence            7778888888888888877543 566666666666777787777777766666422 24566777777788888888888


Q ss_pred             HHHHHHHHCC-CCCCHHhHHHHH------HHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHH
Q 004744          331 EVLDEMLQMG-LSPDTATYNTLL------VESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYF  403 (732)
Q Consensus       331 ~~~~~~~~~g-~~~~~~~~~~li------~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~  403 (732)
                      .++++..+.- -.|+...|.-..      ....+.|..++|.+.+...... +......-..-...+.+.+++++|..++
T Consensus       164 ~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y  242 (700)
T KOG1156|consen  164 EILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQLEEAVKVY  242 (700)
T ss_pred             HHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhHHHHH
Confidence            8888777543 234544443222      3345677778887776655432 1112233345566778888999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHH-HHHHcCCHHHHH-HHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 004744          404 REMKSAGLVPDNVLYTIIIN-GYCRNGFVLEAL-KMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGV  481 (732)
Q Consensus       404 ~~~~~~~~~~~~~~~~~li~-~~~~~g~~~~A~-~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~  481 (732)
                      ..++..  .||..-|...+. ++.+..+.-+++ .+|....+.-+. ....-..=++......-.+...+++..+.+.|+
T Consensus       243 ~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r-~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~  319 (700)
T KOG1156|consen  243 RRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPR-HECPRRLPLSVLNGEELKEIVDKYLRPLLSKGV  319 (700)
T ss_pred             HHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcc-cccchhccHHHhCcchhHHHHHHHHHHHhhcCC
Confidence            888876  466665554443 443344444444 455554443111 110000111111112334455566777777776


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH----HCC----------CCCCHHH--HHHHHHHHHhcCCHHHHHHHHHH
Q 004744          482 FPDFYTFTTLIHGHCKDGNMNKALNLFDIMT----QKS----------IKPDIVT--YNTLIDGFCKVGEMEKANKLWAD  545 (732)
Q Consensus       482 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~----------~~~~~~~--~~~li~~~~~~g~~~~A~~~~~~  545 (732)
                      ++   ++..+.+.|-.....+-..++.-.+.    ..|          -+|....  +-.++..|-+.|+++.|...++.
T Consensus       320 p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~  396 (700)
T KOG1156|consen  320 PS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDL  396 (700)
T ss_pred             Cc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            54   34444444432222221111111111    111          1344443  34567788899999999999999


Q ss_pred             HHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 004744          546 MISRKISPNY-ISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPD  624 (732)
Q Consensus       546 ~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  624 (732)
                      .+.+  .|+. ..|..=...+...|++++|..++++..+.+ .+|...-.--+.-..++.+.++|.++.....+.|.  +
T Consensus       397 AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~--~  471 (700)
T KOG1156|consen  397 AIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF--G  471 (700)
T ss_pred             Hhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc--c
Confidence            8876  4443 345556678889999999999999998875 55655544566667788999999999998887764  2


Q ss_pred             HHH--------HHHH--HHHHHhcCCHHHHHHHHHHHHH
Q 004744          625 SIS--------YNTL--INGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       625 ~~~--------~~~l--i~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      ...        |-.+  +.+|.+.|++.+|++-|..+..
T Consensus       472 ~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k  510 (700)
T KOG1156|consen  472 AVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEK  510 (700)
T ss_pred             hhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHH
Confidence            211        1111  3556777888877766655543

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.59  E-value=2.1e-08  Score=101.92  Aligned_cols=590  Identities=13%  Similarity=0.067  Sum_probs=339.3

Q ss_pred             cChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHH
Q 004744           95 DNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFD  174 (732)
Q Consensus        95 ~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  174 (732)
                      +.+...+++.+.+.+..|.   -..|.....-.+...|+-++|.......++                  ....+.+.|.
T Consensus        21 kQYkkgLK~~~~iL~k~~e---HgeslAmkGL~L~~lg~~~ea~~~vr~glr------------------~d~~S~vCwH   79 (700)
T KOG1156|consen   21 KQYKKGLKLIKQILKKFPE---HGESLAMKGLTLNCLGKKEEAYELVRLGLR------------------NDLKSHVCWH   79 (700)
T ss_pred             HHHHhHHHHHHHHHHhCCc---cchhHHhccchhhcccchHHHHHHHHHHhc------------------cCcccchhHH
Confidence            3455667777776665554   245555555566777888888877766653                  2345567788


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 004744          175 LVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDH  254 (732)
Q Consensus       175 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  254 (732)
                      .++-.+....++++|+..|+.++..+.. |...|.-+.-.-.+.|+++-....-.+..+.. +.....|...+.++.-.|
T Consensus        80 v~gl~~R~dK~Y~eaiKcy~nAl~~~~d-N~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g  157 (700)
T KOG1156|consen   80 VLGLLQRSDKKYDEAIKCYRNALKIEKD-NLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLG  157 (700)
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHH
Confidence            8888888888888888888888887766 77777777666777788887777777776643 445556777788888888


Q ss_pred             ChhHHHHHHHHHHhCCC-CCCHHHHHHHH------HHHHHcCCHHHHHHHHHHHhhCCCCCCHhh-HHHHHHHHHhcCCh
Q 004744          255 KIDSAKMFLCEMEQKGV-YPDTVTYNTLI------NAYCREGFLEEAFQLMNSMSGKGLKPGVFT-YNSLINGLCKKGRC  326 (732)
Q Consensus       255 ~~~~A~~~~~~~~~~g~-~p~~~~~~~li------~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~-~~~li~~~~~~g~~  326 (732)
                      +...|..++++..+... .|+...+.-..      ....+.|..++|++.+..-... +. |... -..-...+.+.+++
T Consensus       158 ~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~-Dkla~~e~ka~l~~kl~~l  235 (700)
T KOG1156|consen  158 EYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IV-DKLAFEETKADLLMKLGQL  235 (700)
T ss_pred             HHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HH-HHHHHhhhHHHHHHHHhhH
Confidence            88888888888776531 34544443322      3455678888888777655432 11 2222 23345567788889


Q ss_pred             hHHHHHHHHHHHCCCCCCHHhHHHHH-HHHHcCCCHhHHH-HHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHH
Q 004744          327 DRAKEVLDEMLQMGLSPDTATYNTLL-VESCRKENMSEAE-EIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFR  404 (732)
Q Consensus       327 ~~A~~~~~~~~~~g~~~~~~~~~~li-~~~~~~g~~~~A~-~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~  404 (732)
                      ++|..++..++..  .||...|.... .++.+-.+.-++. .+|....+. .+.....-..=++......-.+..-.++.
T Consensus       236 EeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~-y~r~e~p~Rlplsvl~~eel~~~vdkyL~  312 (700)
T KOG1156|consen  236 EEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK-YPRHECPRRLPLSVLNGEELKEIVDKYLR  312 (700)
T ss_pred             HhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc-CcccccchhccHHHhCcchhHHHHHHHHH
Confidence            9999998888876  46666555444 4443333333444 555555442 11011111111111111222334445566


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH---HH-CC----------CCcCHHHHH--HHHHHHHhcCCHHH
Q 004744          405 EMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEM---LE-KG----------CVMDVVTYN--TILNGLCRAKMLTE  468 (732)
Q Consensus       405 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~-~~----------~~~~~~~~~--~li~~~~~~~~~~~  468 (732)
                      .+.+.|+++-   +..+...|-.....+-..++.-.+   +. .|          -+|....|.  .++..+-+.|+++.
T Consensus       313 ~~l~Kg~p~v---f~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~  389 (700)
T KOG1156|consen  313 PLLSKGVPSV---FKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEV  389 (700)
T ss_pred             HHhhcCCCch---hhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHH
Confidence            6667776543   333333332211111001111111   11 10          134444443  45667778889999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          469 ADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMIS  548 (732)
Q Consensus       469 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  548 (732)
                      |..+++.....-+. -+.-|..-.+.+...|++++|..++++..+.+. +|...-.--..-..+.++.++|.++.....+
T Consensus       390 A~~yId~AIdHTPT-liEly~~KaRI~kH~G~l~eAa~~l~ea~elD~-aDR~INsKcAKYmLrAn~i~eA~~~~skFTr  467 (700)
T KOG1156|consen  390 ALEYIDLAIDHTPT-LIELYLVKARIFKHAGLLDEAAAWLDEAQELDT-ADRAINSKCAKYMLRANEIEEAEEVLSKFTR  467 (700)
T ss_pred             HHHHHHHHhccCch-HHHHHHHHHHHHHhcCChHHHHHHHHHHHhccc-hhHHHHHHHHHHHHHccccHHHHHHHHHhhh
Confidence            99998888776221 233455556778888999999999988877643 3555544566667778888999888888777


Q ss_pred             CCCCCCHH--------HHH--HHHHHHHhcCCHHHHHHHHHHHHhC-----CCCC----------CHHHHHHHHHHHHHc
Q 004744          549 RKISPNYI--------SYG--ILINGYCSMGHVTEAFRLWYEMVGK-----GIKP----------TLVSCNTIIKGYCRS  603 (732)
Q Consensus       549 ~~~~~~~~--------~~~--~li~~~~~~g~~~~A~~~~~~~~~~-----~~~~----------~~~~~~~l~~~~~~~  603 (732)
                      .|.  +..        +|-  .=..+|.+.|++..|++-|..+.+.     .-+.          ...+|.-|+...-..
T Consensus       468 ~~~--~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k~~~~~~~dqfDfhtyc~rk~tlrsYv~ll~~~d~L  545 (700)
T KOG1156|consen  468 EGF--GAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEKHYKTWSEDQFDFHTYCMRKGTLRSYVELLEWEDNL  545 (700)
T ss_pred             ccc--chhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHHHHHHHhhhhhhHHHHHHhcCcHHHHHHHHHHHHhh
Confidence            653  222        121  1235677778888887766655432     0122          233344444322211


Q ss_pred             CC-------HHHHHHHHHHHHHCC-CC-CCHHHHHHHH----HHHHhc-CCHHHHHHHHHHHHH---------CCC--CC
Q 004744          604 GD-------ASKADEFLSKMVSEG-VD-PDSISYNTLI----NGFVRE-ENMDKAFALVSKMEN---------QGL--VP  658 (732)
Q Consensus       604 g~-------~~~A~~~~~~~~~~~-~~-~~~~~~~~li----~~~~~~-g~~~~A~~~~~~~~~---------~g~--~p  658 (732)
                      .+       ...|+++|-+|.+.. .. +.......+-    ....+. .+-.+|.+--+.+.+         .|.  .|
T Consensus       546 ~~~p~y~~Aa~~Ai~iYl~l~d~p~~~~~~~~~~~~ms~e~kk~~~k~rk~~kk~~~e~~~~~~~~~~~~~s~~~~~~~~  625 (700)
T KOG1156|consen  546 RSSPYYLRAAKGAIEIYLRLHDSPNMYTNKADEIEKMSDEEKKIKKKQRKAKKKAKKEAKKKKDKKKKEAKSQSGKPVDI  625 (700)
T ss_pred             ccChHHHHHHHHHHHHHHHHhcCcccccccchhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccCCCCCC
Confidence            11       345777777776642 00 0111111111    111010 011122222221211         222  24


Q ss_pred             CHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          659 DVITYNVILTGFCRQG-RMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       659 ~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      |..   .++..+.+.. =+++|..++......+ .-+..+|..-...|.+.|++.-|.+.+++...
T Consensus       626 d~~---~~gekL~~t~~Pl~ea~kf~~~l~~~~-~~~~~~~iL~~ely~rk~k~~l~~~~~~~~~~  687 (700)
T KOG1156|consen  626 DED---PFGEKLLKTEDPLEEARKFLPNLQHKG-KEKGETYILSFELYYRKGKFLLALACLNNAEG  687 (700)
T ss_pred             CCc---chhhhHhhcCChHHHHHHHHHHHHHhc-ccchhhhhhhHHHHHHHHHHHHHHHHHHhhhh
Confidence            433   3444455443 3678888888887753 33678888888999999999999999998863

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.58  E-value=2.5e-11  Score=116.08  Aligned_cols=286  Identities=14%  Similarity=0.078  Sum_probs=159.7

Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004744          428 NGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNL  507 (732)
Q Consensus       428 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  507 (732)
                      .|++.+|.++..+-.+.+.. ....|..-+.+--+.|+.+.+-.++.+..+.-..++.....+........|+++.|..-
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            34555555555444443322 23333333444444555555555555554442233344444444555555555555555


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-------HHHHHHHHHHhcCCHHHHHHHHHH
Q 004744          508 FDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYI-------SYGILINGYCSMGHVTEAFRLWYE  580 (732)
Q Consensus       508 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-------~~~~li~~~~~~g~~~~A~~~~~~  580 (732)
                      ..++.+.+.. ++.......+.|.+.|++.....++.++.+.+.-.+..       +|..+++-....+..+.-...|++
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            5555544322 34444555555555555555555555555554433322       344454444444444444555555


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 004744          581 MVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDV  660 (732)
Q Consensus       581 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~  660 (732)
                      ...+ .+.++..-.+++.-+.++|+.++|.++..+..+.+..|...   .+ -.+.+-++.+.=++..++-.+. .+.++
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---RL-IPRLRPGDPEPLIKAAEKWLKQ-HPEDP  328 (400)
T ss_pred             ccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH---HH-HhhcCCCCchHHHHHHHHHHHh-CCCCh
Confidence            5444 34455555666666777777777777777777665544411   11 2344556666666666665553 23344


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          661 ITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       661 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      -.+.+|+..|.+.+.|.+|...|+.+++  ..|+..+|..+.+++.+.|+.++|.+..++.+-
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            5667777777777777777777777776  667777777777777777777777777777654

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.58  E-value=1.1e-14  Score=144.35  Aligned_cols=261  Identities=15%  Similarity=0.155  Sum_probs=103.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCC-CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 004744          420 IIINGYCRNGFVLEALKMRDEMLEKG-CVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKD  498 (732)
Q Consensus       420 ~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  498 (732)
                      .+...+.+.|++++|++++++..... ...+...|..+.......++.+.|.+.++++...+.. +...+..++.. ...
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            44666777778888887775544433 2335556666666667778888888888888776544 45556666666 678


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004744          499 GNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRK-ISPNYISYGILINGYCSMGHVTEAFRL  577 (732)
Q Consensus       499 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~  577 (732)
                      +++++|..++....+..  ++...+...+..+...++++++..+++++.... .+.+...|..+...+.+.|+.++|++.
T Consensus        91 ~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             ccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            88888888887765542  455666777778888888888888888876532 345677788888888888888888888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 004744          578 WYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLV  657 (732)
Q Consensus       578 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~  657 (732)
                      +++.++.. |.|....+.++..+...|+.+++.++++...+.. +.|...+..+..+|...|+.++|+..+++..+.  .
T Consensus       169 ~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~--~  244 (280)
T PF13429_consen  169 YRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKL--N  244 (280)
T ss_dssp             HHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH--S
T ss_pred             HHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccc--c
Confidence            88888873 4467778888888888888888888888776643 345566778888888889999999999888873  4


Q ss_pred             C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          658 P-DVITYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       658 p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      | |+.+...++.++...|+.++|..+.+++.+
T Consensus       245 p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  245 PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             TT-HHHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccccccc
Confidence            4 666778888888888999999888877654

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.57  E-value=1.2e-12  Score=132.92  Aligned_cols=287  Identities=15%  Similarity=0.051  Sum_probs=189.8

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCCHHHHHHH
Q 004744          220 WVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGV--YPDTVTYNTLINAYCREGFLEEAFQL  297 (732)
Q Consensus       220 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~~  297 (732)
                      +.++|...|..... .+..+..+...+..+|...+++++|+++|+.+.+...  .-+...|.+.+--+-+    +-++..
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 NCREALNLFEKLPS-HHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSY  408 (638)
T ss_pred             HHHHHHHHHHhhHH-hcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHH
Confidence            46677777777433 2344556666777888888888888888888776632  1255666665543221    112222


Q ss_pred             H-HHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCC
Q 004744          298 M-NSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGV  376 (732)
Q Consensus       298 ~-~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~  376 (732)
                      + +++.+. -+-.+.+|.++..+|.-+++.+.|++.|++.++.+ +....+|+.+..-+.....+|.|...|+..+....
T Consensus       409 Laq~Li~~-~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~  486 (638)
T KOG1126|consen  409 LAQDLIDT-DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDP  486 (638)
T ss_pred             HHHHHHhh-CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc
Confidence            2 222222 12257788888888888888888888888888753 23667788777777788888888888887776532


Q ss_pred             CCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHH
Q 004744          377 APDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTI  456 (732)
Q Consensus       377 ~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  456 (732)
                      . +-..|.-+...|.+.++++.|+-.|++..+.+.. +.+....+...+-+.|+.++|+.++++....++. |+..--..
T Consensus       487 r-hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~  563 (638)
T KOG1126|consen  487 R-HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHR  563 (638)
T ss_pred             h-hhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHH
Confidence            2 4445556777788888888888888877766433 4555566666777777777787777777766555 44444455


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 004744          457 LNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIK  517 (732)
Q Consensus       457 i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  517 (732)
                      +..+...+++++|...++++.+.-+. +...+..+...|.+.|+.+.|+.-|..+...+.+
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~vP~-es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpk  623 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELVPQ-ESSVFALLGKIYKRLGNTDLALLHFSWALDLDPK  623 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhCcc-hHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCc
Confidence            55666677777777777777765332 5556667777777777777777777776665433

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.57  E-value=1.8e-10  Score=107.80  Aligned_cols=453  Identities=10%  Similarity=0.067  Sum_probs=291.9

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCH
Q 004744          212 LGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFL  291 (732)
Q Consensus       212 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~  291 (732)
                      +.-+....++..|+.+++.....+-+....+-.-+..++.+.|++++|...+..+.... .|+...+-.|...+.-.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHH
Confidence            33455667888888888876544322222233334567788999999999999987754 56777787888888888999


Q ss_pred             HHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHH
Q 004744          292 EEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEM  371 (732)
Q Consensus       292 ~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  371 (732)
                      .+|..+.....+     ++-.-..|.+.-.+.|+-++-..+...+...     ..--.+|.......-.+.+|++++..+
T Consensus       108 ~eA~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrv  177 (557)
T KOG3785|consen  108 IEAKSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRV  177 (557)
T ss_pred             HHHHHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            999988776544     4555566677777888888888877776542     122234555555566789999999999


Q ss_pred             HhCCCCCCHhHHHHHH-HHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCH
Q 004744          372 SRRGVAPDIVSFSTLI-GIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDV  450 (732)
Q Consensus       372 ~~~g~~~~~~~~~~l~-~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~  450 (732)
                      ...+  |+....|.-+ -+|.+..-++-+.+++.-..+. ++.++...+..+....+.=.-..|..-..++.+.+...  
T Consensus       178 L~dn--~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~--  252 (557)
T KOG3785|consen  178 LQDN--PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE--  252 (557)
T ss_pred             HhcC--hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc--
Confidence            8763  4555555444 4567788888888888777664 33334444544443333322233333344444432211  


Q ss_pred             HHHHHHHHHHHhc-----CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 004744          451 VTYNTILNGLCRA-----KMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNT  525 (732)
Q Consensus       451 ~~~~~li~~~~~~-----~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  525 (732)
                         ...+.-+++.     +.-+.|.+++-.+.+.    -+..-..|+--|.+++++++|..+.+++...  .|-......
T Consensus       253 ---~~f~~~l~rHNLVvFrngEgALqVLP~L~~~----IPEARlNL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKg  323 (557)
T KOG3785|consen  253 ---YPFIEYLCRHNLVVFRNGEGALQVLPSLMKH----IPEARLNLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKG  323 (557)
T ss_pred             ---chhHHHHHHcCeEEEeCCccHHHhchHHHhh----ChHhhhhheeeecccccHHHHHHHHhhcCCC--ChHHHHHHH
Confidence               1123334443     3457788887776654    2334556777789999999999998876432  233333222


Q ss_pred             HHHHHHhcC-------CHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 004744          526 LIDGFCKVG-------EMEKANKLWADMISRKISPNYI-SYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTII  597 (732)
Q Consensus       526 li~~~~~~g-------~~~~A~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  597 (732)
                      ++  +...|       .+.-|.+.|+-.-+.+..-|.. --..+.+.+.-..++++.+..++.+..--...|.+.+ .+.
T Consensus       324 vv--~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~A  400 (557)
T KOG3785|consen  324 VV--FAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLA  400 (557)
T ss_pred             HH--HHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHH
Confidence            22  23333       3556777776555444333322 2334555666667899999888888766444455555 478


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHhcCC
Q 004744          598 KGYCRSGDASKADEFLSKMVSEGVDPDSISY-NTLINGFVREENMDKAFALVSKMENQGLVPDVITY-NVILTGFCRQGR  675 (732)
Q Consensus       598 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~-~~l~~~~~~~g~  675 (732)
                      .+++..|++.+|+++|-++....++ |..+| ..|..+|.+.++.+-|..++-++..   +.+..+. ..+...|.+.+.
T Consensus       401 QAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~e  476 (557)
T KOG3785|consen  401 QAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCYKANE  476 (557)
T ss_pred             HHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHHHHHH
Confidence            8999999999999999877654444 44455 5567889999999999777655443   3344444 445567889999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHH
Q 004744          676 MHDSELILWRMIEKGLNPDRSTY  698 (732)
Q Consensus       676 ~~~A~~~~~~~~~~g~~p~~~~~  698 (732)
                      +=-|.+.|..+..  .+|+++.|
T Consensus       477 FyyaaKAFd~lE~--lDP~pEnW  497 (557)
T KOG3785|consen  477 FYYAAKAFDELEI--LDPTPENW  497 (557)
T ss_pred             HHHHHHhhhHHHc--cCCCcccc
Confidence            9999999988877  66765544

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.56  E-value=3.5e-11  Score=111.40  Aligned_cols=309  Identities=14%  Similarity=0.105  Sum_probs=224.2

Q ss_pred             hccCCChHHHHHHHHhhccChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHH
Q 004744           77 YQFRLNSVIIVEVLYRLRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIV  156 (732)
Q Consensus        77 ~~~~l~~~~~~~~l~~~~~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~  156 (732)
                      ...+++...+..+=.-..+.++.|...|-.+....|   .+..+--+|.+.+-+.|..+.|+.+.+.++.+.+.+..   
T Consensus        31 qa~~lsr~Yv~GlNfLLs~Q~dKAvdlF~e~l~~d~---~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~---  104 (389)
T COG2956          31 QANRLSRDYVKGLNFLLSNQPDKAVDLFLEMLQEDP---ETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFE---  104 (389)
T ss_pred             HHhhccHHHHhHHHHHhhcCcchHHHHHHHHHhcCc---hhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchH---
Confidence            345667776666655556788999999987776554   36677789999999999999999999988865433221   


Q ss_pred             HhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC
Q 004744          157 DSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGI  236 (732)
Q Consensus       157 ~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  236 (732)
                                 .-..+.-.|++-|...|.+|.|.++|..+.+.+.. -..+...|+..|-+..+++.|+++-++..+.+.
T Consensus       105 -----------qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~  172 (389)
T COG2956         105 -----------QRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGG  172 (389)
T ss_pred             -----------HHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCC
Confidence                       12445567889999999999999999999886533 566788899999999999999999999988764


Q ss_pred             CCCHH----HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhh
Q 004744          237 ELNVY----TLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFT  312 (732)
Q Consensus       237 ~~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  312 (732)
                      .+...    .|--+...+....+++.|..++.+..+.+.+ .+.+-..+.+.+...|+++.|.+.++...+.+..--..+
T Consensus       173 q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~ev  251 (389)
T COG2956         173 QTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEV  251 (389)
T ss_pred             ccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHH
Confidence            33322    2334444444567888999999998887533 455566677888899999999999999988865545667


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHh
Q 004744          313 YNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSR  392 (732)
Q Consensus       313 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~  392 (732)
                      ...|..+|.+.|+.++....+.++.+..  ++...-..+...-....-.+.|...+.+-+++  .|+...+..++.....
T Consensus       252 l~~L~~~Y~~lg~~~~~~~fL~~~~~~~--~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~  327 (389)
T COG2956         252 LEMLYECYAQLGKPAEGLNFLRRAMETN--TGADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLA  327 (389)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHcc--CCccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhc
Confidence            7888889999999999999999888763  33333344444444445566666666555544  4788888888876654


Q ss_pred             ---CCCHHHHHHHHHHHHH
Q 004744          393 ---NGQLDRALMYFREMKS  408 (732)
Q Consensus       393 ---~g~~~~A~~l~~~~~~  408 (732)
                         .|...+.+.+++.|..
T Consensus       328 daeeg~~k~sL~~lr~mvg  346 (389)
T COG2956         328 DAEEGRAKESLDLLRDMVG  346 (389)
T ss_pred             cccccchhhhHHHHHHHHH
Confidence               3345555556666543

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.55  E-value=4.2e-11  Score=110.90  Aligned_cols=286  Identities=15%  Similarity=0.186  Sum_probs=165.7

Q ss_pred             CCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHHcCCH
Q 004744          358 KENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDN------VLYTIIINGYCRNGFV  431 (732)
Q Consensus       358 ~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~------~~~~~li~~~~~~g~~  431 (732)
                      ..+.++|.+.|-+|.+.... +..+--+|.+.|.+.|..|.|+++.+.+.++   ||.      .....|..-|...|-+
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~-t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~  123 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPE-TFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLL  123 (389)
T ss_pred             hcCcchHHHHHHHHHhcCch-hhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhh
Confidence            34556666666666654221 3444455666666666666666666666554   221      2334455666666777


Q ss_pred             HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCCHHHHHHH
Q 004744          432 LEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDF----YTFTTLIHGHCKDGNMNKALNL  507 (732)
Q Consensus       432 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~  507 (732)
                      +.|..+|..+.+.+.. -......|+..|-...+|++|+++-+++.+.+..+..    ..|.-+...+....+.+.|..+
T Consensus       124 DRAE~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~  202 (389)
T COG2956         124 DRAEDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRAREL  202 (389)
T ss_pred             hHHHHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            7777777766664322 3445556667777777777777777776665544322    1344455555556677777777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 004744          508 FDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIK  587 (732)
Q Consensus       508 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  587 (732)
                      +++..+.+.+ .+..--.+.+.+...|+++.|.+.|+.+.+.++.--..+...|..+|.+.|+.++....+..+.+..  
T Consensus       203 l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~--  279 (389)
T COG2956         203 LKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--  279 (389)
T ss_pred             HHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--
Confidence            7777665433 3344445556667777777777777777776444334456667777777777777777777776652  


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH---hcCCHHHHHHHHHHHHH
Q 004744          588 PTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFV---REENMDKAFALVSKMEN  653 (732)
Q Consensus       588 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~---~~g~~~~A~~~~~~~~~  653 (732)
                      +....-..+........-.+.|..++.+-+..  .|+...+..+++...   ..|...+.+.+++.|+.
T Consensus       280 ~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvg  346 (389)
T COG2956         280 TGADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVG  346 (389)
T ss_pred             CCccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHH
Confidence            33333333333333333444555554444432  467766666666543   23445555555665554

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.55  E-value=3.6e-12  Score=129.47  Aligned_cols=291  Identities=13%  Similarity=0.030  Sum_probs=231.9

Q ss_pred             CChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHhcCChhHHHH
Q 004744          184 RKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGI--ELNVYTLNIMVNALCKDHKIDSAKM  261 (732)
Q Consensus       184 g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~  261 (732)
                      -+.++|+..|.+....-.. +......+..+|...+++++|.++|+.+.+...  -.+..+|+..+.-+-+.    -++.
T Consensus       333 y~~~~A~~~~~klp~h~~n-t~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls  407 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSHHYN-TGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALS  407 (638)
T ss_pred             HHHHHHHHHHHhhHHhcCC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHH
Confidence            4688999999997665333 446678889999999999999999999987541  24566787777654332    1222


Q ss_pred             -HHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 004744          262 -FLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMG  340 (732)
Q Consensus       262 -~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  340 (732)
                       +-+.+.+.. +-...+|.++.+.|.-+++.+.|++.|++.+..+.. ...+|+.+.+-+.....+|.|...|+..+...
T Consensus       408 ~Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~  485 (638)
T KOG1126|consen  408 YLAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGVD  485 (638)
T ss_pred             HHHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcCC
Confidence             222333332 225789999999999999999999999999986432 78899999999999999999999999988643


Q ss_pred             CCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 004744          341 LSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTI  420 (732)
Q Consensus       341 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~  420 (732)
                       +.+-.+|.-+...|.+.++++.|+-.|+++.+.+.. +.+....+...+-+.|+.|+|+++++++...+.+ |+..-..
T Consensus       486 -~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~  562 (638)
T KOG1126|consen  486 -PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYH  562 (638)
T ss_pred             -chhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHH
Confidence             233446667788999999999999999999987654 7788888899999999999999999999887544 5555555


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          421 IINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDF  485 (732)
Q Consensus       421 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~  485 (732)
                      .+..+...++.++|+..++++.+.-+. +..++..+...|-+.|+.+.|+.-|.-+.+.++++..
T Consensus       563 ~~~il~~~~~~~eal~~LEeLk~~vP~-es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~~  626 (638)
T KOG1126|consen  563 RASILFSLGRYVEALQELEELKELVPQ-ESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGAQ  626 (638)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHHhCcc-hHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccch
Confidence            677788899999999999999986444 6778888999999999999999999999887665443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.55  E-value=3.5e-09  Score=109.67  Aligned_cols=512  Identities=13%  Similarity=0.039  Sum_probs=284.1

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHH---HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004744          180 YVQARKLREGSEVFRLLRNKGICFSINACNSLLGGL---VKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKI  256 (732)
Q Consensus       180 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~---~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  256 (732)
                      +.+.+..++++.-+.....++...+..++..+..++   ...|+.+++  .+-..+..-.-|....+.+.+.-       
T Consensus       237 w~~~~~~~~~i~s~~~~l~~~w~~~~l~ka~l~~~~~~f~~~~~~Ee~--~Lllli~es~i~Re~~~d~ilsl-------  307 (799)
T KOG4162|consen  237 WKKLSGPKEAIKSYRRALLRSWSLDPLTKARLYKGFALFLPKSGQEEV--ILLLLIEESLIPRENIEDAILSL-------  307 (799)
T ss_pred             hcCCCCchHHHHhhhHHhhcccccchhHHHHHhhcccccCCCCcHHHH--HHHHHHHhhccccccHHHHHHHH-------
Confidence            344566677777777777776665655555544332   233444444  22222222122221111111110       


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHH
Q 004744          257 DSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEM  336 (732)
Q Consensus       257 ~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  336 (732)
                         .-.+.++....+.-|...|..|.-+....|+++.+.+.|++....-+. ....|..+...|...|.-..|..+++.-
T Consensus       308 ---m~~~~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~-~~e~w~~~als~saag~~s~Av~ll~~~  383 (799)
T KOG4162|consen  308 ---MLLLRKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFG-EHERWYQLALSYSAAGSDSKAVNLLRES  383 (799)
T ss_pred             ---HHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhh-hHHHHHHHHHHHHHhccchHHHHHHHhh
Confidence               012233333334446777777777888888888888888877654222 5667778888888888888888888776


Q ss_pred             HHCCCCCC-HHhHHHHHHHH-HcCCCHhHHHHHHHHHHhC--CC--CCCHhHHHHHHHHHHhC-----------CCHHHH
Q 004744          337 LQMGLSPD-TATYNTLLVES-CRKENMSEAEEIFCEMSRR--GV--APDIVSFSTLIGIFSRN-----------GQLDRA  399 (732)
Q Consensus       337 ~~~g~~~~-~~~~~~li~~~-~~~g~~~~A~~~~~~~~~~--g~--~~~~~~~~~l~~~~~~~-----------g~~~~A  399 (732)
                      ....-.|+ ...+-..-..| -+.+.+++++++-.++...  +.  .-....|..+.-+|...           ....++
T Consensus       384 ~~~~~~ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~ks  463 (799)
T KOG4162|consen  384 LKKSEQPSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKS  463 (799)
T ss_pred             cccccCCCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHH
Confidence            54432233 23332222222 2356666666666555541  11  01233344444333321           113456


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004744          400 LMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLER  479 (732)
Q Consensus       400 ~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  479 (732)
                      ++.+++..+.+.. |+.+...+.--|+..++++.|++...+..+-+..-+...|..+.-.+...+++.+|+.+.+...+.
T Consensus       464 lqale~av~~d~~-dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E  542 (799)
T KOG4162|consen  464 LQALEEAVQFDPT-DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEE  542 (799)
T ss_pred             HHHHHHHHhcCCC-CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence            6666666554332 222222333346666777777777777777655557777777777777777777777777766543


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHH
Q 004744          480 GVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISR--KISPNYIS  557 (732)
Q Consensus       480 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~  557 (732)
                      -.. |......-++.-...++.++|+.....++.-  .-+..-...       .++-....+....+.-.  .......+
T Consensus       543 ~~~-N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~--we~~~~~q~-------~~~~g~~~~lk~~l~la~~q~~~a~s~  612 (799)
T KOG4162|consen  543 FGD-NHVLMDGKIHIELTFNDREEALDTCIHKLAL--WEAEYGVQQ-------TLDEGKLLRLKAGLHLALSQPTDAIST  612 (799)
T ss_pred             hhh-hhhhchhhhhhhhhcccHHHHHHHHHHHHHH--HHhhhhHhh-------hhhhhhhhhhhcccccCcccccccchh
Confidence            111 1111112222223356666666666555431  000000000       11111111111111100  01111122


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CC------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004744          558 YGILINGYCSMGHVTEAFRLWYEMVGKGIK--PT------LVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYN  629 (732)
Q Consensus       558 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  629 (732)
                      +..+.......+  +.+-.-.. +...-..  |+      ...|......+.+.+..++|...+.+..... .-....|.
T Consensus       613 sr~ls~l~a~~~--~~~~se~~-Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~  688 (799)
T KOG4162|consen  613 SRYLSSLVASQL--KSAGSELK-LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYY  688 (799)
T ss_pred             hHHHHHHHHhhh--hhcccccc-cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHH
Confidence            222222111111  11000000 1111111  22      2345556677888899999998888887642 23455666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHH--HHHHHHHcCCCC-CHHHHHHHHHHH
Q 004744          630 TLINGFVREENMDKAFALVSKMENQGLVPDV-ITYNVILTGFCRQGRMHDSEL--ILWRMIEKGLNP-DRSTYTTLINGH  705 (732)
Q Consensus       630 ~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~--~~~~~~~~g~~p-~~~~~~~l~~~~  705 (732)
                      .....+...|.+++|.+.|.....  +.|+. .+..+++..+.+.|+-.-|..  ++..+++  ++| +...|..++..+
T Consensus       689 ~~G~~~~~~~~~~EA~~af~~Al~--ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr--~dp~n~eaW~~LG~v~  764 (799)
T KOG4162|consen  689 LRGLLLEVKGQLEEAKEAFLVALA--LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALR--LDPLNHEAWYYLGEVF  764 (799)
T ss_pred             HhhHHHHHHHhhHHHHHHHHHHHh--cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHh--hCCCCHHHHHHHHHHH
Confidence            677788889999999999999988  67764 578899999999998887777  9999999  778 579999999999


Q ss_pred             HhcCCHHHHHHHHHHHHH
Q 004744          706 VSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       706 ~~~g~~~~A~~~~~~m~~  723 (732)
                      .+.|+.++|.+.|.-..+
T Consensus       765 k~~Gd~~~Aaecf~aa~q  782 (799)
T KOG4162|consen  765 KKLGDSKQAAECFQAALQ  782 (799)
T ss_pred             HHccchHHHHHHHHHHHh
Confidence            999999999999998875

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.52  E-value=9.6e-10  Score=116.33  Aligned_cols=584  Identities=10%  Similarity=-0.031  Sum_probs=291.4

Q ss_pred             ccChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHH
Q 004744           94 RDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIF  173 (732)
Q Consensus        94 ~~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  173 (732)
                      +.+...|+..|=...+..|.+   ...|+.|.++|...-+...|...|+.+.                  .-++.+...+
T Consensus       471 rK~~~~al~ali~alrld~~~---apaf~~LG~iYrd~~Dm~RA~kCf~KAF------------------eLDatdaeaa  529 (1238)
T KOG1127|consen  471 RKNSALALHALIRALRLDVSL---APAFAFLGQIYRDSDDMKRAKKCFDKAF------------------ELDATDAEAA  529 (1238)
T ss_pred             hhhHHHHHHHHHHHHhcccch---hHHHHHHHHHHHHHHHHHHHHHHHHHHh------------------cCCchhhhhH
Confidence            345555555555545544443   4577778887777666667777777664                  3345567777


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004744          174 DLVIRTYVQARKLREGSEVFRLLRNKGIC-FSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCK  252 (732)
Q Consensus       174 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  252 (732)
                      ......|++...++.|..+.-..-+..+. .-...|..+.-.+.+.++...|+..|+...+.. |.|...|..+..+|.+
T Consensus       530 aa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~  608 (1238)
T KOG1127|consen  530 AASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPE  608 (1238)
T ss_pred             HHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHh
Confidence            78888888888888888773332222111 111233444455667778888888888887765 6677788888888888


Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC------CCCCCHhhHHHHHHHHHhcCCh
Q 004744          253 DHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGK------GLKPGVFTYNSLINGLCKKGRC  326 (732)
Q Consensus       253 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~~~~~~~li~~~~~~g~~  326 (732)
                      +|++..|.++|.+.....+. +...---...+.|..|.+++|+..+......      +...-..++..+...+.-.|-.
T Consensus       609 sGry~~AlKvF~kAs~LrP~-s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~  687 (1238)
T KOG1127|consen  609 SGRYSHALKVFTKASLLRPL-SKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQ  687 (1238)
T ss_pred             cCceehHHHhhhhhHhcCcH-hHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHh
Confidence            88888888888877766322 2222222334556678888888877776542      1111223333333344444444


Q ss_pred             hHHHHHHHHHHHC-------CCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCH---
Q 004744          327 DRAKEVLDEMLQM-------GLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQL---  396 (732)
Q Consensus       327 ~~A~~~~~~~~~~-------g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~---  396 (732)
                      .+|..++++-++.       ....+...|-.+.          +|..+|-... .+ .|+......+..-.-+.+..   
T Consensus       688 ~kavd~~eksie~f~~~l~h~~~~~~~~Wi~as----------dac~~f~q~e-~~-~vn~h~l~il~~q~e~~~~l~~~  755 (1238)
T KOG1127|consen  688 KKAVDFFEKSIESFIVSLIHSLQSDRLQWIVAS----------DACYIFSQEE-PS-IVNMHYLIILSKQLEKTGALKKN  755 (1238)
T ss_pred             hhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHh----------HHHHHHHHhc-cc-chHHHHHHHHHHHHHhcccCcch
Confidence            4444444443321       1111122222111          2222222222 00 11211111111111111111   


Q ss_pred             H---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----c----CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 004744          397 D---RALMYFREMKSAGLVPDNVLYTIIINGYCR----N----GFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKM  465 (732)
Q Consensus       397 ~---~A~~l~~~~~~~~~~~~~~~~~~li~~~~~----~----g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  465 (732)
                      |   -+.+.+-.-.+  ...+..+|..++..|.+    .    .+...|+..+.+.++.... +..+||.|.-. ...|.
T Consensus       756 d~l~Lg~~c~~~hls--l~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~an-n~~~WnaLGVl-sg~gn  831 (1238)
T KOG1127|consen  756 DLLFLGYECGIAHLS--LAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLCAN-NEGLWNALGVL-SGIGN  831 (1238)
T ss_pred             hHHHHHHHHhhHHHH--HhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHhhc-cHHHHHHHHHh-hccch
Confidence            1   11111111111  11123344444443333    1    1223556666665554322 56666666554 44466


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004744          466 LTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWAD  545 (732)
Q Consensus       466 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  545 (732)
                      +.-|...|-+-....+. ...+|..+...+.+..+++.|...|.......+ .+...|--..-.....|+.-++..+|..
T Consensus       832 va~aQHCfIks~~sep~-~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLdP-~nl~~WlG~Ali~eavG~ii~~~~lfaH  909 (1238)
T KOG1127|consen  832 VACAQHCFIKSRFSEPT-CHCQWLNLGVLVLENQDFEHAEPAFSSVQSLDP-LNLVQWLGEALIPEAVGRIIERLILFAH  909 (1238)
T ss_pred             hhhhhhhhhhhhhcccc-chhheeccceeEEecccHHHhhHHHHhhhhcCc-hhhHHHHHHHHhHHHHHHHHHHHHHHHh
Confidence            66666666555544333 556677777777777777777777776655422 2344443333333455666666666654


Q ss_pred             HH----HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh---------CCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 004744          546 MI----SRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVG---------KGIKPTLVSCNTIIKGYCRSGDASKADEF  612 (732)
Q Consensus       546 ~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  612 (732)
                      --    ..|--++..-|-........+|+.++-+...+.+-.         .+.+.+...|........+.+.++.|.++
T Consensus       910 s~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~el  989 (1238)
T KOG1127|consen  910 SDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALEL  989 (1238)
T ss_pred             hHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHH
Confidence            21    122233443333333334455555544333332211         13455566666666666666666666666


Q ss_pred             HHHHHHC-CCCCCHHHHHH----HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          613 LSKMVSE-GVDPDSISYNT----LINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMI  687 (732)
Q Consensus       613 ~~~~~~~-~~~~~~~~~~~----li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  687 (732)
                      ..+.+.. ..+-+...|+.    +...++..|.++.|..-+.....   ..+..+-..-+.. .-.|+++++.+.|+++.
T Consensus       990 a~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~---evdEdi~gt~l~l-Ffkndf~~sl~~fe~aL 1065 (1238)
T KOG1127|consen  990 ATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWM---EVDEDIRGTDLTL-FFKNDFFSSLEFFEQAL 1065 (1238)
T ss_pred             HHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccch---hHHHHHhhhhHHH-HHHhHHHHHHHHHHHHh
Confidence            6554321 11223333332    23344455566655443332221   1122221111112 23467777777777776


Q ss_pred             H-cCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          688 E-KGLNPDR-STYTTLINGHVSQNNLKEAFRFHDEML  722 (732)
Q Consensus       688 ~-~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~  722 (732)
                      . ..-+.|. +....++.+....|..+.|...+-+..
T Consensus      1066 sis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~ 1102 (1238)
T KOG1127|consen 1066 SISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVK 1102 (1238)
T ss_pred             hhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHH
Confidence            5 1112222 334445555566666666666655544

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.51  E-value=2.3e-10  Score=109.59  Aligned_cols=293  Identities=13%  Similarity=0.113  Sum_probs=180.7

Q ss_pred             CCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 004744          358 KENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKM  437 (732)
Q Consensus       358 ~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  437 (732)
                      .|++.+|++...+-.+.+-. ....|..-+.+.-+.|+.+.+-+++.+..+..-.++...+-+..+.....|+++.|..-
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            56666666666665555433 23344445555566666666666666665543334444555555556666666666666


Q ss_pred             HHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 004744          438 RDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIK  517 (732)
Q Consensus       438 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  517 (732)
                      .+++.+.++. ++........+|.+.|++.....++..+.+.+.-.|...-                 +           
T Consensus       176 v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~-----------------~-----------  226 (400)
T COG3071         176 VDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAA-----------------R-----------  226 (400)
T ss_pred             HHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHH-----------------H-----------
Confidence            6666655544 4555556666666666666666666666655543222110                 0           


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 004744          518 PDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTII  597 (732)
Q Consensus       518 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  597 (732)
                      ....+|..+++-....+..+.-...|+..... ...++..-.+++.-+.++|+.++|.++..+..+++..|+...    .
T Consensus       227 le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~----~  301 (400)
T COG3071         227 LEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCR----L  301 (400)
T ss_pred             HHHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHH----H
Confidence            01123344444333333333334444444332 333556666777778888888888888888887766655221    2


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 004744          598 KGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMH  677 (732)
Q Consensus       598 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~  677 (732)
                      -.+.+-++.+.-++..++..+.. +.++..+.+|...|.+.+.|.+|.+.|+...+  ..|+..+|+.+..++.+.|+..
T Consensus       302 ~~~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~  378 (400)
T COG3071         302 IPRLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPE  378 (400)
T ss_pred             HhhcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChH
Confidence            23456677777777777766642 23446777888888888888888888888887  5788888888888888888888


Q ss_pred             HHHHHHHHHHH
Q 004744          678 DSELILWRMIE  688 (732)
Q Consensus       678 ~A~~~~~~~~~  688 (732)
                      +|....++..-
T Consensus       379 ~A~~~r~e~L~  389 (400)
T COG3071         379 EAEQVRREALL  389 (400)
T ss_pred             HHHHHHHHHHH
Confidence            88888887764

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.51  E-value=1.6e-08  Score=107.03  Aligned_cols=582  Identities=13%  Similarity=0.151  Sum_probs=310.5

Q ss_pred             cChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCC------
Q 004744           95 DNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGS------  168 (732)
Q Consensus        95 ~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------  168 (732)
                      .+++.+.+|...+....    +.+.-.+.+..+........++.+++..+++.+.+....+...++..-....+      
T Consensus       523 ~sPD~~~qFa~~l~Q~~----~~~~die~I~DlFme~N~iQq~TSFLLdaLK~~~Pd~g~LQTrLLE~NL~~aPqVADAI  598 (1666)
T KOG0985|consen  523 SSPDQALQFAMMLVQDE----EPLADIEQIVDLFMELNLIQQCTSFLLDALKLNSPDEGHLQTRLLEMNLVHAPQVADAI  598 (1666)
T ss_pred             cChhHHHHHHHHhhccC----CCcccHHHHHHHHHHHHhhhhhHHHHHHHhcCCChhhhhHHHHHHHHHhccchHHHHHH
Confidence            45666666654443222    23455667777777777778888888777754433332333333332211111      


Q ss_pred             ------chHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHH-----HHHHHHcCChHHHHHHHHHHHHcCCC
Q 004744          169 ------NSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSL-----LGGLVKIGWVDLAREVYAEVVRSGIE  237 (732)
Q Consensus       169 ------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l-----l~~~~~~g~~~~a~~~~~~~~~~~~~  237 (732)
                            .-+-|..+.+.|-++|....|++.|..+.+..   -......+     +..+...-.++++.+.+..|+..++.
T Consensus       599 LgN~mFtHyDra~IAqLCEKAGL~qraLehytDl~DIK---R~vVhth~L~pEwLv~yFg~lsve~s~eclkaml~~Nir  675 (1666)
T KOG0985|consen  599 LGNDMFTHYDRAEIAQLCEKAGLLQRALEHYTDLYDIK---RVVVHTHLLNPEWLVNYFGSLSVEDSLECLKAMLSANIR  675 (1666)
T ss_pred             HhccccccccHHHHHHHHHhcchHHHHHHhcccHHHHH---HHHHHhccCCHHHHHHHHHhcCHHHHHHHHHHHHHHHHH
Confidence                  11227788899999999999998888765421   11112111     23445556789999999999988888


Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHhC-----------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHh----
Q 004744          238 LNVYTLNIMVNALCKDHKIDSAKMFLCEMEQK-----------GVYPDTVTYNTLINAYCREGFLEEAFQLMNSMS----  302 (732)
Q Consensus       238 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----------g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~----  302 (732)
                      .|..+.-.+..-|+..=-.+.-.++|+.....           ++.-|..+.--.|.+-|+.|++.+..++.++-.    
T Consensus       676 qNlQi~VQvatky~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicresn~Ydp  755 (1666)
T KOG0985|consen  676 QNLQIVVQVATKYHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESNCYDP  755 (1666)
T ss_pred             hhhHHHHHHHHHHHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccccCCH
Confidence            88877777777777666666666666665432           123355555667888899999988887766421    


Q ss_pred             --------hC---------------CCCCCHhhH------HHHHHHHH--------------------------------
Q 004744          303 --------GK---------------GLKPGVFTY------NSLINGLC--------------------------------  321 (732)
Q Consensus       303 --------~~---------------g~~p~~~~~------~~li~~~~--------------------------------  321 (732)
                              +.               ++.+|.+.|      ...|..|.                                
T Consensus       756 ErvKNfLkeAkL~DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~LLD~dC~E~~ik~Li~~v  835 (1666)
T KOG0985|consen  756 ERVKNFLKEAKLTDQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGALLDVDCSEDFIKNLILSV  835 (1666)
T ss_pred             HHHHHHHHhccccccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhhhhcCCCcHHHHHHHHHHH
Confidence                    11               111122211      01111222                                


Q ss_pred             --------------hcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHH-HH---HHH-----HHH-h----
Q 004744          322 --------------KKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEA-EE---IFC-----EMS-R----  373 (732)
Q Consensus       322 --------------~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A-~~---~~~-----~~~-~----  373 (732)
                                    +.+++.--...++..++.|. .|..++|+|...|...++-.+- ++   .++     +-- +    
T Consensus       836 ~gq~~~deLv~EvEkRNRLklLlp~LE~~i~eG~-~d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~  914 (1666)
T KOG0985|consen  836 RGQFPVDELVEEVEKRNRLKLLLPWLESLIQEGS-QDPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPH  914 (1666)
T ss_pred             hccCChHHHHHHHHhhhhHHHHHHHHHHHHhccC-cchHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCc
Confidence                          23333344445555556663 5777888887776654432211 10   111     110 0    


Q ss_pred             -------CCCC--------CCHhHHHHHHHHHHhCCCHHHHH-----------HHHHHHHHCCC--CCCHHHHHHHHHHH
Q 004744          374 -------RGVA--------PDIVSFSTLIGIFSRNGQLDRAL-----------MYFREMKSAGL--VPDNVLYTIIINGY  425 (732)
Q Consensus       374 -------~g~~--------~~~~~~~~l~~~~~~~g~~~~A~-----------~l~~~~~~~~~--~~~~~~~~~li~~~  425 (732)
                             +|--        -.-..|....+.+.+..+.+--.           ++.++....++  ..|+...+.-+.++
T Consensus       915 lA~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAf  994 (1666)
T KOG0985|consen  915 LACVAYERGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAF  994 (1666)
T ss_pred             eEEEeecccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHH
Confidence                   1100        01122344445555555543222           34455554433  23555666778888


Q ss_pred             HHcCCHHHHHHHHHHHHHCCC--CcCHHHHHHHHHHHH---------------------------hcCCHHHHHHHHHHH
Q 004744          426 CRNGFVLEALKMRDEMLEKGC--VMDVVTYNTILNGLC---------------------------RAKMLTEADDLFNEM  476 (732)
Q Consensus       426 ~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~li~~~~---------------------------~~~~~~~A~~~~~~~  476 (732)
                      ...+-..+-+++++++.-...  .-+...-|.|+-...                           .++-+++|..+|+..
T Consensus       995 MtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf 1074 (1666)
T KOG0985|consen  995 MTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIFKKF 1074 (1666)
T ss_pred             HhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHHHHh
Confidence            888999999999988865421  112222233332222                           233344444444432


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 004744          477 LERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYI  556 (732)
Q Consensus       477 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  556 (732)
                      -.     +....+.|+.   .-++++.|.+.-+...      .+..|+.+..+-...|.+.+|.+-|-+.      .|+.
T Consensus      1075 ~~-----n~~A~~VLie---~i~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v~dAieSyika------dDps 1134 (1666)
T KOG0985|consen 1075 DM-----NVSAIQVLIE---NIGSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPS 1134 (1666)
T ss_pred             cc-----cHHHHHHHHH---HhhhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcH
Confidence            11     2222222222   2233344433333221      3455666666666666666666655322      1556


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004744          557 SYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFV  636 (732)
Q Consensus       557 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  636 (732)
                      .|..+++...+.|.+++-.+.+....++...|...+  .++-+|++.++..+-++++.       .||......+.+-|.
T Consensus      1135 ~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~--eLi~AyAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf 1205 (1666)
T KOG0985|consen 1135 NYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDS--ELIFAYAKTNRLTELEEFIA-------GPNVANIQQVGDRCF 1205 (1666)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchH--HHHHHHHHhchHHHHHHHhc-------CCCchhHHHHhHHHh
Confidence            666666666667777776666666665544444433  45566666666655444431       255555555555565


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH----------------------HcCCC--
Q 004744          637 REENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMI----------------------EKGLN--  692 (732)
Q Consensus       637 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----------------------~~g~~--  692 (732)
                      ..|.++.|.-+|...-         -|..|...+...|++..|....+++-                      -.|+.  
T Consensus      1206 ~~~~y~aAkl~y~~vS---------N~a~La~TLV~LgeyQ~AVD~aRKAns~ktWK~VcfaCvd~~EFrlAQiCGL~ii 1276 (1666)
T KOG0985|consen 1206 EEKMYEAAKLLYSNVS---------NFAKLASTLVYLGEYQGAVDAARKANSTKTWKEVCFACVDKEEFRLAQICGLNII 1276 (1666)
T ss_pred             hhhhhHHHHHHHHHhh---------hHHHHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHhchhhhhHHHhcCceEE
Confidence            6666655555444332         24444444444444444433322221                      11222  


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          693 PDRSTYTTLINGHVSQNNLKEAFRFHDEML  722 (732)
Q Consensus       693 p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  722 (732)
                      -...-...|+.-|...|-++|-+.+++..+
T Consensus      1277 vhadeLeeli~~Yq~rGyFeElIsl~Ea~L 1306 (1666)
T KOG0985|consen 1277 VHADELEELIEYYQDRGYFEELISLLEAGL 1306 (1666)
T ss_pred             EehHhHHHHHHHHHhcCcHHHHHHHHHhhh
Confidence            234456677888888888888888877665

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.48  E-value=1.1e-09  Score=114.57  Aligned_cols=258  Identities=16%  Similarity=0.126  Sum_probs=122.0

Q ss_pred             CCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcC-------CCCCchHHHHHHHHHHHHcCC
Q 004744          113 NVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYS-------PCGSNSLIFDLVIRTYVQARK  185 (732)
Q Consensus       113 ~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~~~~~~~l~~~~~~~g~  185 (732)
                      |..++.+||..+|.-|+..|..+-|- +|.-|-.++-.....+++.++.+.+       ...+.+.+|+.|...|.+.|+
T Consensus        20 gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ayr~hGD   98 (1088)
T KOG4318|consen   20 GILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAYRIHGD   98 (1088)
T ss_pred             cCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHHHhccc
Confidence            56677899999999999999998877 6655543332222333444443321       112456667777777777766


Q ss_pred             hHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHhcCChhHHHHHHH
Q 004744          186 LREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVV-RSGIELNVYTLNIMVNALCKDHKIDSAKMFLC  264 (732)
Q Consensus       186 ~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  264 (732)
                      +.. ++..++-           ...+...+...|.-..-..++..+. ..+.-||..+   ++.-..-.|-++.+.+++.
T Consensus        99 li~-fe~veqd-----------Le~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n---~illlv~eglwaqllkll~  163 (1088)
T KOG4318|consen   99 LIL-FEVVEQD-----------LESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAEN---AILLLVLEGLWAQLLKLLA  163 (1088)
T ss_pred             hHH-HHHHHHH-----------HHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHH---HHHHHHHHHHHHHHHHHHh
Confidence            544 2222221           1111112222222222222222110 0111122211   1122222334444444444


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC
Q 004744          265 EMEQKGVYPDTVTYNTLINAYCRE-GFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSP  343 (732)
Q Consensus       265 ~~~~~g~~p~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~  343 (732)
                      .+....... ....  .++-.... ..+++-..+.....+   .|++.+|..+++.-...|+.+.|..++.+|.+.|++.
T Consensus       164 ~~Pvsa~~~-p~~v--fLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpi  237 (1088)
T KOG4318|consen  164 KVPVSAWNA-PFQV--FLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPI  237 (1088)
T ss_pred             hCCcccccc-hHHH--HHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCc
Confidence            333221110 0000  11111111 122222222222222   3566666666666666666666666666666666665


Q ss_pred             CHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCC
Q 004744          344 DTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQ  395 (732)
Q Consensus       344 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~  395 (732)
                      +..-|-.|+.+   .++..-+..++..|.+.|+.|+..|+..-+..+..+|.
T Consensus       238 r~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  238 RAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             ccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            55554444443   55556666666666666666666666655555555444

>PRK12370 invasion protein regulator; Provisional

Probab=99.45  E-value=5.4e-11  Score=129.14  Aligned_cols=236  Identities=11%  Similarity=0.002  Sum_probs=161.1

Q ss_pred             CCCCchHHHHHHHHHHHHc---------CChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 004744          165 PCGSNSLIFDLVIRTYVQA---------RKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSG  235 (732)
Q Consensus       165 ~~~~~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  235 (732)
                      ..|.++..|..+..+|...         +++++|...++++.+.++. +..++..+...+...|++++|...|+++++.+
T Consensus       290 ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~  368 (553)
T PRK12370        290 MSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLS  368 (553)
T ss_pred             cCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            3555667777777665532         3478899999999888776 78888888888888899999999999988875


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHH
Q 004744          236 IELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNS  315 (732)
Q Consensus       236 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  315 (732)
                       |.+...+..+...+...|++++|...+++..+..+. +...+..++..+...|++++|.+.++++.....+-+...+..
T Consensus       369 -P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~  446 (553)
T PRK12370        369 -PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSM  446 (553)
T ss_pred             -CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHH
Confidence             666777888888888899999999999998887443 222333445456678888889888888876532224555777


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCC-HHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCC
Q 004744          316 LINGLCKKGRCDRAKEVLDEMLQMGLSPD-TATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNG  394 (732)
Q Consensus       316 li~~~~~~g~~~~A~~~~~~~~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g  394 (732)
                      +...+...|+.++|...+.++...  .|+ ....+.+...|+..|  ++|...++.+.+..-. .......+...+.-.|
T Consensus       447 la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~-~~~~~~~~~~~~~~~g  521 (553)
T PRK12370        447 QVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQR-IDNNPGLLPLVLVAHG  521 (553)
T ss_pred             HHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhH-hhcCchHHHHHHHHHh
Confidence            778888888888888888887654  333 334555556667666  4677766665542111 1111111444455556


Q ss_pred             CHHHHHHHHHHHHHC
Q 004744          395 QLDRALMYFREMKSA  409 (732)
Q Consensus       395 ~~~~A~~l~~~~~~~  409 (732)
                      +-+.+..+ +++.+.
T Consensus       522 ~~~~~~~~-~~~~~~  535 (553)
T PRK12370        522 EAIAEKMW-NKFKNE  535 (553)
T ss_pred             hhHHHHHH-HHhhcc
Confidence            66666555 665554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.45  E-value=4.3e-08  Score=101.80  Aligned_cols=519  Identities=15%  Similarity=0.131  Sum_probs=269.6

Q ss_pred             ChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHH
Q 004744          117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLL  196 (732)
Q Consensus       117 ~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  196 (732)
                      +-..|..|.+.+.+.++++-|.-.+-.|-...|.....  .+-    . .+.  ..-..+.-.-.+.|++++|..+|++-
T Consensus       756 S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR--~a~----q-~~~--e~eakvAvLAieLgMlEeA~~lYr~c  826 (1416)
T KOG3617|consen  756 SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALR--RAQ----Q-NGE--EDEAKVAVLAIELGMLEEALILYRQC  826 (1416)
T ss_pred             hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHH--HHH----h-CCc--chhhHHHHHHHHHhhHHHHHHHHHHH
Confidence            56789999999999999999988887775433322111  100    0 111  11122233345678899999999887


Q ss_pred             HHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH
Q 004744          197 RNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTV  276 (732)
Q Consensus       197 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  276 (732)
                      .+.         ..|=+.|...|.+++|.++-+.--+..+.   .||-....-+-..++.+.|++.|++.-..    --.
T Consensus       827 kR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHLr---~Tyy~yA~~Lear~Di~~AleyyEK~~~h----afe  890 (1416)
T KOG3617|consen  827 KRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHLR---NTYYNYAKYLEARRDIEAALEYYEKAGVH----AFE  890 (1416)
T ss_pred             HHH---------HHHHHHHHhcccHHHHHHHHhhccceehh---hhHHHHHHHHHhhccHHHHHHHHHhcCCh----HHH
Confidence            653         34446677788999998887754333222   24444445555567788888887764321    111


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHH
Q 004744          277 TYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESC  356 (732)
Q Consensus       277 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~  356 (732)
                      +...|.      .+......+.+.+.      |...|.-....+-..|+.+.|+.++.....         |.+++...|
T Consensus       891 v~rmL~------e~p~~~e~Yv~~~~------d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C  949 (1416)
T KOG3617|consen  891 VFRMLK------EYPKQIEQYVRRKR------DESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKC  949 (1416)
T ss_pred             HHHHHH------hChHHHHHHHHhcc------chHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEe
Confidence            111111      12222223333332      333344444555567888888888876653         456777777


Q ss_pred             cCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH---
Q 004744          357 RKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLE---  433 (732)
Q Consensus       357 ~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~---  433 (732)
                      -.|+.++|-++-++-      .|......+.+.|-..|++.+|...|.+..         ++...|+.| +.+++++   
T Consensus       950 ~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq---------afsnAIRlc-KEnd~~d~L~ 1013 (1416)
T KOG3617|consen  950 IQGKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFFTRAQ---------AFSNAIRLC-KENDMKDRLA 1013 (1416)
T ss_pred             eccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH---------HHHHHHHHH-HhcCHHHHHH
Confidence            888888887776543      266677778888888888888888887654         233333332 2222222   


Q ss_pred             -------------HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH--------HHH--cCCCCCHHHHHH
Q 004744          434 -------------ALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNE--------MLE--RGVFPDFYTFTT  490 (732)
Q Consensus       434 -------------A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~--------~~~--~~~~~~~~~~~~  490 (732)
                                   |-+.|++.-   .     -....+..|-+.|.+.+|+++--+        ++.  .+...|+...+.
T Consensus      1014 nlal~s~~~d~v~aArYyEe~g---~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~R 1085 (1416)
T KOG3617|consen 1014 NLALMSGGSDLVSAARYYEELG---G-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRR 1085 (1416)
T ss_pred             HHHhhcCchhHHHHHHHHHHcc---h-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHH
Confidence                         222222211   0     112223346667777766654321        111  233346666677


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHH----HHHHHHHHH
Q 004744          491 LIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISR-KISPNYI----SYGILINGY  565 (732)
Q Consensus       491 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~----~~~~li~~~  565 (732)
                      -.+.++...++++|..++-...+.         ...+. +|+..++.-..++-+.|.-. +-.|+..    ....+...|
T Consensus      1086 cadFF~~~~qyekAV~lL~~ar~~---------~~Alq-lC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c 1155 (1416)
T KOG3617|consen 1086 CADFFENNQQYEKAVNLLCLAREF---------SGALQ-LCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELC 1155 (1416)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHH---------HHHHH-HHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHH
Confidence            777777777777777776554431         11121 23333333333332222211 1122222    334455556


Q ss_pred             HhcCCHHHHHHHHHHHHhC---------------------------------------CCCCCHHHHHHHHHHHHHcCCH
Q 004744          566 CSMGHVTEAFRLWYEMVGK---------------------------------------GIKPTLVSCNTIIKGYCRSGDA  606 (732)
Q Consensus       566 ~~~g~~~~A~~~~~~~~~~---------------------------------------~~~~~~~~~~~l~~~~~~~g~~  606 (732)
                      .++|.+..|-+-|.+.-.+                                       +...|+.+...++..|-+..-+
T Consensus      1156 ~qQG~Yh~AtKKfTQAGdKl~AMraLLKSGdt~KI~FFAn~sRqkEiYImAANyLQtlDWq~~pq~mK~I~tFYTKgqaf 1235 (1416)
T KOG3617|consen 1156 LQQGAYHAATKKFTQAGDKLSAMRALLKSGDTQKIRFFANTSRQKEIYIMAANYLQTLDWQDNPQTMKDIETFYTKGQAF 1235 (1416)
T ss_pred             HhccchHHHHHHHhhhhhHHHHHHHHHhcCCcceEEEEeeccccceeeeehhhhhhhcccccChHHHhhhHhhhhcchhH
Confidence            6666666665555443211                                       1122222222222222222222


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-----------cCC
Q 004744          607 SKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCR-----------QGR  675 (732)
Q Consensus       607 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~-----------~g~  675 (732)
                      +.--.+|.....-    ....|..+-   -..|-+++|.+.+.++..++  -....++.|-.-...           ..+
T Consensus      1236 d~LanFY~~cAqi----Eiee~q~yd---Ka~gAl~eA~kCl~ka~~k~--~~~t~l~~Lq~~~a~vk~~l~~~q~~~eD 1306 (1416)
T KOG3617|consen 1236 DHLANFYKSCAQI----EIEELQTYD---KAMGALEEAAKCLLKAEQKN--MSTTGLDALQEDLAKVKVQLRKLQIMKED 1306 (1416)
T ss_pred             HHHHHHHHHHHHh----hHHHHhhhh---HHhHHHHHHHHHHHHHHhhc--chHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            2211111111110    000010000   01344566666666666432  112223333222111           124


Q ss_pred             HHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          676 MHDSELILWRMIEKGLNPD----RSTYTTLINGHVSQNNLKEAFRFHDEMLQR  724 (732)
Q Consensus       676 ~~~A~~~~~~~~~~g~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  724 (732)
                      ..+.++-.+.|.+..+.||    ...|..|+..|....+|..|.+.+++|..+
T Consensus      1307 ~~~~i~qc~~lleep~ld~~Ir~~~~~a~lie~~v~~k~y~~AyRal~el~~k 1359 (1416)
T KOG3617|consen 1307 AADGIRQCTTLLEEPILDDIIRCTRLFALLIEDHVSRKNYKPAYRALTELQKK 1359 (1416)
T ss_pred             HHHHHHHHHHHhhCcCCCCcchhHHHHHHHHHHHHhhhhccHHHHHHHHHhhc
Confidence            5555566666776555554    356888999999999999999999999865

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.44  E-value=1.8e-08  Score=96.74  Aligned_cols=294  Identities=13%  Similarity=0.029  Sum_probs=210.3

Q ss_pred             HhCCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHH
Q 004744          391 SRNGQLDRALMYFREMKSAG-LVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEA  469 (732)
Q Consensus       391 ~~~g~~~~A~~l~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A  469 (732)
                      +-.++-..|...+--+.... ++-+......+.+.+...|+.++|...|++....++. +..........+.+.|++++.
T Consensus       207 ~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy-~i~~MD~Ya~LL~~eg~~e~~  285 (564)
T KOG1174|consen  207 MFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPD-NVEAMDLYAVLLGQEGGCEQD  285 (564)
T ss_pred             HHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChh-hhhhHHHHHHHHHhccCHhhH
Confidence            33444444444443333322 3445567777888888888888888888877665322 222233334446678888888


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          470 DDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISR  549 (732)
Q Consensus       470 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  549 (732)
                      ..+...+....- .....|..-........+++.|+.+-++.++.+.. +...+-.-...+...|++++|.-.|+..+..
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 SALMDYLFAKVK-YTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQML  363 (564)
T ss_pred             HHHHHHHHhhhh-cchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhc
Confidence            877777765421 13333444445556678899999998888876433 4455555556778899999999999988876


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHHH-cCCHHHHHHHHHHHHHCCCCCC-HH
Q 004744          550 KISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTII-KGYCR-SGDASKADEFLSKMVSEGVDPD-SI  626 (732)
Q Consensus       550 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~-~~~~~-~g~~~~A~~~~~~~~~~~~~~~-~~  626 (732)
                      . +-+..+|..|+..|...|++.||.-+-+...+. ++.+..++..+. ..+.- ...-++|.+++++.+.  +.|+ ..
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 347889999999999999999999888877665 456667766553 33332 2336789999998876  4566 44


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          627 SYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDR  695 (732)
Q Consensus       627 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  695 (732)
                      .-+.+...+...|+.++++.++++...  ..||....+.|++.+...+.+.+|...|..++.  +.|+.
T Consensus       440 AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr--~dP~~  504 (564)
T KOG1174|consen  440 AVNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR--QDPKS  504 (564)
T ss_pred             HHHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCccc
Confidence            567778889999999999999999988  688999999999999999999999999999998  88854

>PRK12370 invasion protein regulator; Provisional

Probab=99.44  E-value=5.3e-11  Score=129.24  Aligned_cols=252  Identities=13%  Similarity=0.075  Sum_probs=188.0

Q ss_pred             cChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHh---------CCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCC
Q 004744           95 DNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVR---------GRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSP  165 (732)
Q Consensus        95 ~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  165 (732)
                      .+++.|..+|+.+....|++   ..+|..+..++..         .+.+++|...+++++.                  .
T Consensus       275 ~~~~~A~~~~~~Al~ldP~~---a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~------------------l  333 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSPNS---IAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE------------------L  333 (553)
T ss_pred             HHHHHHHHHHHHHHhcCCcc---HHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh------------------c
Confidence            34668889999988888874   5677777665542         2447889999998874                  3


Q ss_pred             CCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 004744          166 CGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNI  245 (732)
Q Consensus       166 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  245 (732)
                      .+.++.++..+...+...|++++|+..|+++++.++. +...+..+..++...|++++|...++++++.+ |.+...+..
T Consensus       334 dP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~-P~~~~~~~~  411 (553)
T PRK12370        334 DHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLD-PTRAAAGIT  411 (553)
T ss_pred             CCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCChhhHHH
Confidence            5677889999999999999999999999999999866 77889999999999999999999999999875 334444444


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCC
Q 004744          246 MVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGR  325 (732)
Q Consensus       246 l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  325 (732)
                      ++..+...|++++|...++++.+...+-+...+..+...+...|++++|...++++.... +.+....+.+...|+..| 
T Consensus       412 ~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g-  489 (553)
T PRK12370        412 KLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-ITGLIAVNLLYAEYCQNS-  489 (553)
T ss_pred             HHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-chhHHHHHHHHHHHhccH-
Confidence            555677789999999999998866322245567788889999999999999999976652 224455666667778777 


Q ss_pred             hhHHHHHHHHHHHCC-CCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCC
Q 004744          326 CDRAKEVLDEMLQMG-LSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRG  375 (732)
Q Consensus       326 ~~~A~~~~~~~~~~g-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  375 (732)
                       ++|...++++.+.. ..+....+  +-..|.-.|+-+.+..+ +++.+.|
T Consensus       490 -~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        490 -ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             -HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence             48888888776531 12222222  33344556777777766 7776653

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.43  E-value=3.4e-08  Score=102.52  Aligned_cols=435  Identities=14%  Similarity=0.030  Sum_probs=275.9

Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHH
Q 004744          236 IELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNS  315 (732)
Q Consensus       236 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  315 (732)
                      +..|...|..+.-++...|+++.+.+.|++....-+. ....|+.+...|.-.|.-..|..+++........|+..+--.
T Consensus       319 ~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~-~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  319 FQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFG-EHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhh-hHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            4567778888888888889999999999988765433 567788888888888998889988888766543344433333


Q ss_pred             HHH-HHH-hcCChhHHHHHHHHHHHC--CC--CCCHHhHHHHHHHHHcC-----------CCHhHHHHHHHHHHhCCCCC
Q 004744          316 LIN-GLC-KKGRCDRAKEVLDEMLQM--GL--SPDTATYNTLLVESCRK-----------ENMSEAEEIFCEMSRRGVAP  378 (732)
Q Consensus       316 li~-~~~-~~g~~~~A~~~~~~~~~~--g~--~~~~~~~~~li~~~~~~-----------g~~~~A~~~~~~~~~~g~~~  378 (732)
                      ++. .|. +.+..++++.+-.+++..  +.  ......|..+.-+|...           ....++++.+++..+.+.. 
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~-  476 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT-  476 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC-
Confidence            333 333 457777777777776652  11  22344555555555432           1245677788888776543 


Q ss_pred             CHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHH
Q 004744          379 DIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILN  458 (732)
Q Consensus       379 ~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  458 (732)
                      |..+...+.--|...++++.|.+..++..+.+-..+...|..+.-.+...+++.+|+.+.+...+.-.. |-.....-+.
T Consensus       477 dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~-N~~l~~~~~~  555 (799)
T KOG4162|consen  477 DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGD-NHVLMDGKIH  555 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh-hhhhchhhhh
Confidence            444444455567788999999999999998877778899999999999999999999998887764111 1111111122


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--CCCCCCHHHHHHHHHHHHhcCCH
Q 004744          459 GLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQ--KSIKPDIVTYNTLIDGFCKVGEM  536 (732)
Q Consensus       459 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~~li~~~~~~g~~  536 (732)
                      .-..-++.+++......+...  .-+....       ...++-....+....+.-  ........++..+.......+..
T Consensus       556 i~~~~~~~e~~l~t~~~~L~~--we~~~~~-------q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~  626 (799)
T KOG4162|consen  556 IELTFNDREEALDTCIHKLAL--WEAEYGV-------QQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKS  626 (799)
T ss_pred             hhhhcccHHHHHHHHHHHHHH--HHhhhhH-------hhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhh
Confidence            223356677776666655532  0000000       111111112222221111  01111222332222211111100


Q ss_pred             HHHHHHHHHHHHCCCCCC------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 004744          537 EKANKLWADMISRKISPN------YISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKAD  610 (732)
Q Consensus       537 ~~A~~~~~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  610 (732)
                      ......+.... ....|+      ...|......+.+.+..++|.-.+.+..+.. +-....|......+...|..++|.
T Consensus       627 ~~se~~Lp~s~-~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~  704 (799)
T KOG4162|consen  627 AGSELKLPSST-VLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAK  704 (799)
T ss_pred             cccccccCccc-ccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHH
Confidence            00000010000 011122      2245566777888899999988888887653 556667777777888899999999


Q ss_pred             HHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHH--HHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          611 EFLSKMVSEGVDPD-SISYNTLINGFVREENMDKAFA--LVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRM  686 (732)
Q Consensus       611 ~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~--~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  686 (732)
                      +.|......  .|+ +.+..++..++.+.|+..-|..  ++..+.+  +.| +...|..++..+.+.|+.++|...|..+
T Consensus       705 ~af~~Al~l--dP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr--~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa  780 (799)
T KOG4162|consen  705 EAFLVALAL--DPDHVPSMTALAELLLELGSPRLAEKRSLLSDALR--LDPLNHEAWYYLGEVFKKLGDSKQAAECFQAA  780 (799)
T ss_pred             HHHHHHHhc--CCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHccchHHHHHHHHHH
Confidence            999988874  454 6678889999999998777777  9999998  455 6779999999999999999999999998


Q ss_pred             HH
Q 004744          687 IE  688 (732)
Q Consensus       687 ~~  688 (732)
                      .+
T Consensus       781 ~q  782 (799)
T KOG4162|consen  781 LQ  782 (799)
T ss_pred             Hh
Confidence            87

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.43  E-value=1.6e-08  Score=101.72  Aligned_cols=459  Identities=13%  Similarity=0.101  Sum_probs=245.0

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--hcC
Q 004744          177 IRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALC--KDH  254 (732)
Q Consensus       177 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~g  254 (732)
                      ++.+.+.|++++|+....+++..++. +...+..-+.++.+.++|++|+.+.+.-... ...+...   +=.+||  +.+
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~pd-d~~a~~cKvValIq~~ky~~ALk~ikk~~~~-~~~~~~~---fEKAYc~Yrln   93 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIVPD-DEDAIRCKVVALIQLDKYEDALKLIKKNGAL-LVINSFF---FEKAYCEYRLN   93 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcCCC-cHhhHhhhHhhhhhhhHHHHHHHHHHhcchh-hhcchhh---HHHHHHHHHcc
Confidence            56778899999999999999988755 7788888888899999999998655432110 0111111   234444  788


Q ss_pred             ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHH-HHhcCChhHHHHHH
Q 004744          255 KIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLING-LCKKGRCDRAKEVL  333 (732)
Q Consensus       255 ~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~-~~~~g~~~~A~~~~  333 (732)
                      +.++|...++-....    |..+...-...+.+.|++++|+++|+.+.+.+.+    .+...+.+ +...+-.-.+. +.
T Consensus        94 k~Dealk~~~~~~~~----~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d----d~d~~~r~nl~a~~a~l~~~-~~  164 (652)
T KOG2376|consen   94 KLDEALKTLKGLDRL----DDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD----DQDEERRANLLAVAAALQVQ-LL  164 (652)
T ss_pred             cHHHHHHHHhccccc----chHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc----hHHHHHHHHHHHHHHhhhHH-HH
Confidence            999999888833322    3446666677888999999999999999776433    22222211 11111111111 12


Q ss_pred             HHHHHCCCCCCHHhHHH---HHHHHHcCCCHhHHHHHHHHHHhCC-------CCCCH-------hHHHHHHHHHHhCCCH
Q 004744          334 DEMLQMGLSPDTATYNT---LLVESCRKENMSEAEEIFCEMSRRG-------VAPDI-------VSFSTLIGIFSRNGQL  396 (732)
Q Consensus       334 ~~~~~~g~~~~~~~~~~---li~~~~~~g~~~~A~~~~~~~~~~g-------~~~~~-------~~~~~l~~~~~~~g~~  396 (732)
                         ......| ..+|..   ....+...|++.+|++++....+.+       -.-+.       .+-..+.-++...|+-
T Consensus       165 ---q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt  240 (652)
T KOG2376|consen  165 ---QSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQT  240 (652)
T ss_pred             ---HhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcch
Confidence               2211223 222322   3445567888999998888773211       00000       1122344455666777


Q ss_pred             HHHHHHHHHHHHCCCCCCHHH----HHHHHHHHHHcCCHH-HHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 004744          397 DRALMYFREMKSAGLVPDNVL----YTIIINGYCRNGFVL-EALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADD  471 (732)
Q Consensus       397 ~~A~~l~~~~~~~~~~~~~~~----~~~li~~~~~~g~~~-~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  471 (732)
                      ++|..++...++.... |...    -|.|+..-....-++ .++..++.....                    ..+.+..
T Consensus       241 ~ea~~iy~~~i~~~~~-D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~--------------------l~~~~l~  299 (652)
T KOG2376|consen  241 AEASSIYVDIIKRNPA-DEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFK--------------------LAEFLLS  299 (652)
T ss_pred             HHHHHHHHHHHHhcCC-CchHHHHHhcchhhhccccccCchHHHHHHHHHHHH--------------------hHHHHHH
Confidence            7777777776665432 3221    122221111111111 111111111100                    0111111


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HhcCCHHHHHHHHHHHHHCC
Q 004744          472 LFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGF-CKVGEMEKANKLWADMISRK  550 (732)
Q Consensus       472 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~-~~~g~~~~A~~~~~~~~~~~  550 (732)
                      -|..-...    ....-+.++..|  .+..+.+.++......  ..|....-..+..+. ++...+.++.+++...-+..
T Consensus       300 ~Ls~~qk~----~i~~N~~lL~l~--tnk~~q~r~~~a~lp~--~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~  371 (652)
T KOG2376|consen  300 KLSKKQKQ----AIYRNNALLALF--TNKMDQVRELSASLPG--MSPESLFPILLQEATKVREKKHKKAIELLLQFADGH  371 (652)
T ss_pred             HHHHHHHH----HHHHHHHHHHHH--hhhHHHHHHHHHhCCc--cCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccC
Confidence            11111110    111112233332  2333444443333221  223322222222222 12224666777776666654


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHH--------HHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--C
Q 004744          551 ISPNYISYGILINGYCSMGHVTEAFRLWY--------EMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSE--G  620 (732)
Q Consensus       551 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~--------~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~  620 (732)
                      ..-..++.-.++......|+++.|++++.        .+.+.+..|.  +...+...+.+.++.+.|..++.+.+..  .
T Consensus       372 p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~--~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~  449 (652)
T KOG2376|consen  372 PEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPG--TVGAIVALYYKIKDNDSASAVLDSAIKWWRK  449 (652)
T ss_pred             CchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChh--HHHHHHHHHHhccCCccHHHHHHHHHHHHHH
Confidence            33334555566677778888888888887        4444444444  3445566677777766677766666542  1


Q ss_pred             CCCCHH----HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          621 VDPDSI----SYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRM  686 (732)
Q Consensus       621 ~~~~~~----~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  686 (732)
                      -.+...    ++.-++..-.+.|+-++|..+++++.+.+ ++|..+...++.+|++. +.+.|..+-+++
T Consensus       450 ~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  450 QQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             hcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhc-CHHHHHHHhhcC
Confidence            112222    33333444457799999999999999852 56778888899898876 678887776654

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.42  E-value=3.9e-07  Score=96.96  Aligned_cols=230  Identities=11%  Similarity=0.126  Sum_probs=107.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004744          451 VTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGF  530 (732)
Q Consensus       451 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  530 (732)
                      ..|..+..+-.+.|.+.+|++-|-+.      -|+..|..++....+.|.+++-...+....++.-+|.+.  +.|+-+|
T Consensus      1105 ~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~Ay 1176 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAY 1176 (1666)
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHH
Confidence            34444444444444444444444222      134444455555555555555555444444443333322  2344445


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 004744          531 CKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKAD  610 (732)
Q Consensus       531 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  610 (732)
                      ++.++..+-+++.       ..|+......+.+-|...|.++.|.-+|..         ...|..+...+...|+++.|.
T Consensus      1177 Akt~rl~elE~fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~LgeyQ~AV 1240 (1666)
T KOG0985|consen 1177 AKTNRLTELEEFI-------AGPNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLGEYQGAV 1240 (1666)
T ss_pred             HHhchHHHHHHHh-------cCCCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHHHHHH
Confidence            5555444433332       123444444444444444555444444432         223444445555555555555


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 004744          611 EFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKG  690 (732)
Q Consensus       611 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g  690 (732)
                      ..-+++      .+..+|-.+..+|...+.+.-|.     |-..++-....-..-++.-|-..|.+++-+.+++..+-  
T Consensus      1241 D~aRKA------ns~ktWK~VcfaCvd~~EFrlAQ-----iCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LG-- 1307 (1666)
T KOG0985|consen 1241 DAARKA------NSTKTWKEVCFACVDKEEFRLAQ-----ICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLG-- 1307 (1666)
T ss_pred             HHhhhc------cchhHHHHHHHHHhchhhhhHHH-----hcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhc--
Confidence            444332      23445555555555544443331     11111222333455566667777777777777666543  


Q ss_pred             CCC-CHHHHHHHHHHHHhcCCHHHHHHHH
Q 004744          691 LNP-DRSTYTTLINGHVSQNNLKEAFRFH  718 (732)
Q Consensus       691 ~~p-~~~~~~~l~~~~~~~g~~~~A~~~~  718 (732)
                      ++- ....|+.|.-.|.+- +.++..+.+
T Consensus      1308 LERAHMgmfTELaiLYsky-kp~km~EHl 1335 (1666)
T KOG0985|consen 1308 LERAHMGMFTELAILYSKY-KPEKMMEHL 1335 (1666)
T ss_pred             hhHHHHHHHHHHHHHHHhc-CHHHHHHHH
Confidence            443 345677776666543 344444333

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.41  E-value=2.9e-08  Score=105.51  Aligned_cols=549  Identities=11%  Similarity=-0.002  Sum_probs=306.0

Q ss_pred             ChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHH
Q 004744           96 NLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDL  175 (732)
Q Consensus        96 ~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  175 (732)
                      +...|.+.|+.+....+.   +..++......|++....+.|.......-+..   +..          .|   ...|--
T Consensus       507 Dm~RA~kCf~KAFeLDat---daeaaaa~adtyae~~~we~a~~I~l~~~qka---~a~----------~~---k~nW~~  567 (1238)
T KOG1127|consen  507 DMKRAKKCFDKAFELDAT---DAEAAAASADTYAEESTWEEAFEICLRAAQKA---PAF----------AC---KENWVQ  567 (1238)
T ss_pred             HHHHHHHHHHHHhcCCch---hhhhHHHHHHHhhccccHHHHHHHHHHHhhhc---hHH----------HH---Hhhhhh
Confidence            555677777766554433   67889999999999999999988744332211   000          00   122333


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 004744          176 VIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHK  255 (732)
Q Consensus       176 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  255 (732)
                      ++-.|.+.++...|+.-|+...+..|. |..+|..++.+|.+.|++..|.++|.++...+ |.+.+.---.....|..|+
T Consensus       568 rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~Lr-P~s~y~~fk~A~~ecd~Gk  645 (1238)
T KOG1127|consen  568 RGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLLR-PLSKYGRFKEAVMECDNGK  645 (1238)
T ss_pred             ccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhcC-cHhHHHHHHHHHHHHHhhh
Confidence            556688899999999999999998877 89999999999999999999999999887654 3344443344556788899


Q ss_pred             hhHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhh-------CCCCCCHhhHHHHHHHHHh
Q 004744          256 IDSAKMFLCEMEQKG------VYPDTVTYNTLINAYCREGFLEEAFQLMNSMSG-------KGLKPGVFTYNSLINGLCK  322 (732)
Q Consensus       256 ~~~A~~~~~~~~~~g------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-------~g~~p~~~~~~~li~~~~~  322 (732)
                      +.+|...++.....-      ..--+.++-.+...+.-.|-..+|.+.+++.++       .....+...|..+..    
T Consensus       646 Ykeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asd----  721 (1238)
T KOG1127|consen  646 YKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASD----  721 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhH----
Confidence            999999988876531      011122333333333444555555555554432       211223333333332    


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCH---h---HHHHHHHHHHhCCCCCCHhHHHHHHHHHHh----
Q 004744          323 KGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENM---S---EAEEIFCEMSRRGVAPDIVSFSTLIGIFSR----  392 (732)
Q Consensus       323 ~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~---~---~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~----  392 (732)
                            |..+|-+.. .. .|+......+..-.-..+..   |   -+.+.+-.-.+  ...+..+|..++..|.+    
T Consensus       722 ------ac~~f~q~e-~~-~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l~~~~~~WyNLGinylr~f~~  791 (1238)
T KOG1127|consen  722 ------ACYIFSQEE-PS-IVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--LAIHMYPWYNLGINYLRYFLL  791 (1238)
T ss_pred             ------HHHHHHHhc-cc-chHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--HhhccchHHHHhHHHHHHHHH
Confidence                  233333322 11 22222222222212222222   1   11111111111  11134455555544433    


Q ss_pred             ----CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 004744          393 ----NGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTE  468 (732)
Q Consensus       393 ----~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  468 (732)
                          ..+...|...+.+..+.. .-+..+|+.|.-. ...|.+.-|...|-+-....+ ....+|..+...+.+..+++.
T Consensus       792 l~et~~~~~~Ai~c~KkaV~L~-ann~~~WnaLGVl-sg~gnva~aQHCfIks~~sep-~~~~~W~NlgvL~l~n~d~E~  868 (1238)
T KOG1127|consen  792 LGETMKDACTAIRCCKKAVSLC-ANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSEP-TCHCQWLNLGVLVLENQDFEH  868 (1238)
T ss_pred             cCCcchhHHHHHHHHHHHHHHh-hccHHHHHHHHHh-hccchhhhhhhhhhhhhhccc-cchhheeccceeEEecccHHH
Confidence                122346777777776542 2255677766654 555677777666665555433 367788888888888999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          469 ADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQ----KSIKPDIVTYNTLIDGFCKVGEMEKANKLWA  544 (732)
Q Consensus       469 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  544 (732)
                      |...|...+...+. |...|..........|+.-++..+|..--.    .|--++..-|..........|+.++-+...+
T Consensus       869 A~~af~~~qSLdP~-nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~  947 (1238)
T KOG1127|consen  869 AEPAFSSVQSLDPL-NLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTAR  947 (1238)
T ss_pred             hhHHHHhhhhcCch-hhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhh
Confidence            99999888877554 667777777667778888888888876221    2223344444333344455565554333332


Q ss_pred             H----------HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHH----HHHHHHHcCCHHHH
Q 004744          545 D----------MISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGK-GIKPTLVSCNT----IIKGYCRSGDASKA  609 (732)
Q Consensus       545 ~----------~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~----l~~~~~~~g~~~~A  609 (732)
                      +          ... +.+.+...|.......-..+.+.+|.++..+.+.. ....|...|+.    +.+.++..|.++.|
T Consensus       948 ki~sAs~al~~yf~-~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A 1026 (1238)
T KOG1127|consen  948 KISSASLALSYYFL-GHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESA 1026 (1238)
T ss_pred             hhhhhHHHHHHHHh-cCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhH
Confidence            2          222 34446667777777777777777777776665421 11233444442    23344455666655


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          610 DEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQ-GLVPDV-ITYNVILTGFCRQGRMHDSELILWRMI  687 (732)
Q Consensus       610 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~  687 (732)
                      ..-+.....   ..+......-+.. .-.++++++.+.|+++..- +-..|. +....++......+.-+.|...+-+..
T Consensus      1027 ~~a~~~~~~---evdEdi~gt~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~ 1102 (1238)
T KOG1127|consen 1027 KKASWKEWM---EVDEDIRGTDLTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVK 1102 (1238)
T ss_pred             hhhhcccch---hHHHHHhhhhHHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHH
Confidence            444332211   1111111111111 2246677777777776651 111122 233444444455566666665555544


Q ss_pred             H
Q 004744          688 E  688 (732)
Q Consensus       688 ~  688 (732)
                      .
T Consensus      1103 ~ 1103 (1238)
T KOG1127|consen 1103 S 1103 (1238)
T ss_pred             H
Confidence            4

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.39  E-value=3.4e-10  Score=109.49  Aligned_cols=201  Identities=13%  Similarity=0.129  Sum_probs=151.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004744          519 DIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIK  598 (732)
Q Consensus       519 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  598 (732)
                      ....+..+...+...|++++|.+.+++..+.. +.+...+..+...|...|++++|.+.+++..+.. +.+...+..+..
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~  107 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            34556667777777888888888888777653 3356677777788888888888888888887764 455667777788


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 004744          599 GYCRSGDASKADEFLSKMVSEGV-DPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMH  677 (732)
Q Consensus       599 ~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~  677 (732)
                      .+...|++++|.+.++++..... ......+..+...+...|++++|...+++..+.. +.+...+..++..+...|+++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHH
Confidence            88888888888888888876422 2234566677888888999999999999988742 224567788888888999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          678 DSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       678 ~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      +|...++++.+. .+.+...+..++..+...|+.++|..+.+.+.+
T Consensus       187 ~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       187 DARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            999999998874 223557777788888889999999988887764

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.39  E-value=5.8e-11  Score=109.90  Aligned_cols=235  Identities=9%  Similarity=0.055  Sum_probs=190.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004744          486 YTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGY  565 (732)
Q Consensus       486 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  565 (732)
                      .--+.+..+|.+.|.+.+|...++..++.  .|-+.||..|-..|.+..+++.|+.++.+-++. ++-|+.....+...+
T Consensus       224 wWk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~  300 (478)
T KOG1129|consen  224 WWKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIH  300 (478)
T ss_pred             HHHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHH
Confidence            33466788889999999999998888776  456778888888999999999999999888876 344555556677788


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 004744          566 CSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAF  645 (732)
Q Consensus       566 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  645 (732)
                      -..++.++|.++|+...+.. +.++....++...|.-.++.+-|..+|++++..|+. +...|+.+.-+|...+++|-++
T Consensus       301 eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L  378 (478)
T KOG1129|consen  301 EAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVL  378 (478)
T ss_pred             HHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhH
Confidence            88899999999999988874 667777777888888889999999999999998865 7778888888888899999999


Q ss_pred             HHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          646 ALVSKMENQGLVPD--VITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-RSTYTTLINGHVSQNNLKEAFRFHDEML  722 (732)
Q Consensus       646 ~~~~~~~~~g~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~  722 (732)
                      .-|+++...--.|+  ..+|..+.......|++.-|.+.|+-++.  -+|+ .+.++.|.-.-.+.|+.++|..+++...
T Consensus       379 ~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~--~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~  456 (478)
T KOG1129|consen  379 PSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALT--SDAQHGEALNNLAVLAARSGDILGARSLLNAAK  456 (478)
T ss_pred             HHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhc--cCcchHHHHHhHHHHHhhcCchHHHHHHHHHhh
Confidence            99998887433444  35788888888888999999999998887  4454 5889999888889999999999998876


Q ss_pred             HCCCCCC
Q 004744          723 QRGFVPD  729 (732)
Q Consensus       723 ~~g~~pd  729 (732)
                        .+.|+
T Consensus       457 --s~~P~  461 (478)
T KOG1129|consen  457 --SVMPD  461 (478)
T ss_pred             --hhCcc
Confidence              44454

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.39  E-value=2.5e-10  Score=110.35  Aligned_cols=199  Identities=13%  Similarity=0.068  Sum_probs=126.2

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      ...+..++..|...|++++|.+.|+++.+..+. +...+..+...+...|++++|.+.|++..+.. +.+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPD-DYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            556777778888888888888888887776544 56677777777777788888888887777654 4455566666777


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhH
Q 004744          250 LCKDHKIDSAKMFLCEMEQKGVYP-DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDR  328 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  328 (732)
                      +...|++++|.+.+++.......+ ....+..+...+.+.|++++|.+.+++....... +...+..+...+...|++++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ-RPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCHHH
Confidence            777777777777777776542111 2334555666666667777777766666654322 34455566666666666666


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHH
Q 004744          329 AKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMS  372 (732)
Q Consensus       329 A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  372 (732)
                      |...+++..+. .+.+...+..++..+...|+.++|..+.+.+.
T Consensus       188 A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  230 (234)
T TIGR02521       188 ARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQ  230 (234)
T ss_pred             HHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            66666666554 13334444445555555566666655555443

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=99.39  E-value=1.5e-08  Score=101.92  Aligned_cols=459  Identities=15%  Similarity=0.117  Sum_probs=225.9

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH--HHHH--HH
Q 004744          212 LGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTL--INAY--CR  287 (732)
Q Consensus       212 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l--i~~~--~~  287 (732)
                      +..+.+.|++++|.+....++..+ +.+...+..=+-++++.+++++|+.+.+.-...      .+++..  =.+|  .+
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~------~~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL------LVINSFFFEKAYCEYR   91 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh------hhcchhhHHHHHHHHH
Confidence            445556667777777777776654 556666666666677777777777544332211      111111  2233  35


Q ss_pred             cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHh--HHHHHHHHHcCCCHhHHH
Q 004744          288 EGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTAT--YNTLLVESCRKENMSEAE  365 (732)
Q Consensus       288 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~--~~~li~~~~~~g~~~~A~  365 (732)
                      .+..++|+..++-....    +..+...-...+.+.|++++|..+|+.+.+.+. +|...  -..++..    +....+.
T Consensus        92 lnk~Dealk~~~~~~~~----~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~-dd~d~~~r~nl~a~----~a~l~~~  162 (652)
T KOG2376|consen   92 LNKLDEALKTLKGLDRL----DDKLLELRAQVLYRLERYDEALDIYQHLAKNNS-DDQDEERRANLLAV----AAALQVQ  162 (652)
T ss_pred             cccHHHHHHHHhccccc----chHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-chHHHHHHHHHHHH----HHhhhHH
Confidence            66777777776622211    233444445566677777777777777765542 22111  1111110    0000110


Q ss_pred             HHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 004744          366 EIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKG  445 (732)
Q Consensus       366 ~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  445 (732)
                       +.+..... ...+-..+......+...|++.+|+++++...+.+..           .++ .++..  .   +     +
T Consensus       163 -~~q~v~~v-~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e-----------~l~-~~d~~--e---E-----e  218 (652)
T KOG2376|consen  163 -LLQSVPEV-PEDSYELLYNTACILIENGKYNQAIELLEKALRICRE-----------KLE-DEDTN--E---E-----E  218 (652)
T ss_pred             -HHHhccCC-CcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH-----------hhc-ccccc--h---h-----h
Confidence             11111111 0111222223344455666666666666665322100           000 00000  0   0     0


Q ss_pred             CCcCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH----HHHHHHHHHHhcCCH-H-HHHHHHHHHHHC----
Q 004744          446 CVMDV-VTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFY----TFTTLIHGHCKDGNM-N-KALNLFDIMTQK----  514 (732)
Q Consensus       446 ~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~----~~~~li~~~~~~g~~-~-~A~~~~~~~~~~----  514 (732)
                      +..+. ..--.+...+...|+.++|..++...++.... |..    .-|.|+..- ...++ + .++..++.....    
T Consensus       219 ie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~~-D~~~~Av~~NNLva~~-~d~~~~d~~~l~~k~~~~~~l~~~  296 (652)
T KOG2376|consen  219 IEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRNPA-DEPSLAVAVNNLVALS-KDQNYFDGDLLKSKKSQVFKLAEF  296 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhcCC-CchHHHHHhcchhhhc-cccccCchHHHHHHHHHHHHhHHH
Confidence            00000 01122334455566666666666666655432 321    122222211 11111 1 111122111110    


Q ss_pred             -------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-hcCCHHHHHHHHHHHHhCCC
Q 004744          515 -------SIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYC-SMGHVTEAFRLWYEMVGKGI  586 (732)
Q Consensus       515 -------~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~-~~g~~~~A~~~~~~~~~~~~  586 (732)
                             ...-....-+.++..|.  +..+.+.++......  ..|....-+.+..++. +...+.+|.+++...-+...
T Consensus       297 ~l~~Ls~~qk~~i~~N~~lL~l~t--nk~~q~r~~~a~lp~--~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p  372 (652)
T KOG2376|consen  297 LLSKLSKKQKQAIYRNNALLALFT--NKMDQVRELSASLPG--MSPESLFPILLQEATKVREKKHKKAIELLLQFADGHP  372 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHh--hhHHHHHHHHHhCCc--cCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCC
Confidence                   00001111123333332  344555554443332  2333333333333332 22357788888887766532


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHH--------HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CC
Q 004744          587 KPTLVSCNTIIKGYCRSGDASKADEFLS--------KMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQ--GL  656 (732)
Q Consensus       587 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~--------~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--g~  656 (732)
                      .....+.-.++......|+++.|.+++.        .+.+.+..|.  +-..+...+.+.++-+-|..++.+++..  .-
T Consensus       373 ~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~--~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~  450 (652)
T KOG2376|consen  373 EKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPG--TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQ  450 (652)
T ss_pred             chhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChh--HHHHHHHHHHhccCCccHHHHHHHHHHHHHHh
Confidence            2224555566677788999999999999        5555444444  4456777788888877787777777651  01


Q ss_pred             CCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          657 VPDV----ITYNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTLINGHVSQNNLKEAFRFHDEM  721 (732)
Q Consensus       657 ~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m  721 (732)
                      .+..    .++..++..-.+.|+-++|...++++.+  ..| |......++.+|++. +.+.|..+-+.+
T Consensus       451 ~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k--~n~~d~~~l~~lV~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  451 QTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVK--FNPNDTDLLVQLVTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             cccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHH--hCCchHHHHHHHHHHHHhc-CHHHHHHHhhcC
Confidence            1222    2333334444577999999999999999  555 678888999888875 456666554443

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.38  E-value=4.4e-11  Score=110.64  Aligned_cols=233  Identities=12%  Similarity=0.018  Sum_probs=193.4

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 004744          171 LIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNAL  250 (732)
Q Consensus       171 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  250 (732)
                      .--.-++++|.+.|.+.+|...|+..++.  .|-+.+|-.|-++|.+..+.+.|+.+|.+.+.. +|-|+....-+.+.+
T Consensus       224 wWk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~  300 (478)
T KOG1129|consen  224 WWKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIH  300 (478)
T ss_pred             HHHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHH
Confidence            33457889999999999999999998887  456778888899999999999999999998875 355666666677888


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHH
Q 004744          251 CKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAK  330 (732)
Q Consensus       251 ~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  330 (732)
                      -..++.++|.+++++..+.... ++.+...+..+|.-.++.|-|+..++++.+-|+. +...|+.+.-+|.-.+++|-++
T Consensus       301 eam~~~~~a~~lYk~vlk~~~~-nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L  378 (478)
T KOG1129|consen  301 EAMEQQEDALQLYKLVLKLHPI-NVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVL  378 (478)
T ss_pred             HHHHhHHHHHHHHHHHHhcCCc-cceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhH
Confidence            8899999999999999887432 6777777888888999999999999999999987 8889999999999999999999


Q ss_pred             HHHHHHHHCCCCCCH--HhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHH
Q 004744          331 EVLDEMLQMGLSPDT--ATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKS  408 (732)
Q Consensus       331 ~~~~~~~~~g~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~  408 (732)
                      ..|.+.+..--.|+.  .+|..+.......|++..|.+.|+-....+.. +...+|.|.-.-.+.|++++|..++.....
T Consensus       379 ~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  379 PSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            999998865444543  36767777777889999999999888776533 677888888888889999999998888765


Q ss_pred             C
Q 004744          409 A  409 (732)
Q Consensus       409 ~  409 (732)
                      .
T Consensus       458 ~  458 (478)
T KOG1129|consen  458 V  458 (478)
T ss_pred             h
Confidence            4

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.37  E-value=3.4e-08  Score=94.88  Aligned_cols=307  Identities=13%  Similarity=0.013  Sum_probs=221.8

Q ss_pred             CCCHHHHHHHHHHH--HHcCCHHHHHHHHHHHHHC-CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 004744          412 VPDNVLYTIIINGY--CRNGFVLEALKMRDEMLEK-GCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTF  488 (732)
Q Consensus       412 ~~~~~~~~~li~~~--~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  488 (732)
                      +|...+....+.++  +-.++-..|...+--+... -++-|+.....+...+...|+.++|+..|++....++. +....
T Consensus       191 ~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy-~i~~M  269 (564)
T KOG1174|consen  191 PDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPD-NVEAM  269 (564)
T ss_pred             CCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChh-hhhhH
Confidence            33333333334433  3345545555444433332 34557888899999999999999999999998765321 22222


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004744          489 TTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSM  568 (732)
Q Consensus       489 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  568 (732)
                      -...-.+.+.|+.+....+...+.... +-....|-.-........+++.|+.+-++.++.... +...+-.-...+.+.
T Consensus       270 D~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~  347 (564)
T KOG1174|consen  270 DLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIAL  347 (564)
T ss_pred             HHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhc
Confidence            233344567889888888877776542 113333333344556678899999999998876432 555666666778899


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHHh-cCCHHHHHH
Q 004744          569 GHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLI-NGFVR-EENMDKAFA  646 (732)
Q Consensus       569 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li-~~~~~-~g~~~~A~~  646 (732)
                      |++++|.-.|+..+... |.+...|..++..|...|.+.+|.-.-+...+. +..+..++..+. ..+.. ..--++|.+
T Consensus       348 ~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKk  425 (564)
T KOG1174|consen  348 ERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKK  425 (564)
T ss_pred             cchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHH
Confidence            99999999999998763 678899999999999999999998887776653 334555555553 33332 233588999


Q ss_pred             HHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 004744          647 LVSKMENQGLVPDV-ITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRG  725 (732)
Q Consensus       647 ~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  725 (732)
                      ++++..+  +.|+. ...+.+...|...|+.++++.++++.+.  ..||....+.|++.+...+.+.+|.+.|...+  .
T Consensus       426 f~ek~L~--~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~AL--r  499 (564)
T KOG1174|consen  426 FAEKSLK--INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKAL--R  499 (564)
T ss_pred             HHHhhhc--cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHH--h
Confidence            9999888  67875 3667788888999999999999999998  89999999999999999999999999998887  3


Q ss_pred             CCCC
Q 004744          726 FVPD  729 (732)
Q Consensus       726 ~~pd  729 (732)
                      +.|.
T Consensus       500 ~dP~  503 (564)
T KOG1174|consen  500 QDPK  503 (564)
T ss_pred             cCcc
Confidence            4443

>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=99.37  E-value=3.3e-08  Score=103.60  Aligned_cols=128  Identities=20%  Similarity=0.167  Sum_probs=69.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 004744          419 TIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKD  498 (732)
Q Consensus       419 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  498 (732)
                      ..+...|...|++++|++..++.++..+. .+..|..-...+-+.|++.+|.+..+.....+.. |...-+..+..+.+.
T Consensus       198 ~~lAqhyd~~g~~~~Al~~Id~aI~htPt-~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa  275 (517)
T PF12569_consen  198 YFLAQHYDYLGDYEKALEYIDKAIEHTPT-LVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRA  275 (517)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHC
Confidence            44455555666666666666666655433 3455555555666666666666666666655443 555555555555666


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCH--------HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          499 GNMNKALNLFDIMTQKSIKPDI--------VTYNTLIDGFCKVGEMEKANKLWADMIS  548 (732)
Q Consensus       499 g~~~~A~~~~~~~~~~~~~~~~--------~~~~~li~~~~~~g~~~~A~~~~~~~~~  548 (732)
                      |++++|..++....+.+..|..        ........+|.+.|++..|++.|..+.+
T Consensus       276 ~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  276 GRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             CCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            6666666666655554322211        1112334556666666666655554443

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=99.36  E-value=8.6e-08  Score=100.52  Aligned_cols=293  Identities=16%  Similarity=0.127  Sum_probs=187.9

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCcc
Q 004744          124 MIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICF  203 (732)
Q Consensus       124 l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  203 (732)
                      ...++...|.+++|+..+.+...                  .......+....+..|.+.|+.++|..+|+.++++++. 
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~------------------~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPd-   70 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEK------------------QILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPD-   70 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhh------------------hCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-
Confidence            34566888999999998876532                  12233566777888999999999999999999999876 


Q ss_pred             CHHHHHHHHHHHHHcC-----ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh-hHHHHHHHHHHhCCCCCCHHH
Q 004744          204 SINACNSLLGGLVKIG-----WVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKI-DSAKMFLCEMEQKGVYPDTVT  277 (732)
Q Consensus       204 ~~~~~~~ll~~~~~~g-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~g~~p~~~~  277 (732)
                      |..-|..+..++.-..     ..+...++|+++...-  |.......+.-.+.....+ ..+...+..+..+|++   .+
T Consensus        71 n~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---sl  145 (517)
T PF12569_consen   71 NYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SL  145 (517)
T ss_pred             cHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hH
Confidence            7777777777763332     5677788888776542  3222222222112222223 2455667777777754   24


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhC----C----------CCCCH--hhHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 004744          278 YNTLINAYCREGFLEEAFQLMNSMSGK----G----------LKPGV--FTYNSLINGLCKKGRCDRAKEVLDEMLQMGL  341 (732)
Q Consensus       278 ~~~li~~~~~~g~~~~A~~~~~~m~~~----g----------~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~  341 (732)
                      ++.|-..|......+-..+++......    +          -.|..  .++..+...|-..|++++|++.+++.++.  
T Consensus       146 F~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--  223 (517)
T PF12569_consen  146 FSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--  223 (517)
T ss_pred             HHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--
Confidence            566666666554544455555554321    1          12233  34455566677888888888888888776  


Q ss_pred             CCC-HHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHH----
Q 004744          342 SPD-TATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNV----  416 (732)
Q Consensus       342 ~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~----  416 (732)
                      .|+ +..|..-...+-+.|++.+|.+.++.....+.. |...=+..+..+.+.|++++|.+++....+.+..|...    
T Consensus       224 tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~m  302 (517)
T PF12569_consen  224 TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDM  302 (517)
T ss_pred             CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHH
Confidence            344 456777777788888888888888888776544 66666677777788888888888887776655422221    


Q ss_pred             --HH--HHHHHHHHHcCCHHHHHHHHHHHHH
Q 004744          417 --LY--TIIINGYCRNGFVLEALKMRDEMLE  443 (732)
Q Consensus       417 --~~--~~li~~~~~~g~~~~A~~~~~~~~~  443 (732)
                        .|  .....+|.+.|++..|++.|..+.+
T Consensus       303 Qc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  303 QCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence              11  3345667777777777766655544

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.33  E-value=8.3e-10  Score=113.86  Aligned_cols=236  Identities=17%  Similarity=0.179  Sum_probs=161.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CC-CCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHC-----CCC--
Q 004744          487 TFTTLIHGHCKDGNMNKALNLFDIMTQK-----SI-KPDIVT-YNTLIDGFCKVGEMEKANKLWADMISR-----KIS--  552 (732)
Q Consensus       487 ~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~-~~~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~~--  552 (732)
                      +...+...|...|+++.|..+++..++.     |. .|...+ .+.+...|...+++++|..+|+++...     |..  
T Consensus       201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~  280 (508)
T KOG1840|consen  201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHP  280 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            4445666667777777777766665543     11 122222 233566777788888888888777642     111  


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHC---CCC
Q 004744          553 PNYISYGILINGYCSMGHVTEAFRLWYEMVGK-----G-IKPTL-VSCNTIIKGYCRSGDASKADEFLSKMVSE---GVD  622 (732)
Q Consensus       553 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~-~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~  622 (732)
                      .-..+++.|...|.+.|++++|...++...+.     | ..|.+ ..++.++..++..+++++|..++++..+.   -+.
T Consensus       281 ~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g  360 (508)
T KOG1840|consen  281 AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPG  360 (508)
T ss_pred             HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcc
Confidence            11235666677788888888877777765432     1 12222 23556677788889999999988877653   122


Q ss_pred             CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----C-CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH---
Q 004744          623 PD----SISYNTLINGFVREENMDKAFALVSKMENQ-----G-LVPD-VITYNVILTGFCRQGRMHDSELILWRMIE---  688 (732)
Q Consensus       623 ~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----g-~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---  688 (732)
                      ++    ..+++.|...|.+.|++++|.+++++++..     | ..+. ...++.|...|.+.++.++|.++|.+...   
T Consensus       361 ~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~  440 (508)
T KOG1840|consen  361 EDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMK  440 (508)
T ss_pred             ccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHH
Confidence            22    357889999999999999999999998762     1 1222 34678889999999999999999988654   


Q ss_pred             -cCC-CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          689 -KGL-NPDR-STYTTLINGHVSQNNLKEAFRFHDEML  722 (732)
Q Consensus       689 -~g~-~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~  722 (732)
                       .|. .|+. .+|..|+..|.+.|++++|.++.+.+.
T Consensus       441 ~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  441 LCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence             222 2343 789999999999999999999988876

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.33  E-value=4.2e-08  Score=100.58  Aligned_cols=131  Identities=16%  Similarity=0.152  Sum_probs=68.4

Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHH
Q 004744          254 HKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVL  333 (732)
Q Consensus       254 g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  333 (732)
                      .++.+|+.+|-+--      +   -...|.+|....+|++|+.+-+..   |.+.-...-.+.++++...|+-++|-++-
T Consensus       545 kkfk~ae~ifleqn------~---te~aigmy~~lhkwde~i~lae~~---~~p~~eklk~sy~q~l~dt~qd~ka~elk  612 (1636)
T KOG3616|consen  545 KKFKEAEMIFLEQN------A---TEEAIGMYQELHKWDEAIALAEAK---GHPALEKLKRSYLQALMDTGQDEKAAELK  612 (1636)
T ss_pred             hhhhHHHHHHHhcc------c---HHHHHHHHHHHHhHHHHHHHHHhc---CChHHHHHHHHHHHHHHhcCchhhhhhhc
Confidence            45667776664321      1   123466777777888887765532   22222223344555666667766665432


Q ss_pred             HHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 004744          334 DEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMK  407 (732)
Q Consensus       334 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~  407 (732)
                          ..    +..+ .+.|..|.+.|.+-.|.+....-..  +..|......+..++.+..-+++|-++|+++.
T Consensus       613 ----~s----dgd~-laaiqlyika~~p~~a~~~a~n~~~--l~~de~il~~ia~alik~elydkagdlfeki~  675 (1636)
T KOG3616|consen  613 ----ES----DGDG-LAAIQLYIKAGKPAKAARAALNDEE--LLADEEILEHIAAALIKGELYDKAGDLFEKIH  675 (1636)
T ss_pred             ----cc----cCcc-HHHHHHHHHcCCchHHHHhhcCHHH--hhccHHHHHHHHHHHHhhHHHHhhhhHHHHhh
Confidence                11    1111 2356777788877776654321111  11245555555555555555666666665543

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.26  E-value=3.5e-09  Score=105.14  Aligned_cols=224  Identities=13%  Similarity=-0.042  Sum_probs=146.8

Q ss_pred             HhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHH
Q 004744          129 VRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINAC  208 (732)
Q Consensus       129 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  208 (732)
                      ...+..+.++.-+.+++.+....              .+..+..|..++..|.+.|+.++|+..|+++++..+. +...|
T Consensus        37 ~~~~~~e~~i~~~~~~l~~~~~~--------------~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~  101 (296)
T PRK11189         37 QPTLQQEVILARLNQILASRDLT--------------DEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD-MADAY  101 (296)
T ss_pred             CCchHHHHHHHHHHHHHccccCC--------------cHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHH
Confidence            33455666777777776432111              1123566888888899999999999999999888766 78889


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 004744          209 NSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCRE  288 (732)
Q Consensus       209 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~  288 (732)
                      +.+...+...|++++|.+.|+++++.. |.+..++..+..++...|++++|.+.|++..+..  |+..........+...
T Consensus       102 ~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~  178 (296)
T PRK11189        102 NYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESK  178 (296)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHcc
Confidence            999999999999999999999988764 5566778888888888899999999998888774  3332222222223456


Q ss_pred             CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCC---C---CCCHHhHHHHHHHHHcCCCHh
Q 004744          289 GFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMG---L---SPDTATYNTLLVESCRKENMS  362 (732)
Q Consensus       289 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g---~---~~~~~~~~~li~~~~~~g~~~  362 (732)
                      ++.++|.+.|++..... .|+.  |. ........|+..++ +.+..+.+..   .   +....+|..+...+.+.|+++
T Consensus       179 ~~~~~A~~~l~~~~~~~-~~~~--~~-~~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~  253 (296)
T PRK11189        179 LDPKQAKENLKQRYEKL-DKEQ--WG-WNIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLD  253 (296)
T ss_pred             CCHHHHHHHHHHHHhhC-Cccc--cH-HHHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHH
Confidence            78888888887655432 2222  22 12233345665554 3444444210   0   112235666677777777777


Q ss_pred             HHHHHHHHHHhCC
Q 004744          363 EAEEIFCEMSRRG  375 (732)
Q Consensus       363 ~A~~~~~~~~~~g  375 (732)
                      +|...|++..+.+
T Consensus       254 ~A~~~~~~Al~~~  266 (296)
T PRK11189        254 EAAALFKLALANN  266 (296)
T ss_pred             HHHHHHHHHHHhC
Confidence            7777777776654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.26  E-value=2e-09  Score=111.15  Aligned_cols=236  Identities=19%  Similarity=0.199  Sum_probs=161.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHc-----C-CCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHC-----CCC-C
Q 004744          452 TYNTILNGLCRAKMLTEADDLFNEMLER-----G-VFPDFYT-FTTLIHGHCKDGNMNKALNLFDIMTQK-----SIK-P  518 (732)
Q Consensus       452 ~~~~li~~~~~~~~~~~A~~~~~~~~~~-----~-~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~~-~  518 (732)
                      +...+...|...|+++.|+.+++..++.     | ..|...+ .+.+...|...+++++|..+|+++...     |.. |
T Consensus       201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~  280 (508)
T KOG1840|consen  201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHP  280 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            3444566666666666666666665543     1 1122222 234666777788888888888777642     111 1


Q ss_pred             -CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CC-CCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCC
Q 004744          519 -DIVTYNTLIDGFCKVGEMEKANKLWADMISR-----KI-SPNYI-SYGILINGYCSMGHVTEAFRLWYEMVGK---GIK  587 (732)
Q Consensus       519 -~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~-~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~  587 (732)
                       -..+++.|...|.+.|++++|...+++..+-     +. .|.+. .++.++..++..+++++|..++....+.   -+.
T Consensus       281 ~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g  360 (508)
T KOG1840|consen  281 AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPG  360 (508)
T ss_pred             HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcc
Confidence             2245566667788888888877777665532     11 12222 3566777888899999999888876543   112


Q ss_pred             CC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----C-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---
Q 004744          588 PT----LVSCNTIIKGYCRSGDASKADEFLSKMVSE-----G-VDP-DSISYNTLINGFVREENMDKAFALVSKMEN---  653 (732)
Q Consensus       588 ~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~-~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---  653 (732)
                      ++    ..+++.+...|.+.|++++|.+++++++..     | ..+ ....++.|...|.+.+++++|.++|.+...   
T Consensus       361 ~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~  440 (508)
T KOG1840|consen  361 EDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMK  440 (508)
T ss_pred             ccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHH
Confidence            22    357889999999999999999999998753     1 112 245678889999999999999999988655   


Q ss_pred             -CCC-CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          654 -QGL-VPDV-ITYNVILTGFCRQGRMHDSELILWRMI  687 (732)
Q Consensus       654 -~g~-~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~  687 (732)
                       .|. .|+. .+|..|+..|...|++++|+++.+...
T Consensus       441 ~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  441 LCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence             221 2343 589999999999999999999988876

>PF13041 PPR_2: PPR repeat family

Probab=99.24  E-value=2.1e-11  Score=84.15  Aligned_cols=49  Identities=59%  Similarity=1.123  Sum_probs=30.0

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHH
Q 004744          273 PDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLC  321 (732)
Q Consensus       273 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  321 (732)
                      ||+++||++|++|++.|++++|.++|++|.+.|+.||..||+.++++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4556666666666666666666666666666666666666666666554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.23  E-value=1e-06  Score=91.95  Aligned_cols=448  Identities=15%  Similarity=0.153  Sum_probs=235.7

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004744          173 FDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCK  252 (732)
Q Consensus       173 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  252 (732)
                      |+.|=+.|..+|++++|+++-+.=-+..   -..+|.....-+-..++.+.|++.|+..   |. +--..+..|.     
T Consensus       829 ~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~AleyyEK~---~~-hafev~rmL~-----  896 (1416)
T KOG3617|consen  829 YDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEAALEYYEKA---GV-HAFEVFRMLK-----  896 (1416)
T ss_pred             HHHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHHHHHHHHhc---CC-hHHHHHHHHH-----
Confidence            5566677889999999999876432221   2357777788888889999999999854   21 1111221111     


Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHH
Q 004744          253 DHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEV  332 (732)
Q Consensus       253 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  332 (732)
                       .++..-+...+++.      |...|.--..-+-..|+++.|+.++.....         |-++++..|-.|+.++|-++
T Consensus       897 -e~p~~~e~Yv~~~~------d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~i  960 (1416)
T KOG3617|consen  897 -EYPKQIEQYVRRKR------DESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARI  960 (1416)
T ss_pred             -hChHHHHHHHHhcc------chHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHH
Confidence             12222233333332      344444444445557888888888876543         56677777788888888877


Q ss_pred             HHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHH-------------Hh--CCCHH
Q 004744          333 LDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIF-------------SR--NGQLD  397 (732)
Q Consensus       333 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~-------------~~--~g~~~  397 (732)
                      -++      .-|..+...|.+.|-..|++.+|...|.+...         +...|+.+             .-  ..+.-
T Consensus       961 A~e------sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnAIRlcKEnd~~d~L~nlal~s~~~d~v 1025 (1416)
T KOG3617|consen  961 AEE------SGDKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNAIRLCKENDMKDRLANLALMSGGSDLV 1025 (1416)
T ss_pred             HHh------cccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHHHHHHHhcCHHHHHHHHHhhcCchhHH
Confidence            665      23566666678888888888888887766532         11122211             11  11222


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH--------HHHC--CCCcCHHHHHHHHHHHHhcCCHH
Q 004744          398 RALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDE--------MLEK--GCVMDVVTYNTILNGLCRAKMLT  467 (732)
Q Consensus       398 ~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~--------~~~~--~~~~~~~~~~~li~~~~~~~~~~  467 (732)
                      .|-++|++.-   .     -....+..|-+.|.+.+|+++--+        ++..  ....|+...+.-.+.++...+++
T Consensus      1026 ~aArYyEe~g---~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qye 1097 (1416)
T KOG3617|consen 1026 SAARYYEELG---G-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYE 1097 (1416)
T ss_pred             HHHHHHHHcc---h-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHH
Confidence            3334443321   0     011233456666666666654221        1111  22345555666666666666666


Q ss_pred             HHHHHHHHHHHc----------C----------------CCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 004744          468 EADDLFNEMLER----------G----------------VFPDF----YTFTTLIHGHCKDGNMNKALNLFDIMTQKSIK  517 (732)
Q Consensus       468 ~A~~~~~~~~~~----------~----------------~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  517 (732)
                      +|..++....+.          |                -.|+.    .....+...|.++|.+..|-+-|.+.-.+   
T Consensus      1098 kAV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQAGdK--- 1174 (1416)
T KOG3617|consen 1098 KAVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQAGDK--- 1174 (1416)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHhhhhhH---
Confidence            666655443321          1                11222    23444556666777777666666544321   


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHH---------H----HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 004744          518 PDIVTYNTLIDGFCKVGEMEKANK---------L----WADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGK  584 (732)
Q Consensus       518 ~~~~~~~~li~~~~~~g~~~~A~~---------~----~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  584 (732)
                            -..+.++.|.|+.++..-         +    -+-+...+...++.+..-++..|.+..-++.--..|+.....
T Consensus      1175 ------l~AMraLLKSGdt~KI~FFAn~sRqkEiYImAANyLQtlDWq~~pq~mK~I~tFYTKgqafd~LanFY~~cAqi 1248 (1416)
T KOG3617|consen 1175 ------LSAMRALLKSGDTQKIRFFANTSRQKEIYIMAANYLQTLDWQDNPQTMKDIETFYTKGQAFDHLANFYKSCAQI 1248 (1416)
T ss_pred             ------HHHHHHHHhcCCcceEEEEeeccccceeeeehhhhhhhcccccChHHHhhhHhhhhcchhHHHHHHHHHHHHHh
Confidence                  123445555665543110         0    011112233445555555555554433333332232222111


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-----------cCCHHHHHHHHHHHHH
Q 004744          585 GIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVR-----------EENMDKAFALVSKMEN  653 (732)
Q Consensus       585 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~-----------~g~~~~A~~~~~~~~~  653 (732)
                          ...-|..+-+   ..|-.++|-+.+.++..++  .....++.|-.-..+           ..+..+.+.-...|.+
T Consensus      1249 ----Eiee~q~ydK---a~gAl~eA~kCl~ka~~k~--~~~t~l~~Lq~~~a~vk~~l~~~q~~~eD~~~~i~qc~~lle 1319 (1416)
T KOG3617|consen 1249 ----EIEELQTYDK---AMGALEEAAKCLLKAEQKN--MSTTGLDALQEDLAKVKVQLRKLQIMKEDAADGIRQCTTLLE 1319 (1416)
T ss_pred             ----hHHHHhhhhH---HhHHHHHHHHHHHHHHhhc--chHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhh
Confidence                1111111111   1244566666666665432  122223333222211           1244444555555555


Q ss_pred             CCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004744          654 QGLVPD----VITYNVILTGFCRQGRMHDSELILWRMIEK  689 (732)
Q Consensus       654 ~g~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  689 (732)
                      ....||    ...|..|+..+....++..|.+.+++|..+
T Consensus      1320 ep~ld~~Ir~~~~~a~lie~~v~~k~y~~AyRal~el~~k 1359 (1416)
T KOG3617|consen 1320 EPILDDIIRCTRLFALLIEDHVSRKNYKPAYRALTELQKK 1359 (1416)
T ss_pred             CcCCCCcchhHHHHHHHHHHHHhhhhccHHHHHHHHHhhc
Confidence            433333    357888999999999999999999999984

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.20  E-value=8.4e-08  Score=95.80  Aligned_cols=235  Identities=13%  Similarity=0.131  Sum_probs=156.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH-------
Q 004744          453 YNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNT-------  525 (732)
Q Consensus       453 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-------  525 (732)
                      ...+.+...+..+++.|++.+....+..  -+..-++....+|...|.+.+.........+.|.. ...-|+.       
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r  303 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALAR  303 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHH
Confidence            4556777778888888888888888775  36666777788888888888887777776665433 2222322       


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHHcC
Q 004744          526 LIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTL-VSCNTIIKGYCRSG  604 (732)
Q Consensus       526 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g  604 (732)
                      +..+|.+.++++.|+..|.+.+.....|+..         .+....+++....+...-.  .|.. .-.-.-...+.+.|
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~l---------s~lk~~Ek~~k~~e~~a~~--~pe~A~e~r~kGne~Fk~g  372 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRTPDLL---------SKLKEAEKALKEAERKAYI--NPEKAEEEREKGNEAFKKG  372 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcCHHHH---------HHHHHHHHHHHHHHHHHhh--ChhHHHHHHHHHHHHHhcc
Confidence            3335666778888888888877654433322         2233445555554444332  2222 11122245677888


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHH
Q 004744          605 DASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDV-ITYNVILTGFCRQGRMHDSELIL  683 (732)
Q Consensus       605 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~  683 (732)
                      ++..|+..|.++++.. +-|...|....-+|.+.|.+..|+.-.+..++  +.|+. ..|..-+.++....++++|...|
T Consensus       373 dy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ie--L~p~~~kgy~RKg~al~~mk~ydkAleay  449 (539)
T KOG0548|consen  373 DYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIE--LDPNFIKAYLRKGAALRAMKEYDKALEAY  449 (539)
T ss_pred             CHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHh--cCchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999998888865 44677888888888888888888888888887  45543 46666666777777888888888


Q ss_pred             HHHHHcCCCCCH-HHHHHHHHHHH
Q 004744          684 WRMIEKGLNPDR-STYTTLINGHV  706 (732)
Q Consensus       684 ~~~~~~g~~p~~-~~~~~l~~~~~  706 (732)
                      ++.++  ..|+. .....+.++..
T Consensus       450 ~eale--~dp~~~e~~~~~~rc~~  471 (539)
T KOG0548|consen  450 QEALE--LDPSNAEAIDGYRRCVE  471 (539)
T ss_pred             HHHHh--cCchhHHHHHHHHHHHH
Confidence            88888  66754 33344444443

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.20  E-value=1.9e-08  Score=99.91  Aligned_cols=219  Identities=12%  Similarity=-0.037  Sum_probs=151.3

Q ss_pred             cCChHHHHHHHHHHHHCCC---ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHH
Q 004744          183 ARKLREGSEVFRLLRNKGI---CFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSA  259 (732)
Q Consensus       183 ~g~~~~A~~~~~~~~~~~~---~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  259 (732)
                      .+..+.++..+.+++....   .-....|..+...+.+.|+.++|...|.++++.. |.+...|+.+...+...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            4567788888888886432   2224568888888999999999999999998875 66788899999999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 004744          260 KMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQM  339 (732)
Q Consensus       260 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  339 (732)
                      ...|++..+..+. +..+|..+...+...|++++|.+.|+.....+.  +..........+...++.++|...|.+....
T Consensus       118 ~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P--~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        118 YEAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDDP--NDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--CCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            9999999887433 567788888888899999999999999887643  3221222222334567889999999775543


Q ss_pred             CCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhC---CC--C-CCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCC
Q 004744          340 GLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRR---GV--A-PDIVSFSTLIGIFSRNGQLDRALMYFREMKSAG  410 (732)
Q Consensus       340 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---g~--~-~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~  410 (732)
                      . .++...+ .  ......|+.+.+ +.+..+.+.   .+  . .....|..+...+.+.|++++|...|++..+.+
T Consensus       195 ~-~~~~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        195 L-DKEQWGW-N--IVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             C-CccccHH-H--HHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            2 3332222 2  222335555444 344444321   11  0 123567788888888888888888888887764

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.19  E-value=9.1e-08  Score=87.98  Aligned_cols=290  Identities=15%  Similarity=0.118  Sum_probs=183.5

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH-HHHHHH
Q 004744          173 FDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNI-MVNALC  251 (732)
Q Consensus       173 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~  251 (732)
                      +++.+..+.+..++.+|++++..-.++.++ +....+.|...|....++..|...|+++...  .|...-|.. -...+.
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 FTAVVYRLIRDARYADAIQLLGSELERSPR-SRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHH
Confidence            566677778888999999999988888655 7777888888888999999999999988764  344444432 356777


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCHHHHHHHH--HHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHH
Q 004744          252 KDHKIDSAKMFLCEMEQKGVYPDTVTYNTLI--NAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRA  329 (732)
Q Consensus       252 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li--~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  329 (732)
                      +.+.+.+|..+...|...   |+...-..-+  ......+++..+..+.+.....|   +..+.+.......+.|++++|
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            889999999998887753   2222111111  22345788888888888876532   555666666667789999999


Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCC-------------CH---------------h
Q 004744          330 KEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAP-------------DI---------------V  381 (732)
Q Consensus       330 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~-------------~~---------------~  381 (732)
                      .+-|+...+.+--.....|+..+ +..+.|+.+.|++...+++++|+..             |+               .
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            99999988765444556677544 4556788999999999998877541             11               1


Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 004744          382 SFSTLIGIFSRNGQLDRALMYFREMKSA-GLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGL  460 (732)
Q Consensus       382 ~~~~l~~~~~~~g~~~~A~~l~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  460 (732)
                      .+|.-...+.+.|+++.|.+.+.+|.-+ ....|++|...+.-. -..+++.+..+-+.-++...+- ...|+..++-.|
T Consensus       243 AfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nPf-P~ETFANlLlly  320 (459)
T KOG4340|consen  243 AFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNPF-PPETFANLLLLY  320 (459)
T ss_pred             HhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCCC-ChHHHHHHHHHH
Confidence            1222333345566666666666555322 123344444333211 1123344444444444444332 344555555556


Q ss_pred             HhcCCHHHHHHHHH
Q 004744          461 CRAKMLTEADDLFN  474 (732)
Q Consensus       461 ~~~~~~~~A~~~~~  474 (732)
                      |++.-++-|-.++.
T Consensus       321 CKNeyf~lAADvLA  334 (459)
T KOG4340|consen  321 CKNEYFDLAADVLA  334 (459)
T ss_pred             hhhHHHhHHHHHHh
Confidence            66666665555544

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.18  E-value=2.7e-08  Score=88.49  Aligned_cols=198  Identities=16%  Similarity=0.047  Sum_probs=146.6

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 004744          172 IFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALC  251 (732)
Q Consensus       172 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  251 (732)
                      +..-|.-.|.++|+...|..-++++++..+. +..+|..+...|.+.|..+.|.+.|+.+++.. +.+-.+.|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            3455677788888888888888888888766 67788888888888888888888888888765 666677888888888


Q ss_pred             hcCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHH
Q 004744          252 KDHKIDSAKMFLCEMEQKGVYP-DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAK  330 (732)
Q Consensus       252 ~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  330 (732)
                      ..|++++|...|++....-..+ -..+|..++-...+.|+.+.|.+.|++.++.... ...+...+.....+.|++-.|.
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            8888888888888877652221 2346777777777888888888888888776433 4566677777777888888888


Q ss_pred             HHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHh
Q 004744          331 EVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSR  373 (732)
Q Consensus       331 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  373 (732)
                      ..++.....+. ++....-..|..--..|+.+.+-+.=..+.+
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            88877776653 6666666666666667777766665555444

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.17  E-value=1.9e-07  Score=85.97  Aligned_cols=326  Identities=13%  Similarity=0.122  Sum_probs=216.8

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCC
Q 004744          122 SAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGI  201 (732)
Q Consensus       122 ~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  201 (732)
                      .+.+..+.+-.++.+|++++....++                  .+.+......|+.+|....++..|-+.++++...-+
T Consensus        14 taviy~lI~d~ry~DaI~~l~s~~Er------------------~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P   75 (459)
T KOG4340|consen   14 TAVVYRLIRDARYADAIQLLGSELER------------------SPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHP   75 (459)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhc------------------CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCh
Confidence            44555567788999999988777643                  344566788899999999999999999999987643


Q ss_pred             ccCHHHHHH-HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH--HHHHhcCChhHHHHHHHHHHhCCCCCCHHHH
Q 004744          202 CFSINACNS-LLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMV--NALCKDHKIDSAKMFLCEMEQKGVYPDTVTY  278 (732)
Q Consensus       202 ~~~~~~~~~-ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  278 (732)
                        ...-|.. -...+.+.+.+.+|+.+...|...   ++...-..-+  ......+++..+..+++.....|   +..+.
T Consensus        76 --~~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~  147 (459)
T KOG4340|consen   76 --ELEQYRLYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQ  147 (459)
T ss_pred             --HHHHHHHHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchh
Confidence              3333332 346778899999999999877431   2222211112  23445788889999988877432   55666


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC-------------CCH
Q 004744          279 NTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLS-------------PDT  345 (732)
Q Consensus       279 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~-------------~~~  345 (732)
                      +.......+.|++++|.+-|+...+-+--....+|+..+ +..+.|+++.|++...+++++|+.             ||+
T Consensus       148 in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDv  226 (459)
T KOG4340|consen  148 INLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDV  226 (459)
T ss_pred             ccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCch
Confidence            777777889999999999999998764443566777554 455789999999999999888642             221


Q ss_pred             H---------------hHHHHHHHHHcCCCHhHHHHHHHHHHhCC-CCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHC
Q 004744          346 A---------------TYNTLLVESCRKENMSEAEEIFCEMSRRG-VAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSA  409 (732)
Q Consensus       346 ~---------------~~~~li~~~~~~g~~~~A~~~~~~~~~~g-~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~  409 (732)
                      .               .+|.-...+.+.|+.+.|.+.+..|.-+. ...|++|...+.-. -..+++.+..+-+.-+...
T Consensus       227 rsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~  305 (459)
T KOG4340|consen  227 RSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQ  305 (459)
T ss_pred             hcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhc
Confidence            1               12222334567899999999998885432 34466776655432 2345566666666666666


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          410 GLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCV-MDVVTYNTILNGLCRAKMLTEADDLFNEM  476 (732)
Q Consensus       410 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~~  476 (732)
                      ++ ....|+..++-.||++.-++-|-.++.+-...... .+...|+.+=....-.-..++|.+-++.+
T Consensus       306 nP-fP~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~LLdaLIt~qT~pEea~KKL~~L  372 (459)
T KOG4340|consen  306 NP-FPPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYDLLDALITCQTAPEEAFKKLDGL  372 (459)
T ss_pred             CC-CChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            44 35678999999999999999998887653322111 13333333322222234556665555443

>PF13041 PPR_2: PPR repeat family

Probab=99.17  E-value=7e-11  Score=81.54  Aligned_cols=50  Identities=38%  Similarity=0.727  Sum_probs=31.1

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 004744          238 LNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCR  287 (732)
Q Consensus       238 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~  287 (732)
                      ||+.+||.++++|++.|++++|.++|++|.+.|+.||..||+.+|++|+|
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            55566666666666666666666666666666666666666666666553

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.16  E-value=3.1e-08  Score=88.13  Aligned_cols=209  Identities=12%  Similarity=0.012  Sum_probs=176.7

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 004744          119 MSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRN  198 (732)
Q Consensus       119 ~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  198 (732)
                      .+...+.-.|...|++..|..-++++++.                  .+.+..+|..+...|.+.|..+.|.+.|++++.
T Consensus        36 ~arlqLal~YL~~gd~~~A~~nlekAL~~------------------DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls   97 (250)
T COG3063          36 KARLQLALGYLQQGDYAQAKKNLEKALEH------------------DPSYYLAHLVRAHYYQKLGENDLADESYRKALS   97 (250)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh------------------CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHh
Confidence            34556777889999999999999999853                  567789999999999999999999999999999


Q ss_pred             CCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHH
Q 004744          199 KGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGI-ELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVT  277 (732)
Q Consensus       199 ~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  277 (732)
                      ..+. +....|.....+|.+|++++|...|++++..-. ..-..+|..+.-+..+.|+++.|...|++.++.... ...+
T Consensus        98 l~p~-~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~  175 (250)
T COG3063          98 LAPN-NGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPA  175 (250)
T ss_pred             cCCC-ccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChH
Confidence            8877 889999999999999999999999999987422 223447777888888999999999999999998543 4566


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHH
Q 004744          278 YNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNT  350 (732)
Q Consensus       278 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~  350 (732)
                      .-.+.....+.|++-.|...++.....+. ++..+.-..|+.--..|+.+.+.+.=.++...  .|...-|..
T Consensus       176 ~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~q~  245 (250)
T COG3063         176 LLELARLHYKAGDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEYQT  245 (250)
T ss_pred             HHHHHHHHHhcccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHh
Confidence            77889999999999999999999988876 78888888888888999999888877776654  566655543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.15  E-value=2.7e-07  Score=92.33  Aligned_cols=432  Identities=14%  Similarity=0.068  Sum_probs=245.7

Q ss_pred             HHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCH
Q 004744          126 HFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSI  205 (732)
Q Consensus       126 ~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  205 (732)
                      .+....|++++|..+|.+++.                  ..+.|-+.|..-..+|...|++++|++=-.+-++.++. -.
T Consensus        10 naa~s~~d~~~ai~~~t~ai~------------------l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~-w~   70 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIM------------------LSPTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPD-WA   70 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHc------------------cCCCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCc-hh
Confidence            345678999999999999983                  35567788888899999999999999988888888766 67


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004744          206 NACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAY  285 (732)
Q Consensus       206 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~  285 (732)
                      ..|+....++.-.|++++|+.-|.+-++.. +.|...++-+..++.    .+.+.     +...   -+...|..+..-=
T Consensus        71 kgy~r~Gaa~~~lg~~~eA~~ay~~GL~~d-~~n~~L~~gl~~a~~----~~~~~-----~~~~---~~p~~~~~l~~~p  137 (539)
T KOG0548|consen   71 KGYSRKGAALFGLGDYEEAILAYSEGLEKD-PSNKQLKTGLAQAYL----EDYAA-----DQLF---TKPYFHEKLANLP  137 (539)
T ss_pred             hHHHHhHHHHHhcccHHHHHHHHHHHhhcC-CchHHHHHhHHHhhh----HHHHh-----hhhc---cCcHHHHHhhcCh
Confidence            899999999999999999999999988864 666777777777761    11111     1111   1222232222110


Q ss_pred             HHcC-CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHH-----HHCC-------CCCCHHhHHHHH
Q 004744          286 CREG-FLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEM-----LQMG-------LSPDTATYNTLL  352 (732)
Q Consensus       286 ~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-----~~~g-------~~~~~~~~~~li  352 (732)
                      ...+ ..+.++...-+....+  |+  .    +..|....++..|...+...     ...|       ..|...    -.
T Consensus       138 ~t~~~~~~~~~~~~l~~~~~~--p~--~----l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~----~~  205 (539)
T KOG0548|consen  138 LTNYSLSDPAYVKILEIIQKN--PT--S----LKLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQ----EH  205 (539)
T ss_pred             hhhhhhccHHHHHHHHHhhcC--cH--h----hhcccccHHHHHHHHHHhcCccccccccccccCCCCCCcccc----cC
Confidence            0000 0111111111111111  10  0    01111111111111111000     0000       011100    00


Q ss_pred             HHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH
Q 004744          353 VESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVL  432 (732)
Q Consensus       353 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  432 (732)
                      ...-..++..+-.+     .    .--..-...+.+...+..+++.|.+-+....+..  .+..-++....+|...|.+.
T Consensus       206 ~~~~~~~d~~ee~~-----~----k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~  274 (539)
T KOG0548|consen  206 NGFPIIEDNTEERR-----V----KEKAHKEKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYA  274 (539)
T ss_pred             CCCCccchhHHHHH-----H----HHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHH
Confidence            00000000000000     0    0011224456666667777777777777666653  34444555666677777666


Q ss_pred             HHHHHHHHHHHCCCCcCHHHHHH-------HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 004744          433 EALKMRDEMLEKGCVMDVVTYNT-------ILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKAL  505 (732)
Q Consensus       433 ~A~~~~~~~~~~~~~~~~~~~~~-------li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  505 (732)
                      ++...-++..+.|.. ...-|+.       +...|.+.++++.|+..|.+.......|+..         .+....++++
T Consensus       275 ~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~l---------s~lk~~Ek~~  344 (539)
T KOG0548|consen  275 ECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDLL---------SKLKEAEKAL  344 (539)
T ss_pred             HhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHH---------HHHHHHHHHH
Confidence            666666555555433 2222222       3345566677888888888876654443321         2233445555


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 004744          506 NLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKG  585 (732)
Q Consensus       506 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  585 (732)
                      ...+...-.+... ..-...-...+.+.|++..|...|.++++.. +.|...|....-+|.+.|.+.+|+.-.+..++..
T Consensus       345 k~~e~~a~~~pe~-A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~  422 (539)
T KOG0548|consen  345 KEAERKAYINPEK-AEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD  422 (539)
T ss_pred             HHHHHHHhhChhH-HHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            5554443332221 1112223556778888888888888888875 4478888888888888888888888888877763


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH
Q 004744          586 IKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSIS  627 (732)
Q Consensus       586 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  627 (732)
                       ++....|..-..++....++++|.+.|.+.++..  |+..-
T Consensus       423 -p~~~kgy~RKg~al~~mk~ydkAleay~eale~d--p~~~e  461 (539)
T KOG0548|consen  423 -PNFIKAYLRKGAALRAMKEYDKALEAYQEALELD--PSNAE  461 (539)
T ss_pred             -chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--chhHH
Confidence             4555666666667777788888888888888743  54433

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.15  E-value=6.9e-06  Score=84.83  Aligned_cols=447  Identities=13%  Similarity=0.092  Sum_probs=195.7

Q ss_pred             cChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHh----cCCChhHHHHhhhhhcCCCCCch
Q 004744           95 DNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRK----SGVSRLEIVDSFVSTYSPCGSNS  170 (732)
Q Consensus        95 ~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~  170 (732)
                      +++..|..|++... ..|+   .-..|-.+...-...|++--|.+.|..+-.-    .-..-.++.+.....+.+.+.+.
T Consensus       458 ~df~ra~afles~~-~~~d---a~amw~~laelale~~nl~iaercfaai~dvak~r~lhd~~eiadeas~~~ggdgt~f  533 (1636)
T KOG3616|consen  458 GDFDRATAFLESLE-MGPD---AEAMWIRLAELALEAGNLFIAERCFAAIGDVAKARFLHDILEIADEASIEIGGDGTDF  533 (1636)
T ss_pred             CchHHHHHHHHhhc-cCcc---HHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhCCCCchH
Confidence            56677777765432 2222   3456777777777778777776666433110    00011222232223334444333


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 004744          171 LIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNAL  250 (732)
Q Consensus       171 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  250 (732)
                      .-...++...  ..++.+|..+|-+--         .-..-+..|....++++++.+-+   ..|.|.-...-.+.++++
T Consensus       534 ykvra~lail--~kkfk~ae~ifleqn---------~te~aigmy~~lhkwde~i~lae---~~~~p~~eklk~sy~q~l  599 (1636)
T KOG3616|consen  534 YKVRAMLAIL--EKKFKEAEMIFLEQN---------ATEEAIGMYQELHKWDEAIALAE---AKGHPALEKLKRSYLQAL  599 (1636)
T ss_pred             HHHHHHHHHH--HhhhhHHHHHHHhcc---------cHHHHHHHHHHHHhHHHHHHHHH---hcCChHHHHHHHHHHHHH
Confidence            3222332222  223444444443210         11122334444445555554433   123333333344445555


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHH
Q 004744          251 CKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAK  330 (732)
Q Consensus       251 ~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  330 (732)
                      ...|+-++|-++-    ..    |..+ -+.|..|.+.|..-.|.+....=..  +..|......+..++.+..-+++|-
T Consensus       600 ~dt~qd~ka~elk----~s----dgd~-laaiqlyika~~p~~a~~~a~n~~~--l~~de~il~~ia~alik~elydkag  668 (1636)
T KOG3616|consen  600 MDTGQDEKAAELK----ES----DGDG-LAAIQLYIKAGKPAKAARAALNDEE--LLADEEILEHIAAALIKGELYDKAG  668 (1636)
T ss_pred             HhcCchhhhhhhc----cc----cCcc-HHHHHHHHHcCCchHHHHhhcCHHH--hhccHHHHHHHHHHHHhhHHHHhhh
Confidence            5555554443321    11    1111 2345566666666555544321111  1124444444444444444444444


Q ss_pred             HHHHHHHHC----------------------CCCCCHHhH-HHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHH
Q 004744          331 EVLDEMLQM----------------------GLSPDTATY-NTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLI  387 (732)
Q Consensus       331 ~~~~~~~~~----------------------g~~~~~~~~-~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~  387 (732)
                      .+|+++..-                      .++..+++. ......+...|+++.|..-|-+..         ..-..+
T Consensus       669 dlfeki~d~dkale~fkkgdaf~kaielarfafp~evv~lee~wg~hl~~~~q~daainhfiea~---------~~~kai  739 (1636)
T KOG3616|consen  669 DLFEKIHDFDKALECFKKGDAFGKAIELARFAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEAN---------CLIKAI  739 (1636)
T ss_pred             hHHHHhhCHHHHHHHHHcccHHHHHHHHHHhhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhh---------hHHHHH
Confidence            444443310                      011111111 111222333344444443332221         011223


Q ss_pred             HHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHH
Q 004744          388 GIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLT  467 (732)
Q Consensus       388 ~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  467 (732)
                      .+.....++.+|+.+++.+.+...  -..-|..+.+.|+..|+++.|.++|.+.-         .++-.|.+|.+.|+++
T Consensus       740 eaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~  808 (1636)
T KOG3616|consen  740 EAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWE  808 (1636)
T ss_pred             HHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHH
Confidence            334445555566666555554321  12234455556666666666666654321         2344455566666666


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          468 EADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMI  547 (732)
Q Consensus       468 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  547 (732)
                      +|.++-.+..  |.......|.+-..-+-+.|++.+|.++|-.+.    .|+     ..|.+|-+.|..++.+++..+-.
T Consensus       809 da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k~h  877 (1636)
T KOG3616|consen  809 DAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEKHH  877 (1636)
T ss_pred             HHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHHhC
Confidence            6665544432  233333444444445555666666665554332    123     23455666666666555544322


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 004744          548 SRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFL  613 (732)
Q Consensus       548 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  613 (732)
                      ..   .-..|...+..-|-..|+...|..-|-+..+         |.+-+.+|-..+.+++|.++-
T Consensus       878 ~d---~l~dt~~~f~~e~e~~g~lkaae~~flea~d---------~kaavnmyk~s~lw~dayria  931 (1636)
T KOG3616|consen  878 GD---HLHDTHKHFAKELEAEGDLKAAEEHFLEAGD---------FKAAVNMYKASELWEDAYRIA  931 (1636)
T ss_pred             hh---hhhHHHHHHHHHHHhccChhHHHHHHHhhhh---------HHHHHHHhhhhhhHHHHHHHH
Confidence            11   1122334455555666666666665544321         333444555555555555443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=99.15  E-value=1.3e-05  Score=85.36  Aligned_cols=222  Identities=13%  Similarity=0.132  Sum_probs=146.6

Q ss_pred             cChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHH
Q 004744           95 DNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFD  174 (732)
Q Consensus        95 ~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  174 (732)
                      ++...|++-...+.+.+|+   .+.+-.--.-.+.|.|+.++|..+++..-                  ...+.|..+..
T Consensus        23 ~qfkkal~~~~kllkk~Pn---~~~a~vLkaLsl~r~gk~~ea~~~Le~~~------------------~~~~~D~~tLq   81 (932)
T KOG2053|consen   23 SQFKKALAKLGKLLKKHPN---ALYAKVLKALSLFRLGKGDEALKLLEALY------------------GLKGTDDLTLQ   81 (932)
T ss_pred             HHHHHHHHHHHHHHHHCCC---cHHHHHHHHHHHHHhcCchhHHHHHhhhc------------------cCCCCchHHHH
Confidence            4566777777788888776   23332222234568999999997765542                  12233778899


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 004744          175 LVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDH  254 (732)
Q Consensus       175 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  254 (732)
                      .+..+|...|+.++|..+|+++...  .|+......+..+|++.+++..-.+.--++-+. ++.+.+.+=+++..+...-
T Consensus        82 ~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~  158 (932)
T KOG2053|consen   82 FLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSI  158 (932)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhc
Confidence            9999999999999999999999876  456778888889999998887766655555443 4556665555555444321


Q ss_pred             -C---------hhHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHH-HHHhhCCCCCCHhhHHHHHHHHHh
Q 004744          255 -K---------IDSAKMFLCEMEQKG-VYPDTVTYNTLINAYCREGFLEEAFQLM-NSMSGKGLKPGVFTYNSLINGLCK  322 (732)
Q Consensus       255 -~---------~~~A~~~~~~~~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~-~~m~~~g~~p~~~~~~~li~~~~~  322 (732)
                       .         ..-|.+.++.+.+.+ ..-+..-...-...+-..|.+++|.+++ ....+.-..-+...-+--+..+..
T Consensus       159 ~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~  238 (932)
T KOG2053|consen  159 FSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKL  238 (932)
T ss_pred             cCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHH
Confidence             1         123556666666654 1112222222233455678899999998 344444333344444566777888


Q ss_pred             cCChhHHHHHHHHHHHCC
Q 004744          323 KGRCDRAKEVLDEMLQMG  340 (732)
Q Consensus       323 ~g~~~~A~~~~~~~~~~g  340 (732)
                      .+++.+-.++-.++...|
T Consensus       239 l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  239 LNRWQELFELSSRLLEKG  256 (932)
T ss_pred             hcChHHHHHHHHHHHHhC
Confidence            899999999988888876

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=99.14  E-value=3.6e-07  Score=94.58  Aligned_cols=272  Identities=12%  Similarity=0.009  Sum_probs=156.0

Q ss_pred             hHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 004744          118 SMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLR  197 (732)
Q Consensus       118 ~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  197 (732)
                      ...|..+...+...|+.+++...+.+..+.....               .............+...|++++|...+++..
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l   70 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAAR---------------ATERERAHVEALSAWIAGDLPKALALLEQLL   70 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccC---------------CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5667777777777788888776666665432111               0112223334456677889999999999888


Q ss_pred             HCCCccCHHHHHHHHHHHHH----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC
Q 004744          198 NKGICFSINACNSLLGGLVK----IGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYP  273 (732)
Q Consensus       198 ~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p  273 (732)
                      +..+. +...+.. ...+..    .+....+.+.+... ....+........+...+...|++++|...+++..+.... 
T Consensus        71 ~~~P~-~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~-  146 (355)
T cd05804          71 DDYPR-DLLALKL-HLGAFGLGDFSGMRDHVARVLPLW-APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPD-  146 (355)
T ss_pred             HHCCC-cHHHHHH-hHHHHHhcccccCchhHHHHHhcc-CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-
Confidence            77654 4444442 222222    34455555554431 1122333445556667788888888888888888887533 


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCC-CCH--hhHHHHHHHHHhcCChhHHHHHHHHHHHCCC-CCCHHhH-
Q 004744          274 DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLK-PGV--FTYNSLINGLCKKGRCDRAKEVLDEMLQMGL-SPDTATY-  348 (732)
Q Consensus       274 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~-~~~~~~~-  348 (732)
                      +...+..+...|...|++++|...+++....... |+.  ..|..+...+...|++++|..++++...... .+..... 
T Consensus       147 ~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~  226 (355)
T cd05804         147 DAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLL  226 (355)
T ss_pred             CcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHh
Confidence            5667778888888888888888888887764321 222  2455677788888888888888888754321 1111111 


Q ss_pred             H--HHHHHHHcCCCHhHHHHH--H-HHHHhCCC-CCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHH
Q 004744          349 N--TLLVESCRKENMSEAEEI--F-CEMSRRGV-APDIVSFSTLIGIFSRNGQLDRALMYFREMKS  408 (732)
Q Consensus       349 ~--~li~~~~~~g~~~~A~~~--~-~~~~~~g~-~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~  408 (732)
                      +  .++..+...|..+.+.+.  + ........ ............++...|+.++|..+++.+..
T Consensus       227 ~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~  292 (355)
T cd05804         227 DAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKG  292 (355)
T ss_pred             hHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Confidence            1  222233334433333322  1 11111100 00111122455556667777777777776654

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=99.11  E-value=5.2e-07  Score=93.38  Aligned_cols=202  Identities=9%  Similarity=-0.047  Sum_probs=134.0

Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCC-ccCHH-HHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGI-CFSIN-ACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNI  245 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  245 (732)
                      ..+..+..+...+...|+.++|...+....+... .++.. ........+...|++++|.+.++++.+.. |.+...+..
T Consensus         4 ~~~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~   82 (355)
T cd05804           4 DFALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL   82 (355)
T ss_pred             ccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH
Confidence            4456677777888888888888888877665433 22322 22233445677899999999999988764 555545442


Q ss_pred             HHHHHHh----cCChhHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHH
Q 004744          246 MVNALCK----DHKIDSAKMFLCEMEQKGVYPD-TVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGL  320 (732)
Q Consensus       246 l~~~~~~----~g~~~~A~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  320 (732)
                       ...+..    .+..+.+.+.++....  ..|+ ......+...+...|++++|.+.+++..+.... +...+..+...+
T Consensus        83 -~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~-~~~~~~~la~i~  158 (355)
T cd05804          83 -HLGAFGLGDFSGMRDHVARVLPLWAP--ENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPD-DAWAVHAVAHVL  158 (355)
T ss_pred             -hHHHHHhcccccCchhHHHHHhccCc--CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CcHHHHHHHHHH
Confidence             222222    3445555555544111  2233 334455667788889999999999998887533 566778888888


Q ss_pred             HhcCChhHHHHHHHHHHHCCC-CCCH--HhHHHHHHHHHcCCCHhHHHHHHHHHHhC
Q 004744          321 CKKGRCDRAKEVLDEMLQMGL-SPDT--ATYNTLLVESCRKENMSEAEEIFCEMSRR  374 (732)
Q Consensus       321 ~~~g~~~~A~~~~~~~~~~g~-~~~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~  374 (732)
                      ...|++++|...+++...... .++.  ..|..+...+...|+.++|.+++++....
T Consensus       159 ~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~  215 (355)
T cd05804         159 EMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAP  215 (355)
T ss_pred             HHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc
Confidence            899999999999888876531 1222  24556777888889999998888887543

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=99.08  E-value=2.8e-06  Score=80.03  Aligned_cols=88  Identities=14%  Similarity=0.088  Sum_probs=49.2

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 004744          460 LCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKA  539 (732)
Q Consensus       460 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  539 (732)
                      +.-.|+...|++....+++..+. |...+..-..+|...|++..|+.-++...+..-. +..+.--+-..+...|+.+.+
T Consensus       165 ~~~~GD~~~ai~~i~~llEi~~W-da~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~s  242 (504)
T KOG0624|consen  165 ASGSGDCQNAIEMITHLLEIQPW-DASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENS  242 (504)
T ss_pred             HhcCCchhhHHHHHHHHHhcCcc-hhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHH
Confidence            44456666666666666655433 5555555566666666666666655555443222 333444445555666666666


Q ss_pred             HHHHHHHHHC
Q 004744          540 NKLWADMISR  549 (732)
Q Consensus       540 ~~~~~~~~~~  549 (732)
                      +...++.++.
T Consensus       243 L~~iRECLKl  252 (504)
T KOG0624|consen  243 LKEIRECLKL  252 (504)
T ss_pred             HHHHHHHHcc
Confidence            6666665554

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=99.06  E-value=2.9e-05  Score=77.98  Aligned_cols=151  Identities=11%  Similarity=0.163  Sum_probs=108.6

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          501 MNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISP-NYISYGILINGYCSMGHVTEAFRLWY  579 (732)
Q Consensus       501 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~  579 (732)
                      .+.....+++++......-..+|-.+++.-.+..-+..|..+|.++.+.+..+ ++..+++++.-||. ++.+-|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHH
Confidence            44555556655543222223456667777777777888888888888876666 66777888876664 67888888888


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          580 EMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPD--SISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       580 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      --+++ +..++.--...++.+.+.++-..|+.+|++.+..++.||  ...|..+++--..-|++..++++-+++..
T Consensus       426 LGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  426 LGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            76665 344555556777788888888888888888888755555  46788888888888888888888777765

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.05  E-value=1.1e-05  Score=76.20  Aligned_cols=316  Identities=12%  Similarity=0.035  Sum_probs=172.2

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhH-HHHH
Q 004744          274 DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATY-NTLL  352 (732)
Q Consensus       274 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~-~~li  352 (732)
                      ++.-.--+...+...|++.+|+.-|...++.++. +-.++-.-...|...|+-.-|+.=+.++++.  .||-..- ..-.
T Consensus        37 dvekhlElGk~lla~~Q~sDALt~yHaAve~dp~-~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg  113 (504)
T KOG0624|consen   37 DVEKHLELGKELLARGQLSDALTHYHAAVEGDPN-NYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRG  113 (504)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCch-hHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhc
Confidence            3334445666777778888888888887765211 2223333345677788888888888887775  5664422 2233


Q ss_pred             HHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH
Q 004744          353 VESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVL  432 (732)
Q Consensus       353 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  432 (732)
                      ..+.+.|.+++|..=|+.+++....  ..   ....++.+.-..++-..                ....+..+...|+..
T Consensus       114 ~vllK~Gele~A~~DF~~vl~~~~s--~~---~~~eaqskl~~~~e~~~----------------l~~ql~s~~~~GD~~  172 (504)
T KOG0624|consen  114 VVLLKQGELEQAEADFDQVLQHEPS--NG---LVLEAQSKLALIQEHWV----------------LVQQLKSASGSGDCQ  172 (504)
T ss_pred             hhhhhcccHHHHHHHHHHHHhcCCC--cc---hhHHHHHHHHhHHHHHH----------------HHHHHHHHhcCCchh
Confidence            4567788888888888888776322  11   11111111111111111                222333445567777


Q ss_pred             HHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          433 EALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMT  512 (732)
Q Consensus       433 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  512 (732)
                      .|+.....+++..+- |...+..-..+|...|++..|+.-++...+.... +..++..+-..+...|+.+.++...++.+
T Consensus       173 ~ai~~i~~llEi~~W-da~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECL  250 (504)
T KOG0624|consen  173 NAIEMITHLLEIQPW-DASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECL  250 (504)
T ss_pred             hHHHHHHHHHhcCcc-hhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            777777777775433 6666667777788888888887777666554333 55566666677777888888888887777


Q ss_pred             HCCCCCCHHHHHHH-------------HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH---HHHHHHHHhcCCHHHHHH
Q 004744          513 QKSIKPDIVTYNTL-------------IDGFCKVGEMEKANKLWADMISRKISPNYISY---GILINGYCSMGHVTEAFR  576 (732)
Q Consensus       513 ~~~~~~~~~~~~~l-------------i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~---~~li~~~~~~g~~~~A~~  576 (732)
                      +.  .||....-..             +......++|.++.+..+...+..+....+.+   ..+-.++...|++.+|++
T Consensus       251 Kl--dpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiq  328 (504)
T KOG0624|consen  251 KL--DPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQ  328 (504)
T ss_pred             cc--CcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHH
Confidence            65  3333221111             01122334444444444444443222111111   222233344455555555


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 004744          577 LWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVS  618 (732)
Q Consensus       577 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  618 (732)
                      ...+.++.. +.|+.++.--..+|.-...++.|+.-|+++.+
T Consensus       329 qC~evL~~d-~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  329 QCKEVLDID-PDDVQVLCDRAEAYLGDEMYDDAIHDYEKALE  369 (504)
T ss_pred             HHHHHHhcC-chHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh
Confidence            555555431 22344444445555555555555555555544

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=99.04  E-value=3.7e-05  Score=77.28  Aligned_cols=186  Identities=9%  Similarity=0.099  Sum_probs=119.9

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 004744          536 MEKANKLWADMISRKISPNYISYGILINGYCSMG---HVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEF  612 (732)
Q Consensus       536 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  612 (732)
                      -+++..+++..++.-...+..+|..+.+---..-   ..+.....+++....-...-..+|..+++.-.+..-++.|+.+
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            3455556655554322223334433332111111   2445555666665542222334566777777777778888888


Q ss_pred             HHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 004744          613 LSKMVSEGVDP-DSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGL  691 (732)
Q Consensus       613 ~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~  691 (732)
                      |.++.+.+..+ ++..+++++.-|| .++..-|.++|+--.++ ...++.--...++-+.+.|+-..|..+|++.+..++
T Consensus       389 F~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l  466 (656)
T KOG1914|consen  389 FKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVL  466 (656)
T ss_pred             HHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccC
Confidence            88888876666 6777778877665 56778888888876553 222333335666777788888888888888888766


Q ss_pred             CCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          692 NPD--RSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       692 ~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      .||  ..+|..++.-=..-|+...+.++-+++..
T Consensus       467 ~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  467 SADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             ChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            775  37888888887888888888888777653

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.98  E-value=3.6e-06  Score=98.89  Aligned_cols=336  Identities=10%  Similarity=0.040  Sum_probs=207.6

Q ss_pred             HHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCC------CCCH--HHHHHHHHHH
Q 004744          354 ESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGL------VPDN--VLYTIIINGY  425 (732)
Q Consensus       354 ~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~------~~~~--~~~~~li~~~  425 (732)
                      .....|+++.+...+..+.......+..........+...|++++|..++....+.-.      .+..  .....+...+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            3445677777777766552211111222334445556678899999888887654311      1111  1222233455


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCcCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC-CCCHHHHHHHHHHHH
Q 004744          426 CRNGFVLEALKMRDEMLEKGCVMDV----VTYNTILNGLCRAKMLTEADDLFNEMLER----GV-FPDFYTFTTLIHGHC  496 (732)
Q Consensus       426 ~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~A~~~~~~~~~~----~~-~~~~~~~~~li~~~~  496 (732)
                      ...|++++|...+++..+.-...+.    ...+.+...+...|++++|...+.+....    |. .....++..+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            6789999999998887763222222    34456666778899999999998887653    11 111234556667788


Q ss_pred             hcCCHHHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCC--CHHHHHHHHHHH
Q 004744          497 KDGNMNKALNLFDIMTQK----SIK--P-DIVTYNTLIDGFCKVGEMEKANKLWADMISRK--ISP--NYISYGILINGY  565 (732)
Q Consensus       497 ~~g~~~~A~~~~~~~~~~----~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--~~~--~~~~~~~li~~~  565 (732)
                      ..|++++|...+++....    +..  + ....+..+...+...|++++|...+.+.....  ..+  ....+..+...+
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            899999999988876542    211  1 22334455666777899999999888876531  111  233444566677


Q ss_pred             HhcCCHHHHHHHHHHHHhCC--CCCCHH--H-H-HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHH
Q 004744          566 CSMGHVTEAFRLWYEMVGKG--IKPTLV--S-C-NTIIKGYCRSGDASKADEFLSKMVSEGVDPDS---ISYNTLINGFV  636 (732)
Q Consensus       566 ~~~g~~~~A~~~~~~~~~~~--~~~~~~--~-~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~li~~~~  636 (732)
                      ...|++++|.+.+.+.....  ......  . . ...+..+...|+.+.|.+.+............   ..+..+..++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            88899999999888875421  111111  1 0 11223445678899999888775542111111   11345667788


Q ss_pred             hcCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004744          637 REENMDKAFALVSKMENQ----GLVPD-VITYNVILTGFCRQGRMHDSELILWRMIEK  689 (732)
Q Consensus       637 ~~g~~~~A~~~~~~~~~~----g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  689 (732)
                      ..|+.++|...++++...    |..++ ..+...+..++.+.|+.++|...+.++.+.
T Consensus       703 ~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        703 LLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            899999999999887762    32222 235667777888999999999999999874

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.98  E-value=4.2e-06  Score=98.38  Aligned_cols=371  Identities=13%  Similarity=-0.011  Sum_probs=231.8

Q ss_pred             HHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCH
Q 004744          352 LVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFV  431 (732)
Q Consensus       352 i~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~  431 (732)
                      ...+...|++.+|...........  .-..............|+++.+..++..+.......+..........+...|++
T Consensus       348 a~~~~~~g~~~~Al~~a~~a~d~~--~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~  425 (903)
T PRK04841        348 AEAWLAQGFPSEAIHHALAAGDAQ--LLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRY  425 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHCCCHH--HHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCH
Confidence            344566777776665444332110  001111222334556788888777776652211111222333445556778999


Q ss_pred             HHHHHHHHHHHHCCCC------cC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcC
Q 004744          432 LEALKMRDEMLEKGCV------MD--VVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDF----YTFTTLIHGHCKDG  499 (732)
Q Consensus       432 ~~A~~~~~~~~~~~~~------~~--~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g  499 (732)
                      ++|...+....+.-..      +.  ......+...+...|++++|...+++..+.-...+.    ...+.+...+...|
T Consensus       426 ~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G  505 (903)
T PRK04841        426 SEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKG  505 (903)
T ss_pred             HHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcC
Confidence            9999998877543111      11  112223345567899999999999998764222222    23455666778899


Q ss_pred             CHHHHHHHHHHHHHC----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHh
Q 004744          500 NMNKALNLFDIMTQK----SI-KPDIVTYNTLIDGFCKVGEMEKANKLWADMISR----KIS--P-NYISYGILINGYCS  567 (732)
Q Consensus       500 ~~~~A~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~--~-~~~~~~~li~~~~~  567 (732)
                      ++++|...+.+....    +. ......+..+...+...|++++|...+++....    +..  + ....+..+...+..
T Consensus       506 ~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~  585 (903)
T PRK04841        506 ELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWE  585 (903)
T ss_pred             CHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHH
Confidence            999999999887643    11 111234455667788899999999998887652    211  1 22334556667778


Q ss_pred             cCCHHHHHHHHHHHHhCC--CCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCCHHHH-----HHHHHHHHh
Q 004744          568 MGHVTEAFRLWYEMVGKG--IKP--TLVSCNTIIKGYCRSGDASKADEFLSKMVSEGV-DPDSISY-----NTLINGFVR  637 (732)
Q Consensus       568 ~g~~~~A~~~~~~~~~~~--~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~-----~~li~~~~~  637 (732)
                      .|++++|...+.+.....  ..+  ....+..+...+...|+.++|.+.++++..... ......+     ...+..+..
T Consensus       586 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  665 (903)
T PRK04841        586 WARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQM  665 (903)
T ss_pred             hcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHH
Confidence            899999999998876531  112  233455566678889999999999988854211 1111111     112244456


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHhcC
Q 004744          638 EENMDKAFALVSKMENQGLVPD---VITYNVILTGFCRQGRMHDSELILWRMIEK----GLNPD-RSTYTTLINGHVSQN  709 (732)
Q Consensus       638 ~g~~~~A~~~~~~~~~~g~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g~~p~-~~~~~~l~~~~~~~g  709 (732)
                      .|+.+.|...+...........   ...+..+..++...|+.++|...++++...    |..++ ..++..+..++.+.|
T Consensus       666 ~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G  745 (903)
T PRK04841        666 TGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQG  745 (903)
T ss_pred             CCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcC
Confidence            8999999999877654211111   112456777788999999999999998752    33332 356778889999999


Q ss_pred             CHHHHHHHHHHHHHC
Q 004744          710 NLKEAFRFHDEMLQR  724 (732)
Q Consensus       710 ~~~~A~~~~~~m~~~  724 (732)
                      +.++|...+.++++.
T Consensus       746 ~~~~A~~~L~~Al~l  760 (903)
T PRK04841        746 RKSEAQRVLLEALKL  760 (903)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999999864

>PLN02789 farnesyltranstransferase

Probab=98.95  E-value=1e-06  Score=87.34  Aligned_cols=208  Identities=8%  Similarity=0.006  Sum_probs=145.0

Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcC-ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh-
Q 004744          179 TYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIG-WVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKI-  256 (732)
Q Consensus       179 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-  256 (732)
                      .+...++.++|+....++++.++. +..+|+....++.+.| .+++++..++++++.+ +.+..+|+--...+.+.|+. 
T Consensus        46 ~l~~~e~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~  123 (320)
T PLN02789         46 VYASDERSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDA  123 (320)
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchh
Confidence            345567888999999999888766 6778887777777777 5788999998888765 56666777665556666653 


Q ss_pred             -hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhc---CCh----hH
Q 004744          257 -DSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKK---GRC----DR  328 (732)
Q Consensus       257 -~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~---g~~----~~  328 (732)
                       +++..+++++.+...+ |..+|+.....+.+.|+++++++.++++++.++. |..+|+.....+.+.   |..    ++
T Consensus       124 ~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~  201 (320)
T PLN02789        124 ANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDS  201 (320)
T ss_pred             hHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHH
Confidence             6778888888887654 7788888888888888899999999998887655 777777776665554   222    35


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHcC----CCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHh
Q 004744          329 AKEVLDEMLQMGLSPDTATYNTLLVESCRK----ENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSR  392 (732)
Q Consensus       329 A~~~~~~~~~~g~~~~~~~~~~li~~~~~~----g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~  392 (732)
                      +.....+++... +-|...|+.+...+...    +...+|.+.+.+..+.++. +......|+..|+.
T Consensus       202 el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~-s~~al~~l~d~~~~  267 (320)
T PLN02789        202 ELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSN-HVFALSDLLDLLCE  267 (320)
T ss_pred             HHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCC-cHHHHHHHHHHHHh
Confidence            566665666553 44566777776666652    3345566666666554322 55566666666654

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.93  E-value=1.6e-07  Score=94.65  Aligned_cols=89  Identities=15%  Similarity=0.130  Sum_probs=68.7

Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH
Q 004744          424 GYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNK  503 (732)
Q Consensus       424 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  503 (732)
                      -+.+.|++.+|.-.|+..+..++. +...|..|.......++-..|+..+++.++.++. +......|.-.|...|.-.+
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHHH
Confidence            345677788888888877777655 7777888888888888888888888888887655 67777778888888888888


Q ss_pred             HHHHHHHHHHC
Q 004744          504 ALNLFDIMTQK  514 (732)
Q Consensus       504 A~~~~~~~~~~  514 (732)
                      |+..++..+..
T Consensus       372 Al~~L~~Wi~~  382 (579)
T KOG1125|consen  372 ALKMLDKWIRN  382 (579)
T ss_pred             HHHHHHHHHHh
Confidence            88888877654

>PLN02789 farnesyltranstransferase

Probab=98.92  E-value=1.2e-06  Score=86.75  Aligned_cols=212  Identities=12%  Similarity=0.015  Sum_probs=165.7

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcC-ChHHHHHHHHHHHHCCC
Q 004744          123 AMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQAR-KLREGSEVFRLLRNKGI  201 (732)
Q Consensus       123 ~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~  201 (732)
                      .+-.++...++.++|+.+..+++..                  .+.+..+|+-....+...| .+++++..++++.+.++
T Consensus        42 ~~ra~l~~~e~serAL~lt~~aI~l------------------nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np  103 (320)
T PLN02789         42 YFRAVYASDERSPRALDLTADVIRL------------------NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP  103 (320)
T ss_pred             HHHHHHHcCCCCHHHHHHHHHHHHH------------------CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC
Confidence            3334455678889999999999853                  4556677887777777778 58999999999999887


Q ss_pred             ccCHHHHHHHHHHHHHcCCh--HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHH
Q 004744          202 CFSINACNSLLGGLVKIGWV--DLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYN  279 (732)
Q Consensus       202 ~~~~~~~~~ll~~~~~~g~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~  279 (732)
                      . +..+|+.....+.+.|+.  +++.++++.+++.+ +.|..+|+-...++.+.|+++++++.++++++.++. |..+|+
T Consensus       104 k-nyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~  180 (320)
T PLN02789        104 K-NYQIWHHRRWLAEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWN  180 (320)
T ss_pred             c-chHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHH
Confidence            7 777888777777777763  77899999999876 778889999999999999999999999999998765 777888


Q ss_pred             HHHHHHHHc---CCH----HHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhc----CChhHHHHHHHHHHHCCCCCCHHhH
Q 004744          280 TLINAYCRE---GFL----EEAFQLMNSMSGKGLKPGVFTYNSLINGLCKK----GRCDRAKEVLDEMLQMGLSPDTATY  348 (732)
Q Consensus       280 ~li~~~~~~---g~~----~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~----g~~~~A~~~~~~~~~~g~~~~~~~~  348 (732)
                      .....+.+.   |..    +++++...+++...+. |..+|+.+...+...    +...+|.+.+.+..+.+ +.+....
T Consensus       181 ~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~-N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al  258 (320)
T PLN02789        181 QRYFVITRSPLLGGLEAMRDSELKYTIDAILANPR-NESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFAL  258 (320)
T ss_pred             HHHHHHHhccccccccccHHHHHHHHHHHHHhCCC-CcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHH
Confidence            877666554   323    5678888788877544 888999999888873    44567888888877654 4466677


Q ss_pred             HHHHHHHHc
Q 004744          349 NTLLVESCR  357 (732)
Q Consensus       349 ~~li~~~~~  357 (732)
                      ..|++.|+.
T Consensus       259 ~~l~d~~~~  267 (320)
T PLN02789        259 SDLLDLLCE  267 (320)
T ss_pred             HHHHHHHHh
Confidence            888888875

>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=98.88  E-value=6.3e-08  Score=94.58  Aligned_cols=254  Identities=11%  Similarity=0.036  Sum_probs=150.4

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 004744          423 NGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMN  502 (732)
Q Consensus       423 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  502 (732)
                      +-+.-.|.+..++.-.+ ........+......+.+++...|+++.++   .++... ..|.......+...+...++-+
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---SEIKKS-SSPELQAVRLLAEYLSSPSDKE   83 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TT-SSCCCHHHHHHHHHHCTSTTHH
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccC-CChhHHHHHHHHHHHhCccchH
Confidence            34455678888776555 223222233444556667777788776544   333332 2555555555554444434555


Q ss_pred             HHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          503 KALNLFDIMTQKSIKP-DIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEM  581 (732)
Q Consensus       503 ~A~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  581 (732)
                      .++.-+++........ +..........+...|++++|++++.+.      .+.......+..|.+.++++.|.+.++.|
T Consensus        84 ~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~  157 (290)
T PF04733_consen   84 SALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNM  157 (290)
T ss_dssp             CHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5655555444333222 2222223334566678888888877542      25666777788888888888888888888


Q ss_pred             HhCCCCCCHHHHHHHHHHHHH--cC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 004744          582 VGKGIKPTLVSCNTIIKGYCR--SG--DASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLV  657 (732)
Q Consensus       582 ~~~~~~~~~~~~~~l~~~~~~--~g--~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~  657 (732)
                      .+.  ..| .+...++.++..  .|  .+++|..+|+++.+. ..++..+.+.+..++...|++++|.+++.+..+.+ +
T Consensus       158 ~~~--~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~  232 (290)
T PF04733_consen  158 QQI--DED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-P  232 (290)
T ss_dssp             HCC--SCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--C
T ss_pred             Hhc--CCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-c
Confidence            765  333 333344444432  23  578888888887654 45677788888888888888888888888877642 2


Q ss_pred             CCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHcCCCCC
Q 004744          658 PDVITYNVILTGFCRQGRM-HDSELILWRMIEKGLNPD  694 (732)
Q Consensus       658 p~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~g~~p~  694 (732)
                      -++.+...++.+....|+. +.+.+++.++..  ..|+
T Consensus       233 ~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~--~~p~  268 (290)
T PF04733_consen  233 NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQ--SNPN  268 (290)
T ss_dssp             CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHH--HTTT
T ss_pred             CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHH--hCCC
Confidence            2455666677666777776 567777777776  5555

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.88  E-value=1.6e-07  Score=91.83  Aligned_cols=252  Identities=16%  Similarity=0.100  Sum_probs=142.5

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004744          177 IRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKI  256 (732)
Q Consensus       177 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  256 (732)
                      ++-+.-.|.+..++.-.+ ........+.....-+.+++...|+++.+.   .++.... .|.......+...+...++-
T Consensus         8 vrn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~   82 (290)
T PF04733_consen    8 VRNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDK   82 (290)
T ss_dssp             HHHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTH
T ss_pred             HHHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccch
Confidence            344556788888876665 333333333445556667788888766543   3332332 55555555555444333444


Q ss_pred             hHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHH
Q 004744          257 DSAKMFLCEMEQKGVYP-DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDE  335 (732)
Q Consensus       257 ~~A~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  335 (732)
                      +.+..-+++....+..+ +..........+...|++++|++++...      .+.......+..|.+.++++.|.+.++.
T Consensus        83 e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~  156 (290)
T PF04733_consen   83 ESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKN  156 (290)
T ss_dssp             HCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            45554444433332221 2222233334566678888888877643      2566667777888888888888888888


Q ss_pred             HHHCCCCCCHHhHHHHHHH----HHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCC
Q 004744          336 MLQMGLSPDTATYNTLLVE----SCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGL  411 (732)
Q Consensus       336 ~~~~g~~~~~~~~~~li~~----~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~  411 (732)
                      |.+.+  .|.. ...+..+    +.-.+.+.+|.-+|+++.+. ..+++.+.+.++.++...|++++|.+++.+..+.+.
T Consensus       157 ~~~~~--eD~~-l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~  232 (290)
T PF04733_consen  157 MQQID--EDSI-LTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP  232 (290)
T ss_dssp             HHCCS--CCHH-HHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C
T ss_pred             HHhcC--CcHH-HHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc
Confidence            87652  3333 2223333    22334677888888887654 445777777777777888888888887777665432


Q ss_pred             CCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHC
Q 004744          412 VPDNVLYTIIINGYCRNGFV-LEALKMRDEMLEK  444 (732)
Q Consensus       412 ~~~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~  444 (732)
                      . +..+...++......|+. +.+.+.+.++...
T Consensus       233 ~-~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  233 N-DPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             C-HHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             C-CHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            2 445555666666666665 4555566665543

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=98.86  E-value=5.3e-07  Score=91.04  Aligned_cols=219  Identities=15%  Similarity=0.048  Sum_probs=117.8

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004744          177 IRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKI  256 (732)
Q Consensus       177 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  256 (732)
                      +.-+.+.|.+.+|.-.|+..++.+|. +..+|-.|...-...++-..|+..+.+.++.. |.|..+.-.|.-.|...|.-
T Consensus       292 G~~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q  369 (579)
T KOG1125|consen  292 GCNLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQ  369 (579)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhH
Confidence            34466777777777777777777766 77777777777777777777777777777765 56666777777777777777


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHH-----------HHHHcCCHHHHHHHHHHHh-hCCCCCCHhhHHHHHHHHHhcC
Q 004744          257 DSAKMFLCEMEQKGVYPDTVTYNTLIN-----------AYCREGFLEEAFQLMNSMS-GKGLKPGVFTYNSLINGLCKKG  324 (732)
Q Consensus       257 ~~A~~~~~~~~~~g~~p~~~~~~~li~-----------~~~~~g~~~~A~~~~~~m~-~~g~~p~~~~~~~li~~~~~~g  324 (732)
                      .+|.+.++..+...++     |..+..           .+.....+....++|-++. ..+..+|...+..|.-.|--.|
T Consensus       370 ~~Al~~L~~Wi~~~p~-----y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~  444 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKPK-----YVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSG  444 (579)
T ss_pred             HHHHHHHHHHHHhCcc-----chhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcch
Confidence            7777777777654221     111100           0011111222233333332 2222234444445554555555


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCC-HhHHHHHHHHHHhCCCHHHHHHHH
Q 004744          325 RCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPD-IVSFSTLIGIFSRNGQLDRALMYF  403 (732)
Q Consensus       325 ~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~-~~~~~~l~~~~~~~g~~~~A~~l~  403 (732)
                      .+++|...|+.++... +-|...||-|...+....+.++|+..|.+.++.  .|. +.++..|.-.|...|.+++|.+.|
T Consensus       445 efdraiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hl  521 (579)
T KOG1125|consen  445 EFDRAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHL  521 (579)
T ss_pred             HHHHHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHH
Confidence            5555555555554432 223344555555555555555555555554443  222 233334444444555555554444


Q ss_pred             HH
Q 004744          404 RE  405 (732)
Q Consensus       404 ~~  405 (732)
                      -.
T Consensus       522 L~  523 (579)
T KOG1125|consen  522 LE  523 (579)
T ss_pred             HH
Confidence            43

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.80  E-value=0.00045  Score=74.04  Aligned_cols=226  Identities=12%  Similarity=0.031  Sum_probs=145.6

Q ss_pred             HhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHH
Q 004744          129 VRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINAC  208 (732)
Q Consensus       129 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  208 (732)
                      ...+++..|.....+.+++.+....                ..++.+|  ...+.|+.++|..+++.....+.. |..+.
T Consensus        20 ld~~qfkkal~~~~kllkk~Pn~~~----------------a~vLkaL--sl~r~gk~~ea~~~Le~~~~~~~~-D~~tL   80 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKHPNALY----------------AKVLKAL--SLFRLGKGDEALKLLEALYGLKGT-DDLTL   80 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHCCCcHH----------------HHHHHHH--HHHHhcCchhHHHHHhhhccCCCC-chHHH
Confidence            4568888888888888876543211                2222222  356889999999888877666555 88888


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 004744          209 NSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCRE  288 (732)
Q Consensus       209 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~  288 (732)
                      ..+-..|...|..++|..+|+++...  -|+......+..+|.+.+++.+-.+.--++-+. +.-+...+=++++.+.+.
T Consensus        81 q~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs  157 (932)
T KOG2053|consen   81 QFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQS  157 (932)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHh
Confidence            99999999999999999999998875  466778888888898888876644443333332 111333333444444432


Q ss_pred             C-C---------HHHHHHHHHHHhhCC-CCCCHhhHHHHHHHHHhcCChhHHHHHHHH-HHHCCCCCCHHhHHHHHHHHH
Q 004744          289 G-F---------LEEAFQLMNSMSGKG-LKPGVFTYNSLINGLCKKGRCDRAKEVLDE-MLQMGLSPDTATYNTLLVESC  356 (732)
Q Consensus       289 g-~---------~~~A~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~-~~~~g~~~~~~~~~~li~~~~  356 (732)
                      - .         ..-|.+.++.+.+.+ ..-+..-...-...+-..|++++|.+++.. ..+.-..-+...-+--++.+.
T Consensus       158 ~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk  237 (932)
T KOG2053|consen  158 IFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLK  237 (932)
T ss_pred             ccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHH
Confidence            1 1         234556666666654 222222233334455677889999988843 333322334444455667778


Q ss_pred             cCCCHhHHHHHHHHHHhCCC
Q 004744          357 RKENMSEAEEIFCEMSRRGV  376 (732)
Q Consensus       357 ~~g~~~~A~~~~~~~~~~g~  376 (732)
                      ..+++.+..++-.++...|.
T Consensus       238 ~l~~w~~l~~l~~~Ll~k~~  257 (932)
T KOG2053|consen  238 LLNRWQELFELSSRLLEKGN  257 (932)
T ss_pred             HhcChHHHHHHHHHHHHhCC
Confidence            88888888888888887764

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.79  E-value=6.9e-07  Score=81.65  Aligned_cols=169  Identities=13%  Similarity=-0.017  Sum_probs=132.2

Q ss_pred             CCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH
Q 004744          164 SPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTL  243 (732)
Q Consensus       164 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  243 (732)
                      ...+.+..+ ..+-+.|...|+-+++..+........+. |....+..+....+.|++.+|...++++.... ++|..+|
T Consensus        61 ~~~p~d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~~~-d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~  137 (257)
T COG5010          61 LRNPEDLSI-AKLATALYLRGDADSSLAVLQKSAIAYPK-DRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAW  137 (257)
T ss_pred             hcCcchHHH-HHHHHHHHhcccccchHHHHhhhhccCcc-cHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhh
Confidence            344555556 66777888888888888888886655444 66777778888889999999999999887764 8888889


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhc
Q 004744          244 NIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKK  323 (732)
Q Consensus       244 ~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  323 (732)
                      +.+.-+|.+.|++++|+.-|.+..+.-.. +....|.+.-.|.-.|+++.|..++......+.. |...-..+.......
T Consensus       138 ~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~  215 (257)
T COG5010         138 NLLGAALDQLGRFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQ  215 (257)
T ss_pred             hHHHHHHHHccChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhc
Confidence            98888899999999999888888887332 5566788888888889999999988888776443 666777778888888


Q ss_pred             CChhHHHHHHHHHH
Q 004744          324 GRCDRAKEVLDEML  337 (732)
Q Consensus       324 g~~~~A~~~~~~~~  337 (732)
                      |++++|..+...-.
T Consensus       216 g~~~~A~~i~~~e~  229 (257)
T COG5010         216 GDFREAEDIAVQEL  229 (257)
T ss_pred             CChHHHHhhccccc
Confidence            88888888776644

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.75  E-value=5.6e-06  Score=91.74  Aligned_cols=224  Identities=12%  Similarity=0.077  Sum_probs=104.0

Q ss_pred             chHHHHHHHHHHHHcCChHHHHHHHHHHHHC-CCcc---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 004744          169 NSLIFDLVIRTYVQARKLREGSEVFRLLRNK-GICF---SINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLN  244 (732)
Q Consensus       169 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  244 (732)
                      +...|-.-+....+.+..++|.+++++++.. ++.-   -...|.++++....-|.-+...++|+++.+.  ......|.
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            3444555555555555555555555554432 1110   1224455555444445555555555555442  12223344


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCC-CHhhHHHHHHHHHhc
Q 004744          245 IMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKP-GVFTYNSLINGLCKK  323 (732)
Q Consensus       245 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~  323 (732)
                      .|...|.+.+++++|-++++.|.++ +.-...+|...+..+.+..+-++|..++.++.+.=.+. ......-.+..-.+.
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhc
Confidence            5555555555555555555555543 11234455555555555555555555555554431110 112222233333455


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCH--hHHHHHHHHHHhCCCH
Q 004744          324 GRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDI--VSFSTLIGIFSRNGQL  396 (732)
Q Consensus       324 g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~--~~~~~l~~~~~~~g~~  396 (732)
                      |+.++++.+|+..+... +--...|+..|+.-.+.|+.+.++.+|+++...++.|--  ..|..-+..--+.|+-
T Consensus      1614 GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde 1687 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDE 1687 (1710)
T ss_pred             CCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCch
Confidence            55555555555555432 233445555555555555555555555555555444321  2333444433344443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.71  E-value=2.6e-06  Score=82.23  Aligned_cols=185  Identities=11%  Similarity=-0.037  Sum_probs=121.9

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH---H
Q 004744          518 PDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNY---ISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTL---V  591 (732)
Q Consensus       518 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~  591 (732)
                      .....+..+...+...|++++|...|+++...... +.   ..+..+...+.+.|++++|+..++++++.. +.+.   .
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~  108 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPF-SPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH-PNHPDADY  108 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCchHH
Confidence            34556667777788888888888888888775322 22   355667778888888888888888888763 2122   2


Q ss_pred             HHHHHHHHHHHc--------CCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 004744          592 SCNTIIKGYCRS--------GDASKADEFLSKMVSEGVDPDS-ISYNTLINGFVREENMDKAFALVSKMENQGLVPDVIT  662 (732)
Q Consensus       592 ~~~~l~~~~~~~--------g~~~~A~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  662 (732)
                      ++..+..++...        |+.++|.+.++++....  |+. ..+..+.....    ...       ..       ...
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~----~~~-------~~-------~~~  168 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDY----LRN-------RL-------AGK  168 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHH----HHH-------HH-------HHH
Confidence            455555555544        66777888888777642  332 22222111100    000       00       011


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          663 YNVILTGFCRQGRMHDSELILWRMIEKGL-NP-DRSTYTTLINGHVSQNNLKEAFRFHDEMLQR  724 (732)
Q Consensus       663 ~~~l~~~~~~~g~~~~A~~~~~~~~~~g~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  724 (732)
                      ...+...+.+.|++++|...++++++... .| ....+..++.++.+.|++++|..+++.+...
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            22566778899999999999999998311 23 2578999999999999999999999988643

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).

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.70  E-value=1e-05  Score=89.72  Aligned_cols=230  Identities=13%  Similarity=0.062  Sum_probs=167.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004744          484 DFYTFTTLIHGHCKDGNMNKALNLFDIMTQK-SIK---PDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYG  559 (732)
Q Consensus       484 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  559 (732)
                      ....|...|....+.++.+.|.++.++++.. ++.   --.-.|.++++.-...|.-+...++|+++.+.  ......|.
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            4567888888888888888888888888764 111   01246677777777778778888888888765  22355677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhc
Q 004744          560 ILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVD-PDSISYNTLINGFVRE  638 (732)
Q Consensus       560 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~li~~~~~~  638 (732)
                      .|...|.+.+++++|.++++.|.++ +......|..++..+.+..+-+.|..++.++++.-.. -......-.+..-.+.
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhc
Confidence            8888888888999999999998877 3467778888888888888888888888888874211 1233444555666788


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-H-HHHHHHHHHHHhcCCHHHHHH
Q 004744          639 ENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-R-STYTTLINGHVSQNNLKEAFR  716 (732)
Q Consensus       639 g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~-~~~~~l~~~~~~~g~~~~A~~  716 (732)
                      |+.+.+..+|+..... .+--...|+.+++.=.++|+.+.++.+|++.+..++.|- . ..|...+..=-+.|+-+.+..
T Consensus      1614 GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~ 1692 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEY 1692 (1710)
T ss_pred             CCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHH
Confidence            8999999999888874 233456888888888889999999999999988878773 2 556666655555566544443


Q ss_pred             H
Q 004744          717 F  717 (732)
Q Consensus       717 ~  717 (732)
                      .
T Consensus      1693 V 1693 (1710)
T KOG1070|consen 1693 V 1693 (1710)
T ss_pred             H
Confidence            3

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.68  E-value=2.5e-05  Score=81.40  Aligned_cols=275  Identities=11%  Similarity=0.087  Sum_probs=191.7

Q ss_pred             CCCChHHHHHHHHHHHhCCCh---HHHHHHHHHHHHhcCCChhHHHHhhhhhcCC-CCCchHHHHHHHHHHHHcCChHHH
Q 004744          114 VKHSSMSLSAMIHFLVRGRRI---SDAQALILRMVRKSGVSRLEIVDSFVSTYSP-CGSNSLIFDLVIRTYVQARKLREG  189 (732)
Q Consensus       114 ~~~~~~~~~~l~~~l~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A  189 (732)
                      .........-+.+.....++-   +.+..--+.+...-......+.+.+...|.. .++--..-..+...+...|...+|
T Consensus       338 ~~w~i~~salllr~~~E~~~~RtveR~~~q~q~lv~~iq~~e~~v~nRlsy~ya~~lpp~Wq~q~~laell~slGitksA  417 (777)
T KOG1128|consen  338 KYWSIQASALLLRFLLESTRSRTVERALSQMQFLVKAIQMKEYSVLNRLSYIYAPHLPPIWQLQRLLAELLLSLGITKSA  417 (777)
T ss_pred             CceeeehHHHHHHHHHHhcCccchhhHHHHHHHHHHHHhhccHhHHhcccccccCCCCCcchHHHHHHHHHHHcchHHHH
Confidence            334455556666666555444   4444333333322122222333333333322 234445566778889999999999


Q ss_pred             HHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 004744          190 SEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      +.+|++.-         .|.-++..|...|+...|..+..+-++  -+||...|..++++.....-+++|.++++....+
T Consensus       418 l~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar  486 (777)
T KOG1128|consen  418 LVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR  486 (777)
T ss_pred             HHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHHHHHHHhhhhhHH
Confidence            99998654         466778888888999999888888777  3788888888888776666677777777664332


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHH
Q 004744          270 GVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYN  349 (732)
Q Consensus       270 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~  349 (732)
                             +-..+.......++++++.+.|+.-.+.+.- ...+|-.+..+..+.+++..|.+.|....... +.+...||
T Consensus       487 -------A~r~~~~~~~~~~~fs~~~~hle~sl~~npl-q~~~wf~~G~~ALqlek~q~av~aF~rcvtL~-Pd~~eaWn  557 (777)
T KOG1128|consen  487 -------AQRSLALLILSNKDFSEADKHLERSLEINPL-QLGTWFGLGCAALQLEKEQAAVKAFHRCVTLE-PDNAEAWN  557 (777)
T ss_pred             -------HHHhhccccccchhHHHHHHHHHHHhhcCcc-chhHHHhccHHHHHHhhhHHHHHHHHHHhhcC-CCchhhhh
Confidence                   2223333344578999999999887765432 56788888888889999999999998887653 33456899


Q ss_pred             HHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHC
Q 004744          350 TLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSA  409 (732)
Q Consensus       350 ~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~  409 (732)
                      .+-.+|.+.++-.+|...+.+..+.+ .-+...|-..+-...+.|.+++|.+.+.++.+.
T Consensus       558 Nls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  558 NLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             hhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            99999999999999999999998877 346677888888888899999999988887653

>PF12854 PPR_1: PPR repeat

Probab=98.67  E-value=3.5e-08  Score=60.87  Aligned_cols=32  Identities=56%  Similarity=1.080  Sum_probs=19.3

Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 004744          270 GVYPDTVTYNTLINAYCREGFLEEAFQLMNSM  301 (732)
Q Consensus       270 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  301 (732)
                      |+.||..+|++||++||+.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            45566666666666666666666666666555

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.66  E-value=3.6e-06  Score=81.22  Aligned_cols=187  Identities=9%  Similarity=-0.062  Sum_probs=129.2

Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCc-c-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH---H
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGIC-F-SINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVY---T  242 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---~  242 (732)
                      ..+..+-.++..|.+.|++++|...|+++....+. | ...++..+..++.+.|++++|...|+++++.. |.+..   +
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a  109 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH-PNHPDADYA  109 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCchHHH
Confidence            45677888889999999999999999999887543 1 12467888899999999999999999998764 22222   4


Q ss_pred             HHHHHHHHHhc--------CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHH
Q 004744          243 LNIMVNALCKD--------HKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYN  314 (732)
Q Consensus       243 ~~~l~~~~~~~--------g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  314 (732)
                      +..+..++.+.        |++++|.+.|+.+.+..+. +...+..+....    ......              .....
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~----~~~~~~--------------~~~~~  170 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMD----YLRNRL--------------AGKEL  170 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHH----HHHHHH--------------HHHHH
Confidence            55566666654        7788899999998877322 222332222110    000000              01122


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCC--CCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhC
Q 004744          315 SLINGLCKKGRCDRAKEVLDEMLQMGL--SPDTATYNTLLVESCRKENMSEAEEIFCEMSRR  374 (732)
Q Consensus       315 ~li~~~~~~g~~~~A~~~~~~~~~~g~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  374 (732)
                      .+...+.+.|++++|...+++..+...  +.....+..+...+.+.|+.++|...++.+...
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            456678888888988888888876521  123457778888888899999998888877664

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).

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.64  E-value=1.8e-06  Score=89.54  Aligned_cols=217  Identities=13%  Similarity=0.046  Sum_probs=175.9

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 004744          119 MSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRN  198 (732)
Q Consensus       119 ~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  198 (732)
                      ..-..+..++...|...+|...+++.                          ..|.-+|-+|...|+..+|..+..+-.+
T Consensus       399 q~q~~laell~slGitksAl~I~Erl--------------------------emw~~vi~CY~~lg~~~kaeei~~q~le  452 (777)
T KOG1128|consen  399 QLQRLLAELLLSLGITKSALVIFERL--------------------------EMWDPVILCYLLLGQHGKAEEINRQELE  452 (777)
T ss_pred             hHHHHHHHHHHHcchHHHHHHHHHhH--------------------------HHHHHHHHHHHHhcccchHHHHHHHHhc
Confidence            33446667777777777777777654                          5688899999999999999999999888


Q ss_pred             CCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHH
Q 004744          199 KGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTY  278 (732)
Q Consensus       199 ~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  278 (732)
                      +  +||...|-.+++.....--++.|+++.+..-.       .+-..+.....+.++++++.+.|+.-.+... .-..+|
T Consensus       453 k--~~d~~lyc~LGDv~~d~s~yEkawElsn~~sa-------rA~r~~~~~~~~~~~fs~~~~hle~sl~~np-lq~~~w  522 (777)
T KOG1128|consen  453 K--DPDPRLYCLLGDVLHDPSLYEKAWELSNYISA-------RAQRSLALLILSNKDFSEADKHLERSLEINP-LQLGTW  522 (777)
T ss_pred             C--CCcchhHHHhhhhccChHHHHHHHHHhhhhhH-------HHHHhhccccccchhHHHHHHHHHHHhhcCc-cchhHH
Confidence            4  57899999999988888889999998886532       2333334444567999999999999887743 256789


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcC
Q 004744          279 NTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRK  358 (732)
Q Consensus       279 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~  358 (732)
                      -.+..+..+.++++.|.+.|.......+. +...||++-.+|.+.|+..+|...+.+..+.+ .-+...|...+....+.
T Consensus       523 f~~G~~ALqlek~q~av~aF~rcvtL~Pd-~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdv  600 (777)
T KOG1128|consen  523 FGLGCAALQLEKEQAAVKAFHRCVTLEPD-NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDV  600 (777)
T ss_pred             HhccHHHHHHhhhHHHHHHHHHHhhcCCC-chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhc
Confidence            89999999999999999999999876433 67899999999999999999999999999876 44556677777778899


Q ss_pred             CCHhHHHHHHHHHHh
Q 004744          359 ENMSEAEEIFCEMSR  373 (732)
Q Consensus       359 g~~~~A~~~~~~~~~  373 (732)
                      |.+++|.+.+.++..
T Consensus       601 ge~eda~~A~~rll~  615 (777)
T KOG1128|consen  601 GEFEDAIKAYHRLLD  615 (777)
T ss_pred             ccHHHHHHHHHHHHH
Confidence            999999999988865

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.62  E-value=7.2e-06  Score=75.14  Aligned_cols=161  Identities=14%  Similarity=0.079  Sum_probs=130.6

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCC
Q 004744          122 SAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGI  201 (732)
Q Consensus       122 ~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  201 (732)
                      ......|.-.|+-++...+.....                  ...+.+..+....++...++|++.+|+.+|+++....+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~------------------~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p  131 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSA------------------IAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAP  131 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhh------------------ccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCC
Confidence            455556666677666666655543                  23445667777789999999999999999999988765


Q ss_pred             ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 004744          202 CFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTL  281 (732)
Q Consensus       202 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l  281 (732)
                      . |...|+.+.-+|.+.|++++|..-|.+..+.- +-+....|-+.-.|.-.|+++.|+.++......+.. |..+-..+
T Consensus       132 ~-d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NL  208 (257)
T COG5010         132 T-DWEAWNLLGAALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNL  208 (257)
T ss_pred             C-ChhhhhHHHHHHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHH
Confidence            5 99999999999999999999999999998864 556677888888888899999999999998887544 77777888


Q ss_pred             HHHHHHcCCHHHHHHHHHHHhh
Q 004744          282 INAYCREGFLEEAFQLMNSMSG  303 (732)
Q Consensus       282 i~~~~~~g~~~~A~~~~~~m~~  303 (732)
                      .......|++++|.++...-..
T Consensus       209 Al~~~~~g~~~~A~~i~~~e~~  230 (257)
T COG5010         209 ALVVGLQGDFREAEDIAVQELL  230 (257)
T ss_pred             HHHHhhcCChHHHHhhcccccc
Confidence            8889999999999998766543

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.58  E-value=1e-05  Score=74.74  Aligned_cols=156  Identities=12%  Similarity=0.136  Sum_probs=109.8

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 004744          176 VIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHK  255 (732)
Q Consensus       176 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  255 (732)
                      -+..|...|+++......+.+...  .          ..+...++.+++...++..++.+ +.|...|..+...|...|+
T Consensus        22 ~~~~Y~~~g~~~~v~~~~~~~~~~--~----------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~   88 (198)
T PRK10370         22 CVGSYLLSPKWQAVRAEYQRLADP--L----------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRND   88 (198)
T ss_pred             HHHHHHHcchHHHHHHHHHHHhCc--c----------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCC
Confidence            355688888887765444322211  0          01122566777777888877765 7778888888888888888


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHHcCC--HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHH
Q 004744          256 IDSAKMFLCEMEQKGVYPDTVTYNTLINA-YCREGF--LEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEV  332 (732)
Q Consensus       256 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~-~~~~g~--~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  332 (732)
                      +++|...|++..+.... +...+..+..+ +...|+  .++|.+++++..+.+.. +..++..+...+.+.|++++|...
T Consensus        89 ~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~  166 (198)
T PRK10370         89 YDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIEL  166 (198)
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHH
Confidence            88888888888887544 66777777775 456676  48888888888877554 677788888888888888888888


Q ss_pred             HHHHHHCCCCCCHHh
Q 004744          333 LDEMLQMGLSPDTAT  347 (732)
Q Consensus       333 ~~~~~~~g~~~~~~~  347 (732)
                      ++++++.. +|+..-
T Consensus       167 ~~~aL~l~-~~~~~r  180 (198)
T PRK10370        167 WQKVLDLN-SPRVNR  180 (198)
T ss_pred             HHHHHhhC-CCCccH
Confidence            88887764 444433

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.56  E-value=5.6e-06  Score=90.54  Aligned_cols=163  Identities=12%  Similarity=0.048  Sum_probs=136.2

Q ss_pred             CCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHH
Q 004744          113 NVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEV  192 (732)
Q Consensus       113 ~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  192 (732)
                      .|.+++.++-.|..+..+.|++++|..+++.++.                  -+|.+...+..++..+.+.+++++|+..
T Consensus        81 ~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~------------------~~Pd~~~a~~~~a~~L~~~~~~eeA~~~  142 (694)
T PRK15179         81 RYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQ------------------RFPDSSEAFILMLRGVKRQQGIEAGRAE  142 (694)
T ss_pred             hccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh------------------hCCCcHHHHHHHHHHHHHhccHHHHHHH
Confidence            3677899999999999999999999999999973                  3677788899999999999999999999


Q ss_pred             HHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 004744          193 FRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVY  272 (732)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~  272 (732)
                      +++.....+. +......+..++.+.|++++|..+|+++...+ +.+..++..+...+.+.|+.++|...|++..+.- .
T Consensus       143 ~~~~l~~~p~-~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~  219 (694)
T PRK15179        143 IELYFSGGSS-SAREILLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-G  219 (694)
T ss_pred             HHHHhhcCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-C
Confidence            9999999877 88889999999999999999999999999843 6678899999999999999999999999998762 2


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 004744          273 PDTVTYNTLINAYCREGFLEEAFQLMNSMS  302 (732)
Q Consensus       273 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  302 (732)
                      +-+..|+.++.      ++..-...++++.
T Consensus       220 ~~~~~~~~~~~------~~~~~~~~~~~~~  243 (694)
T PRK15179        220 DGARKLTRRLV------DLNADLAALRRLG  243 (694)
T ss_pred             cchHHHHHHHH------HHHHHHHHHHHcC
Confidence            34455554432      3333344455543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.55  E-value=3.5e-05  Score=84.46  Aligned_cols=135  Identities=16%  Similarity=0.104  Sum_probs=88.2

Q ss_pred             CCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 004744          167 GSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIM  246 (732)
Q Consensus       167 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  246 (732)
                      +.++..+-.|.....+.|++++|..+++.+.+..+. +......++.++.+.+++++|+..+++.+... +.+......+
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~  160 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLE  160 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHH
Confidence            344666666667777777777777777777666555 55666666667777777777777777766654 5555566666


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC
Q 004744          247 VNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGK  304 (732)
Q Consensus       247 ~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  304 (732)
                      ..++.+.|++++|..+|+++...+.. +..++..+...+-+.|+.++|...|+...+.
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p~-~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHPE-FENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            66666777777777777776664322 3556666666666677777777777766554

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.55  E-value=4e-06  Score=77.35  Aligned_cols=126  Identities=9%  Similarity=-0.032  Sum_probs=103.5

Q ss_pred             cCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HhcCC--hhHH
Q 004744          183 ARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNAL-CKDHK--IDSA  259 (732)
Q Consensus       183 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~--~~~A  259 (732)
                      .++.++++..++..++.++. |...|..+...|...|++++|...|+++.+.. +.+...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~P~-~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            56678888888888888776 88899999999999999999999999998875 66788888888764 66677  4899


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhh
Q 004744          260 KMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFT  312 (732)
Q Consensus       260 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  312 (732)
                      .+++++..+.+.. +..++..+...+.+.|++++|+..++++.+... |+..-
T Consensus       130 ~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~-~~~~r  180 (198)
T PRK10370        130 REMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDLNS-PRVNR  180 (198)
T ss_pred             HHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCccH
Confidence            9999999988654 778888888999999999999999999987643 34433

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.51  E-value=0.00014  Score=66.28  Aligned_cols=188  Identities=13%  Similarity=0.122  Sum_probs=103.4

Q ss_pred             hcCCHHHHHHHHHHHHHc---C-CCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 004744          462 RAKMLTEADDLFNEMLER---G-VFPDFYT-FTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEM  536 (732)
Q Consensus       462 ~~~~~~~A~~~~~~~~~~---~-~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  536 (732)
                      ...+.++..+++.++...   | ..++..+ |..++-+....|+.+.|...++.+...- +-+...-..-.-.+-..|++
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhch
Confidence            345566677766666542   2 3334332 3334444555666666666666665542 22222222222223445666


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 004744          537 EKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKM  616 (732)
Q Consensus       537 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  616 (732)
                      ++|+++++.+++.+ +.|.+++-.-+...-..|+..+|++-+.+..+. +..|...|..+...|...|++++|.-.++++
T Consensus       103 ~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            66666666666654 335555555555555666666666666666655 4566666666666666666666666666666


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHH
Q 004744          617 VSEGVDPDSISYNTLINGFVREE---NMDKAFALVSKMEN  653 (732)
Q Consensus       617 ~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~  653 (732)
                      +-.. +.+...+..+.+.+.-.|   +++-|.++|.+..+
T Consensus       181 ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alk  219 (289)
T KOG3060|consen  181 LLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALK  219 (289)
T ss_pred             HHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            6532 123344444554444333   34556666666665

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.50  E-value=1.1e-05  Score=70.39  Aligned_cols=91  Identities=8%  Similarity=-0.191  Sum_probs=40.9

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 004744          211 LLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGF  290 (732)
Q Consensus       211 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~  290 (732)
                      +...+.+.|++++|...|+.++... +.+..++..+..++.+.|++++|...|++..+.... +...+..+...+.+.|+
T Consensus        30 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~-~~~a~~~lg~~l~~~g~  107 (144)
T PRK15359         30 SGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDAS-HPEPVYQTGVCLKMMGE  107 (144)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHHcCC
Confidence            3444444444444444444444432 334444444444444444444444444444443221 33444444444444444


Q ss_pred             HHHHHHHHHHHhh
Q 004744          291 LEEAFQLMNSMSG  303 (732)
Q Consensus       291 ~~~A~~~~~~m~~  303 (732)
                      +++|...|+....
T Consensus       108 ~~eAi~~~~~Al~  120 (144)
T PRK15359        108 PGLAREAFQTAIK  120 (144)
T ss_pred             HHHHHHHHHHHHH
Confidence            4444444444444

>PF12854 PPR_1: PPR repeat

Probab=98.49  E-value=1.9e-07  Score=57.60  Aligned_cols=32  Identities=47%  Similarity=0.771  Sum_probs=19.4

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          690 GLNPDRSTYTTLINGHVSQNNLKEAFRFHDEM  721 (732)
Q Consensus       690 g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  721 (732)
                      |+.||..+|+.|+++|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            55566666666666666666666666666555

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.49  E-value=6.7e-06  Score=71.68  Aligned_cols=109  Identities=11%  Similarity=-0.117  Sum_probs=94.2

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      +..+..++..+.+.|++++|...|+.+....+. +...|..+..++.+.|++++|...|+++++.+ +.+..++..+..+
T Consensus        24 p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~  101 (144)
T PRK15359         24 PETVYASGYASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVC  101 (144)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHH
Confidence            334556788899999999999999999998876 88999999999999999999999999999875 7888999999999


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 004744          250 LCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTL  281 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l  281 (732)
                      +.+.|++++|...|+...+..+. +...|...
T Consensus       102 l~~~g~~~eAi~~~~~Al~~~p~-~~~~~~~~  132 (144)
T PRK15359        102 LKMMGEPGLAREAFQTAIKMSYA-DASWSEIR  132 (144)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHH
Confidence            99999999999999999987432 34444333

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.45  E-value=0.00013  Score=80.86  Aligned_cols=173  Identities=12%  Similarity=0.046  Sum_probs=111.6

Q ss_pred             CCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 004744          165 PCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLN  244 (732)
Q Consensus       165 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  244 (732)
                      ..+.+...|..|+..|...|++++|.++.+...+..+. ....|-.+...+.+.++.+++..+  .+..           
T Consensus        26 ~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~-~i~~yy~~G~l~~q~~~~~~~~lv--~~l~-----------   91 (906)
T PRK14720         26 YSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKK-SISALYISGILSLSRRPLNDSNLL--NLID-----------   91 (906)
T ss_pred             CCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCc-ceehHHHHHHHHHhhcchhhhhhh--hhhh-----------
Confidence            35677899999999999999999999999988887554 444455555577777777766665  3322           


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcC
Q 004744          245 IMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKG  324 (732)
Q Consensus       245 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  324 (732)
                          ......++.-..-+...|...+  -+..++..+..+|-+.|+.++|.++++++.+..+. |..+.|.+...|... 
T Consensus        92 ----~~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-  163 (906)
T PRK14720         92 ----SFSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-  163 (906)
T ss_pred             ----hcccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-
Confidence                2222233322233333444432  13446666777777777777777777777776633 677777777777777 


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhC
Q 004744          325 RCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRR  374 (732)
Q Consensus       325 ~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  374 (732)
                      ++++|.+++.+.+..               +....++..+.+++.++...
T Consensus       164 dL~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~  198 (906)
T PRK14720        164 DKEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHY  198 (906)
T ss_pred             hHHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhc
Confidence            777777777776543               33444555555555555543

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.44  E-value=7.6e-05  Score=82.57  Aligned_cols=238  Identities=11%  Similarity=0.083  Sum_probs=150.1

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004744          204 SINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLIN  283 (732)
Q Consensus       204 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~  283 (732)
                      +...|..|+..+...+++++|.++.+...+.. |.....|-.+...+.+.++.+++..+  .               ++.
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~-P~~i~~yy~~G~l~~q~~~~~~~~lv--~---------------~l~   91 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEH-KKSISALYISGILSLSRRPLNDSNLL--N---------------LID   91 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CcceehHHHHHHHHHhhcchhhhhhh--h---------------hhh
Confidence            56678888888888888888888888776653 33333444444466666665555544  2               222


Q ss_pred             HHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhH
Q 004744          284 AYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSE  363 (732)
Q Consensus       284 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  363 (732)
                      ......++.-+..+...|...  .-+..++..+..+|-+.|+.++|..+++++++.. +-|..+.|.+...|... ++++
T Consensus        92 ~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~K  167 (906)
T PRK14720         92 SFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEK  167 (906)
T ss_pred             hcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHH
Confidence            222333332333333334332  2245577888888999999999999999999886 56778888888888888 8999


Q ss_pred             HHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 004744          364 AEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLE  443 (732)
Q Consensus       364 A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  443 (732)
                      |.+++.+....               +...+++.++.+++.++....+. +...+..+.                +.+..
T Consensus       168 A~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~-d~d~f~~i~----------------~ki~~  215 (906)
T PRK14720        168 AITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSD-DFDFFLRIE----------------RKVLG  215 (906)
T ss_pred             HHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCcc-cchHHHHHH----------------HHHHh
Confidence            99888777653               56666778888888887765222 222222222                22211


Q ss_pred             C-CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 004744          444 K-GCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHC  496 (732)
Q Consensus       444 ~-~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  496 (732)
                      . +...-+.++-.+-..|-..+++++++.+++.+++.... |......++..|.
T Consensus       216 ~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        216 HREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             hhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence            1 12223344445555567777777777777777776554 5566666666664

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.41  E-value=0.00035  Score=69.97  Aligned_cols=116  Identities=16%  Similarity=0.096  Sum_probs=53.7

Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCC-HhhHHHHHHHHHhcCChhHH
Q 004744          251 CKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPG-VFTYNSLINGLCKKGRCDRA  329 (732)
Q Consensus       251 ~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A  329 (732)
                      ...|.+++|++.++.+.+.-+. |+..+......+.+.++.++|.+.++++...  .|+ ...+.++..+|.+.|++.+|
T Consensus       317 ~~~~~~d~A~~~l~~L~~~~P~-N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~ea  393 (484)
T COG4783         317 YLAGQYDEALKLLQPLIAAQPD-NPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEA  393 (484)
T ss_pred             HHhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHH
Confidence            3344555555555554444211 3333334444555555555555555555443  222 33344444555555555555


Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHH
Q 004744          330 KEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCE  370 (732)
Q Consensus       330 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  370 (732)
                      +.++++..... +-|...|..|..+|...|+..++..-..+
T Consensus       394 i~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE  433 (484)
T COG4783         394 IRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAE  433 (484)
T ss_pred             HHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHH
Confidence            55555544432 33444555555555555555554444433

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.36  E-value=0.0012  Score=60.72  Aligned_cols=49  Identities=20%  Similarity=0.230  Sum_probs=22.4

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          465 MLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQK  514 (732)
Q Consensus       465 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  514 (732)
                      ++.+|.-+|++|-++ ..|+..+.+....++...|++++|..++++.+.+
T Consensus       188 k~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k  236 (299)
T KOG3081|consen  188 KIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK  236 (299)
T ss_pred             hhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            344444444444432 2334444444444444444455554444444444

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.35  E-value=0.00078  Score=62.02  Aligned_cols=236  Identities=15%  Similarity=0.121  Sum_probs=111.3

Q ss_pred             HHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChh
Q 004744          178 RTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKID  257 (732)
Q Consensus       178 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  257 (732)
                      +-|.-.|.+..++..-.......  .+...---+-++|...|.+.....   ++.. |-.|.......+......-++.+
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            44455566666655544433221  133333344455666665543322   2211 11233333333333333333333


Q ss_pred             HHH-HHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHH
Q 004744          258 SAK-MFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEM  336 (732)
Q Consensus       258 ~A~-~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  336 (732)
                      +-. ++.+.+.......+......-...|++.|++++|++......      +......=+..+.+..+.+-|.+.+++|
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------NLEAAALNVQILLKMHRFDLAEKELKKM  163 (299)
T ss_pred             HHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            322 233333333222222222223335666777777777666511      2333333334455666666666666666


Q ss_pred             HHCCCCCCHHhHHHHHHHHHc----CCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCC
Q 004744          337 LQMGLSPDTATYNTLLVESCR----KENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLV  412 (732)
Q Consensus       337 ~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~  412 (732)
                      .+.   .+..+.+.|..++.+    .+.+.+|.-+|++|.++ ..|+..+.+-.+.++...|++++|..++++...+...
T Consensus       164 q~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~  239 (299)
T KOG3081|consen  164 QQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK  239 (299)
T ss_pred             Hcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC
Confidence            653   244455544444433    34456666666666553 3455566666666666666666666666666555333


Q ss_pred             CCHHHHHHHHHHHHHcCC
Q 004744          413 PDNVLYTIIINGYCRNGF  430 (732)
Q Consensus       413 ~~~~~~~~li~~~~~~g~  430 (732)
                       ++.+...++..-...|.
T Consensus       240 -dpetL~Nliv~a~~~Gk  256 (299)
T KOG3081|consen  240 -DPETLANLIVLALHLGK  256 (299)
T ss_pred             -CHHHHHHHHHHHHHhCC
Confidence             34444444443333443

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.34  E-value=5.3e-05  Score=75.66  Aligned_cols=113  Identities=17%  Similarity=0.012  Sum_probs=50.0

Q ss_pred             HHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHH
Q 004744          181 VQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAK  260 (732)
Q Consensus       181 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  260 (732)
                      ...|.+++|+..++.++..-+. |+..+......+.+.|+.++|.+.++.++... |......-.+.++|.+.|++.+|+
T Consensus       317 ~~~~~~d~A~~~l~~L~~~~P~-N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~-P~~~~l~~~~a~all~~g~~~eai  394 (484)
T COG4783         317 YLAGQYDEALKLLQPLIAAQPD-NPYYLELAGDILLEANKAKEAIERLKKALALD-PNSPLLQLNLAQALLKGGKPQEAI  394 (484)
T ss_pred             HHhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCccHHHHHHHHHHHhcCChHHHH
Confidence            3444444444444444443332 34444444444444444444444444444431 111333334444444445544444


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 004744          261 MFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQ  296 (732)
Q Consensus       261 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  296 (732)
                      ..+.+....... |...|..|..+|.+.|+..+|..
T Consensus       395 ~~L~~~~~~~p~-dp~~w~~LAqay~~~g~~~~a~~  429 (484)
T COG4783         395 RILNRYLFNDPE-DPNGWDLLAQAYAELGNRAEALL  429 (484)
T ss_pred             HHHHHHhhcCCC-CchHHHHHHHHHHHhCchHHHHH
Confidence            444444444222 44445555555555554444443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.33  E-value=0.0003  Score=64.15  Aligned_cols=199  Identities=14%  Similarity=0.142  Sum_probs=153.3

Q ss_pred             hcCCHHHHHHHHHHHHHC---C-CCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 004744          497 KDGNMNKALNLFDIMTQK---S-IKPDIVT-YNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHV  571 (732)
Q Consensus       497 ~~g~~~~A~~~~~~~~~~---~-~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  571 (732)
                      ...+.++.++++.+++..   | ..++..+ |..++-+..-.|+.+.|...++++...- +-+...-..-...+-..|++
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhch
Confidence            456889999999988753   3 4455543 4445556667899999999999988874 33444333333445678999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          572 TEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKM  651 (732)
Q Consensus       572 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  651 (732)
                      ++|+++++..++.+ |.|.+++..-+...-..|+.-+|++-+.+..+. +..|...|.-+...|...|++++|.-.++++
T Consensus       103 ~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            99999999999886 777888887777888889988999998888874 5679999999999999999999999999999


Q ss_pred             HHCCCCC-CHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCC-CHHHHHHHH
Q 004744          652 ENQGLVP-DVITYNVILTGFCRQG---RMHDSELILWRMIEKGLNP-DRSTYTTLI  702 (732)
Q Consensus       652 ~~~g~~p-~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~g~~p-~~~~~~~l~  702 (732)
                      +-  +.| ++..+..+...+.-.|   ++.-|.++|.+.++  +.| +...+..+.
T Consensus       181 ll--~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alk--l~~~~~ral~GI~  232 (289)
T KOG3060|consen  181 LL--IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALK--LNPKNLRALFGIY  232 (289)
T ss_pred             HH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH--hChHhHHHHHHHH
Confidence            98  556 5566678888776554   67789999999999  777 445544443

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.28  E-value=4.2e-05  Score=66.31  Aligned_cols=101  Identities=11%  Similarity=0.009  Sum_probs=60.1

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004744          591 VSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGF  670 (732)
Q Consensus       591 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  670 (732)
                      .....+...+...|++++|.+.++++...+ +.+...+..+...+.+.|++++|...+++..+.+ +.+...+..+...+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            444455555666666666666666665543 2245556666666666666666666666666532 22345555566666


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          671 CRQGRMHDSELILWRMIEKGLNPDR  695 (732)
Q Consensus       671 ~~~g~~~~A~~~~~~~~~~g~~p~~  695 (732)
                      ...|++++|...|++..+  ..|+.
T Consensus        96 ~~~g~~~~A~~~~~~al~--~~p~~  118 (135)
T TIGR02552        96 LALGEPESALKALDLAIE--ICGEN  118 (135)
T ss_pred             HHcCCHHHHHHHHHHHHH--hcccc
Confidence            666666666666666666  45544

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.27  E-value=4.2e-05  Score=66.30  Aligned_cols=101  Identities=13%  Similarity=-0.048  Sum_probs=74.2

Q ss_pred             CCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 004744          167 GSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIM  246 (732)
Q Consensus       167 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  246 (732)
                      +.+......++..|.+.|++++|.+.|+.+...++. +...|..+...+.+.|++++|..+++++++.+ +.+..++..+
T Consensus        14 p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l   91 (135)
T TIGR02552        14 SEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHA   91 (135)
T ss_pred             hhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHH
Confidence            344555666777777888888888888887776654 67777777777778888888888888777654 5566666667


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhC
Q 004744          247 VNALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       247 ~~~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      ...+...|++++|...|+...+.
T Consensus        92 a~~~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        92 AECLLALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh
Confidence            77777777777777777777776

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>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=98.18  E-value=5.7e-05  Score=76.47  Aligned_cols=131  Identities=17%  Similarity=0.148  Sum_probs=108.8

Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMV  247 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  247 (732)
                      .+...-..|++.+...++++.|+.+|+++.+..  |+  ....++..+...++..+|.+++.+.++.. +.+...+....
T Consensus       167 ~~NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa  241 (395)
T PF09295_consen  167 VNNYLVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQA  241 (395)
T ss_pred             cchHHHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            345667778888888999999999999999874  33  44557888888899999999999998764 66777888888


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC
Q 004744          248 NALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGK  304 (732)
Q Consensus       248 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  304 (732)
                      ..+.+.++++.|..+.+++.+..+. +-.+|..|+..|.+.|+++.|+-.++.+...
T Consensus       242 ~fLl~k~~~~lAL~iAk~av~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~  297 (395)
T PF09295_consen  242 EFLLSKKKYELALEIAKKAVELSPS-EFETWYQLAECYIQLGDFENALLALNSCPML  297 (395)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHhcCCHHHHHHHHhcCcCC
Confidence            8899999999999999999988432 4558999999999999999999999988654

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=98.17  E-value=7e-05  Score=65.60  Aligned_cols=118  Identities=14%  Similarity=0.128  Sum_probs=72.5

Q ss_pred             HcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHH
Q 004744          602 RSGDASKADEFLSKMVSEGVDP--DSISYNTLINGFVREENMDKAFALVSKMENQGLVPD--VITYNVILTGFCRQGRMH  677 (732)
Q Consensus       602 ~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~--~~~~~~l~~~~~~~g~~~  677 (732)
                      ..++...+...++.+.+.....  .....-.+...+...|++++|...|+.+......|+  ......|...+...|+++
T Consensus        23 ~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d  102 (145)
T PF09976_consen   23 QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYD  102 (145)
T ss_pred             HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            3667777777777776643111  122233345666777777777777777777542221  123445666777778888


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          678 DSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEM  721 (732)
Q Consensus       678 ~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  721 (732)
                      +|...++.....  ......+...+++|.+.|++++|...|++.
T Consensus       103 ~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  103 EALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            887777653321  123456667777788888888888777654

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.14  E-value=0.00014  Score=63.69  Aligned_cols=125  Identities=14%  Similarity=0.212  Sum_probs=82.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHH
Q 004744          558 YGILINGYCSMGHVTEAFRLWYEMVGKGIKPT---LVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPD--SISYNTLI  632 (732)
Q Consensus       558 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li  632 (732)
                      |..++..+ ..++...+...++.+.+.. +.+   ....-.+...+...|++++|...|+........|+  ......|.
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA   92 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLA   92 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHH
Confidence            33333333 3677777777787777763 333   23334455677788888888888888887652232  22344567


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          633 NGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRM  686 (732)
Q Consensus       633 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  686 (732)
                      ..+...|++++|+..++.....  ......+...+.+|.+.|++++|...|+++
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            7778888888888888664432  234456677788888888888888888765

>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=98.12  E-value=9.8e-05  Score=74.79  Aligned_cols=120  Identities=16%  Similarity=0.140  Sum_probs=70.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 004744          595 TIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQG  674 (732)
Q Consensus       595 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g  674 (732)
                      .++..+...++++.|+++++++.+..  |+.  ...++..+...++-.+|.+++++.++. .+-+...+..-+..|.+.|
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--AVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcC
Confidence            34444555566666666666666542  332  223555555566666666666666653 1224444444555566666


Q ss_pred             CHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          675 RMHDSELILWRMIEKGLNPD-RSTYTTLINGHVSQNNLKEAFRFHDEM  721 (732)
Q Consensus       675 ~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m  721 (732)
                      +.+.|..+.+++.+  ..|+ ..+|..|+.+|.+.|++++|+-.++.+
T Consensus       249 ~~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  249 KYELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             CHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            66666666666666  5664 356666666666666666666666655

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=98.07  E-value=0.013  Score=61.18  Aligned_cols=307  Identities=11%  Similarity=0.114  Sum_probs=147.1

Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhC-CCCCCHhHHHHHHHHHHhCCCHHHHHH
Q 004744          323 KGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRR-GVAPDIVSFSTLIGIFSRNGQLDRALM  401 (732)
Q Consensus       323 ~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-g~~~~~~~~~~l~~~~~~~g~~~~A~~  401 (732)
                      -|++++|.+++-+|-+.+         ..|..+.+.|++-...++++.-... .-..-...|+.+...+.....+++|.+
T Consensus       747 ~g~feeaek~yld~drrD---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~  817 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRRD---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAK  817 (1189)
T ss_pred             hcchhHhhhhhhccchhh---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            477777777776665432         1345566667666655555321110 000113467777777777777777777


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 004744          402 YFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGV  481 (732)
Q Consensus       402 l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~  481 (732)
                      .|..-..         ....+.++.+..++++-..+...+.     .+....-.+..++...|..++|.+.|-+-   +.
T Consensus       818 yY~~~~~---------~e~~~ecly~le~f~~LE~la~~Lp-----e~s~llp~~a~mf~svGMC~qAV~a~Lr~---s~  880 (1189)
T KOG2041|consen  818 YYSYCGD---------TENQIECLYRLELFGELEVLARTLP-----EDSELLPVMADMFTSVGMCDQAVEAYLRR---SL  880 (1189)
T ss_pred             HHHhccc---------hHhHHHHHHHHHhhhhHHHHHHhcC-----cccchHHHHHHHHHhhchHHHHHHHHHhc---cC
Confidence            7765321         1223445555555554433333332     25555666777777778877777766432   11


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH--------------HHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          482 FPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTY--------------NTLIDGFCKVGEMEKANKLWADMI  547 (732)
Q Consensus       482 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~--------------~~li~~~~~~g~~~~A~~~~~~~~  547 (732)
                      +      ...+..|....++.+|.++-+...-    |.+.+.              ..-|..+.+.|+.-+|.+++.+|.
T Consensus       881 p------kaAv~tCv~LnQW~~avelaq~~~l----~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qma  950 (1189)
T KOG2041|consen  881 P------KAAVHTCVELNQWGEAVELAQRFQL----PQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMA  950 (1189)
T ss_pred             c------HHHHHHHHHHHHHHHHHHHHHhccc----hhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHh
Confidence            1      2345556666777777766554321    122211              112334455555555555555554


Q ss_pred             HC----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 004744          548 SR----KISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDP  623 (732)
Q Consensus       548 ~~----~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  623 (732)
                      +.    +.++-..--..++.++. ..++.++++-.+....+|...+...       +...|-..++-.+.+..-. |  .
T Consensus       951 e~e~~K~~p~lr~KklYVL~AlL-vE~h~~~ik~~~~~~~~g~~~dat~-------lles~~l~~~~ri~~n~Wr-g--A 1019 (1189)
T KOG2041|consen  951 EREQEKYVPYLRLKKLYVLGALL-VENHRQTIKELRKIDKHGFLEDATD-------LLESGLLAEQSRILENTWR-G--A 1019 (1189)
T ss_pred             HHHhhccCCHHHHHHHHHHHHHH-HHHHHHHHHHhhhhhhcCcchhhhh-------hhhhhhhhhHHHHHHhhhh-h--H
Confidence            32    22211111111111111 1223333333333333433222211       1122333333333332211 1  2


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHhcCCH
Q 004744          624 DSISYNTLINGFVREENMDKAFALVSKMEN-QGLVPDVITYNVILTGFCRQGRM  676 (732)
Q Consensus       624 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~g~~p~~~~~~~l~~~~~~~g~~  676 (732)
                      ...+|..|..-....|.++.|++.--.+.+ ..+-|...+|..+.-+-|....+
T Consensus      1020 EAyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raF 1073 (1189)
T KOG2041|consen 1020 EAYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAF 1073 (1189)
T ss_pred             HHHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhh
Confidence            345555666666677888888765444433 12445556676665554443333

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.99  E-value=0.00092  Score=65.37  Aligned_cols=257  Identities=10%  Similarity=0.023  Sum_probs=132.7

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 004744          422 INGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNM  501 (732)
Q Consensus       422 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  501 (732)
                      ...+.+..++.+|+..+...++..+. +...|..-...+..-+++++|.--.+.-.+.... ........-.++...++.
T Consensus        56 gn~~yk~k~Y~nal~~yt~Ai~~~pd-~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~-~~k~~~r~~~c~~a~~~~  133 (486)
T KOG0550|consen   56 GNAFYKQKTYGNALKNYTFAIDMCPD-NASYYSNRAATLMMLGRFEEALGDARQSVRLKDG-FSKGQLREGQCHLALSDL  133 (486)
T ss_pred             cchHHHHhhHHHHHHHHHHHHHhCcc-chhhhchhHHHHHHHHhHhhcccchhhheecCCC-ccccccchhhhhhhhHHH
Confidence            34677777888888888888877655 4666666666677777777777666555443221 223445555666666667


Q ss_pred             HHHHHHHHHHHH----------------CCCCCCHHHHHHH-HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004744          502 NKALNLFDIMTQ----------------KSIKPDIVTYNTL-IDGFCKVGEMEKANKLWADMISRKISPNYISYGILING  564 (732)
Q Consensus       502 ~~A~~~~~~~~~----------------~~~~~~~~~~~~l-i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  564 (732)
                      .+|.+.++.-..                ..-+|.-..+..+ ...+.-.|++++|...-..+++..   ....+...+++
T Consensus       134 i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld---~~n~~al~vrg  210 (486)
T KOG0550|consen  134 IEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD---ATNAEALYVRG  210 (486)
T ss_pred             HHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc---cchhHHHHhcc
Confidence            777666652210                0001222222222 123444566666666655555542   11222223322


Q ss_pred             --HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH-------------HHHHHHcCCHHHHHHHHHHHHHC---CCCCCHH
Q 004744          565 --YCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTI-------------IKGYCRSGDASKADEFLSKMVSE---GVDPDSI  626 (732)
Q Consensus       565 --~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l-------------~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~  626 (732)
                        +.-.++.+.|...|++.+..  .|+.......             ..-..+.|++.+|.+.|.+.+..   ++.|+..
T Consensus       211 ~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~nak  288 (486)
T KOG0550|consen  211 LCLYYNDNADKAINHFQQALRL--DPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAK  288 (486)
T ss_pred             cccccccchHHHHHHHhhhhcc--ChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHH
Confidence              22345666666666666654  3333221111             11233456666666666666543   2233344


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH--HHhcCCHHHHHHHHHHHHH
Q 004744          627 SYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTG--FCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       627 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~--~~~~g~~~~A~~~~~~~~~  688 (732)
                      .|........+.|+.++|+.--++..+  +.+. .++..+.++  +...++|++|++.++++.+
T Consensus       289 lY~nra~v~~rLgrl~eaisdc~~Al~--iD~s-yikall~ra~c~l~le~~e~AV~d~~~a~q  349 (486)
T KOG0550|consen  289 LYGNRALVNIRLGRLREAISDCNEALK--IDSS-YIKALLRRANCHLALEKWEEAVEDYEKAMQ  349 (486)
T ss_pred             HHHHhHhhhcccCCchhhhhhhhhhhh--cCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            454455555566666666666665554  2221 222222222  3344566666666666655

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.98  E-value=6.2e-05  Score=70.52  Aligned_cols=100  Identities=12%  Similarity=0.208  Sum_probs=83.5

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCC
Q 004744          597 IKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDV-ITYNVILTGFCRQGR  675 (732)
Q Consensus       597 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~g~  675 (732)
                      ..-..+.+++++|+..|.++++.. +-|.+.|..-..+|++.|.++.|++-.+..+.  +.|.. ..|..|..+|...|+
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~~~~gk  164 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGK  164 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCc
Confidence            344667889999999999999853 33677788888999999999999999999988  67765 589999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHH
Q 004744          676 MHDSELILWRMIEKGLNPDRSTYTTL  701 (732)
Q Consensus       676 ~~~A~~~~~~~~~~g~~p~~~~~~~l  701 (732)
                      +++|++.|++.++  +.|+..+|..=
T Consensus       165 ~~~A~~aykKaLe--ldP~Ne~~K~n  188 (304)
T KOG0553|consen  165 YEEAIEAYKKALE--LDPDNESYKSN  188 (304)
T ss_pred             HHHHHHHHHhhhc--cCCCcHHHHHH
Confidence            9999999999999  99977665443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.98  E-value=0.029  Score=58.79  Aligned_cols=353  Identities=14%  Similarity=0.109  Sum_probs=185.9

Q ss_pred             CCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHC-CCCCC--------HHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCC
Q 004744          307 KPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQM-GLSPD--------TATYNTLLVESCRKENMSEAEEIFCEMSRRGVA  377 (732)
Q Consensus       307 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-g~~~~--------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~  377 (732)
                      .|.+..|..|...-...-.++.|...|-+.... |++.-        ...-.+=+.+  --|++++|.+++-+|.+++  
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 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISA--FYGEFEEAEKLYLDADRRD--  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhh--hhcchhHhhhhhhccchhh--
Confidence            467778888887777777777777777665432 22100        0000111222  2488888888888776652  


Q ss_pred             CCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHH
Q 004744          378 PDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPD----NVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTY  453 (732)
Q Consensus       378 ~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  453 (732)
                             ..+..+.+.|++-...++++.-   |-..|    ...++.+...+.....+++|.+.+..-...         
T Consensus       765 -------LAielr~klgDwfrV~qL~r~g---~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~---------  825 (1189)
T KOG2041|consen  765 -------LAIELRKKLGDWFRVYQLIRNG---GSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT---------  825 (1189)
T ss_pred             -------hhHHHHHhhhhHHHHHHHHHcc---CCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch---------
Confidence                   2456677778887777776531   11111    246777888888888888888777654321         


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004744          454 NTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKV  533 (732)
Q Consensus       454 ~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  533 (732)
                      ...+.++.+..++++-..+-+.+.+     |....-.+..++...|.-++|.+.|-+..   .+      .+.+..|...
T Consensus       826 e~~~ecly~le~f~~LE~la~~Lpe-----~s~llp~~a~mf~svGMC~qAV~a~Lr~s---~p------kaAv~tCv~L  891 (1189)
T KOG2041|consen  826 ENQIECLYRLELFGELEVLARTLPE-----DSELLPVMADMFTSVGMCDQAVEAYLRRS---LP------KAAVHTCVEL  891 (1189)
T ss_pred             HhHHHHHHHHHhhhhHHHHHHhcCc-----ccchHHHHHHHHHhhchHHHHHHHHHhcc---Cc------HHHHHHHHHH
Confidence            2345556666666665555444432     55566778888888999888888774422   11      2345667777


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHH--------------HHHHHHHhcCCHHHHHHHHHHHHhC----CCCCCHHHHHH
Q 004744          534 GEMEKANKLWADMISRKISPNYISYG--------------ILINGYCSMGHVTEAFRLWYEMVGK----GIKPTLVSCNT  595 (732)
Q Consensus       534 g~~~~A~~~~~~~~~~~~~~~~~~~~--------------~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~~  595 (732)
                      ++|.+|.++-+...-    |.+.+.-              .-|..+.+.|+.-+|.+++.+|.+.    +.++-..--.-
T Consensus       892 nQW~~avelaq~~~l----~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae~e~~K~~p~lr~KklY  967 (1189)
T KOG2041|consen  892 NQWGEAVELAQRFQL----PQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKKLY  967 (1189)
T ss_pred             HHHHHHHHHHHhccc----hhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHHHH
Confidence            888888776654321    1222211              1233344445555555555555432    22221111111


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004744          596 IIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGR  675 (732)
Q Consensus       596 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~  675 (732)
                      ++.++. ..+..++.+-.++....|...+...       +...|-..++-++.+..-.   -.....+..|..--...|.
T Consensus       968 VL~AlL-vE~h~~~ik~~~~~~~~g~~~dat~-------lles~~l~~~~ri~~n~Wr---gAEAyHFmilAQrql~eg~ 1036 (1189)
T KOG2041|consen  968 VLGALL-VENHRQTIKELRKIDKHGFLEDATD-------LLESGLLAEQSRILENTWR---GAEAYHFMILAQRQLFEGR 1036 (1189)
T ss_pred             HHHHHH-HHHHHHHHHHhhhhhhcCcchhhhh-------hhhhhhhhhHHHHHHhhhh---hHHHHHHHHHHHHHHHhch
Confidence            111111 1122233333333333332222111       1222333333333332221   1123455556555667799


Q ss_pred             HHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHhcCCH
Q 004744          676 MHDSELILWRMIE-KGLNPDRSTYTTLINGHVSQNNL  711 (732)
Q Consensus       676 ~~~A~~~~~~~~~-~g~~p~~~~~~~l~~~~~~~g~~  711 (732)
                      ++.|.+.--.+.+ ..+-|-..+|..|.-+-+....+
T Consensus      1037 v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raF 1073 (1189)
T KOG2041|consen 1037 VKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAF 1073 (1189)
T ss_pred             HHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhh
Confidence            9999876655554 23556667777766554444333

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.98  E-value=0.00047  Score=59.09  Aligned_cols=93  Identities=4%  Similarity=-0.108  Sum_probs=51.0

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004744          594 NTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQ  673 (732)
Q Consensus       594 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~  673 (732)
                      -.+...+...|++++|.++|+.+.... +-+..-|-.|..++-..|++++|+..|..+.... +.|+..+-.+..++...
T Consensus        39 Y~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         39 YRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHc
Confidence            334444555666666666666555432 1134445555555556666666666666666532 12344555555666666


Q ss_pred             CCHHHHHHHHHHHHH
Q 004744          674 GRMHDSELILWRMIE  688 (732)
Q Consensus       674 g~~~~A~~~~~~~~~  688 (732)
                      |+.+.|.+.|+..+.
T Consensus       117 G~~~~A~~aF~~Ai~  131 (157)
T PRK15363        117 DNVCYAIKALKAVVR  131 (157)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            666666666666554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.94  E-value=0.027  Score=56.00  Aligned_cols=146  Identities=14%  Similarity=0.233  Sum_probs=98.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004744          520 IVTYNTLIDGFCKVGEMEKANKLWADMISRK-ISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIK  598 (732)
Q Consensus       520 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~  598 (732)
                      ...|..+++...+..-++.|..+|-+..+.+ ..+++..+++++.-++. |+...|..+|+--... ++.+..-.+..+.
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 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK-FPDSTLYKEKYLL  474 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh-CCCchHHHHHHHH
Confidence            3456666777777777888888888888777 56777788888876654 6777888888766554 2334444455666


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004744          599 GYCRSGDASKADEFLSKMVSEGVDPD--SISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGF  670 (732)
Q Consensus       599 ~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  670 (732)
                      .+...++-+.|..+|+..++. +..+  ...|..+|+--..-|++..+..+=++|.+  +-|...+.....+-|
T Consensus       475 fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~Sry  545 (660)
T COG5107         475 FLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFTSRY  545 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHHHHH
Confidence            777788888888888866543 2223  45677788777788888888877777776  455544444444434

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.93  E-value=1.5e-05  Score=49.97  Aligned_cols=33  Identities=45%  Similarity=0.898  Sum_probs=16.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCC
Q 004744          277 TYNTLINAYCREGFLEEAFQLMNSMSGKGLKPG  309 (732)
Q Consensus       277 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  309 (732)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            345555555555555555555555555544444

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.90  E-value=2.1e-05  Score=49.33  Aligned_cols=33  Identities=45%  Similarity=0.797  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 004744          697 TYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPD  729 (732)
Q Consensus       697 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd  729 (732)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            466666666666666666666666666666665

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.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.88  E-value=0.012  Score=57.84  Aligned_cols=276  Identities=14%  Similarity=0.051  Sum_probs=155.3

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 004744          175 LVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDH  254 (732)
Q Consensus       175 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  254 (732)
                      .....+.+...+.+|+..+..+.+..+. ++..|..-+..+...|++++|.--.+..++.. +.........-+++...+
T Consensus        54 ~~gn~~yk~k~Y~nal~~yt~Ai~~~pd-~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~k-d~~~k~~~r~~~c~~a~~  131 (486)
T KOG0550|consen   54 EEGNAFYKQKTYGNALKNYTFAIDMCPD-NASYYSNRAATLMMLGRFEEALGDARQSVRLK-DGFSKGQLREGQCHLALS  131 (486)
T ss_pred             hhcchHHHHhhHHHHHHHHHHHHHhCcc-chhhhchhHHHHHHHHhHhhcccchhhheecC-CCccccccchhhhhhhhH
Confidence            3455677888889999999999988776 57777777777888888888887776665542 222333444444444445


Q ss_pred             ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCC-CCCHhhHHHHH-HHHHhcCChhHHHHH
Q 004744          255 KIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGL-KPGVFTYNSLI-NGLCKKGRCDRAKEV  332 (732)
Q Consensus       255 ~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~li-~~~~~~g~~~~A~~~  332 (732)
                      +..+|...++.         ...|           ....|+..++....... +|.-.+|..+- .++.-.|+.++|.++
T Consensus       132 ~~i~A~~~~~~---------~~~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~e  191 (486)
T KOG0550|consen  132 DLIEAEEKLKS---------KQAY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSE  191 (486)
T ss_pred             HHHHHHHHhhh---------hhhh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHH
Confidence            55555544441         1111           11222233333322211 12333343332 345566777777776


Q ss_pred             HHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHh-------------HHHHHHHHHHhCCCHHHH
Q 004744          333 LDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIV-------------SFSTLIGIFSRNGQLDRA  399 (732)
Q Consensus       333 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~-------------~~~~l~~~~~~~g~~~~A  399 (732)
                      --..++.. ..+....-.-..++.-.++.+.|...|.+.++.+  |+-.             .+..-.+-..++|++..|
T Consensus       192 a~~ilkld-~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A  268 (486)
T KOG0550|consen  192 AIDILKLD-ATNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKA  268 (486)
T ss_pred             HHHHHhcc-cchhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHH
Confidence            66666542 1122221111223344666777777777766653  2211             122223345677888888


Q ss_pred             HHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHH---HHHHHHHHHhcCCHHHHHHHH
Q 004744          400 LMYFREMKSA---GLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVT---YNTILNGLCRAKMLTEADDLF  473 (732)
Q Consensus       400 ~~l~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---~~~li~~~~~~~~~~~A~~~~  473 (732)
                      .+.|.+.+..   +.+++...|........+.|+.++|+.--+...+.    |...   +..-..++...+++++|.+-|
T Consensus       269 ~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i----D~syikall~ra~c~l~le~~e~AV~d~  344 (486)
T KOG0550|consen  269 YECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI----DSSYIKALLRRANCHLALEKWEEAVEDY  344 (486)
T ss_pred             HHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc----CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888877654   23344455666666677778888887777776664    3322   222234455567777777777


Q ss_pred             HHHHHc
Q 004744          474 NEMLER  479 (732)
Q Consensus       474 ~~~~~~  479 (732)
                      +...+.
T Consensus       345 ~~a~q~  350 (486)
T KOG0550|consen  345 EKAMQL  350 (486)
T ss_pred             HHHHhh
Confidence            776654

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.87  E-value=0.032  Score=54.58  Aligned_cols=253  Identities=15%  Similarity=0.124  Sum_probs=150.3

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHHHH----HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 004744          462 RAKMLTEADDLFNEMLERGVFPDFYTF----TTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEME  537 (732)
Q Consensus       462 ~~~~~~~A~~~~~~~~~~~~~~~~~~~----~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  537 (732)
                      -.|+++.|.+-|+.|..     |+.+-    ..|.-.--+.|+.+.|.++-+..-..-.. -...+.+.++..|..|+|+
T Consensus       132 ~eG~~~~Ar~kfeAMl~-----dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd  205 (531)
T COG3898         132 LEGDYEDARKKFEAMLD-----DPETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQ-LPWAARATLEARCAAGDWD  205 (531)
T ss_pred             hcCchHHHHHHHHHHhc-----ChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccC-CchHHHHHHHHHHhcCChH
Confidence            35666666666666654     22221    22222234566667776666665544221 3455666677777777777


Q ss_pred             HHHHHHHHHHHCC-CCCCHHH--HHHHHHHHH---hcCCHHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHHcCCHHHHH
Q 004744          538 KANKLWADMISRK-ISPNYIS--YGILINGYC---SMGHVTEAFRLWYEMVGKGIKPTLVS-CNTIIKGYCRSGDASKAD  610 (732)
Q Consensus       538 ~A~~~~~~~~~~~-~~~~~~~--~~~li~~~~---~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~  610 (732)
                      .|+++.+.-.... +.++..-  -..|+.+-.   -.-+...|...-.+..+.  .||..- -..-..++.+.|+..++-
T Consensus       206 ~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~  283 (531)
T COG3898         206 GALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGS  283 (531)
T ss_pred             HHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhh
Confidence            7777776554432 1222221  111221111   112455566655555543  555432 233456788899999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          611 EFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMEN-QGLVPD-VITYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       611 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      .+++.+-+....|+  .+...  .+.+.|+  .++.-+++... ..++|| ......+..+-...|++..|..--+....
T Consensus       284 ~ilE~aWK~ePHP~--ia~lY--~~ar~gd--ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r  357 (531)
T COG3898         284 KILETAWKAEPHPD--IALLY--VRARSGD--TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR  357 (531)
T ss_pred             hHHHHHHhcCCChH--HHHHH--HHhcCCC--cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh
Confidence            99999888654444  33222  2345554  33333333322 114554 45666777777888999998888888777


Q ss_pred             cCCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHCCCCCCC
Q 004744          689 KGLNPDRSTYTTLINGHVSQ-NNLKEAFRFHDEMLQRGFVPDD  730 (732)
Q Consensus       689 ~g~~p~~~~~~~l~~~~~~~-g~~~~A~~~~~~m~~~g~~pd~  730 (732)
                        ..|....|..|.+.-... |+-.++..++-+.++..-.|+-
T Consensus       358 --~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~APrdPaW  398 (531)
T COG3898         358 --EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDPAW  398 (531)
T ss_pred             --hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCCcc
Confidence              888888888888887665 9999999999988887777653

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.86  E-value=0.00031  Score=59.18  Aligned_cols=95  Identities=9%  Similarity=0.018  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHHHH
Q 004744          592 SCNTIIKGYCRSGDASKADEFLSKMVSEGVD--PDSISYNTLINGFVREENMDKAFALVSKMENQGLVPD----VITYNV  665 (732)
Q Consensus       592 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~  665 (732)
                      ++...+..+.+.|++++|.+.|.++......  .....+..+...+.+.|++++|...++++...  .|+    ...+..
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~   81 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKK--YPKSPKAPDALLK   81 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHH--CCCCCcccHHHHH
Confidence            3444555566666666666666666553211  01234444556666666666666666666552  222    334555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH
Q 004744          666 ILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       666 l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      ++.++.+.|+.++|...++++.+
T Consensus        82 ~~~~~~~~~~~~~A~~~~~~~~~  104 (119)
T TIGR02795        82 LGMSLQELGDKEKAKATLQQVIK  104 (119)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHH
Confidence            55566666666666666666665

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.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.84  E-value=0.00072  Score=57.99  Aligned_cols=96  Identities=9%  Similarity=-0.075  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 004744          172 IFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALC  251 (732)
Q Consensus       172 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  251 (732)
                      ..-.+..-+...|++++|..+|+-+....+. +..-|..|..++-..|++++|+..|..+...+ +.|+..+-.+..++.
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L  114 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            3444566677889999999999998888766 78888888888889999999999999888876 577777777888888


Q ss_pred             hcCChhHHHHHHHHHHhC
Q 004744          252 KDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       252 ~~g~~~~A~~~~~~~~~~  269 (732)
                      ..|+.+.|++.|+..+..
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            889988888888887765

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.84  E-value=0.0047  Score=53.63  Aligned_cols=130  Identities=12%  Similarity=0.093  Sum_probs=66.3

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC---CCCCHHHH
Q 004744          552 SPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEG---VDPDSISY  628 (732)
Q Consensus       552 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~  628 (732)
                      .|+...--.|.+++...|+..||...|++...--+-.|....-.+..+....++...|...++++.+..   -.||.  .
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~--~  163 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDG--H  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCc--h
Confidence            344444445555566666666666666655543334455555555555555666666666665555532   12222  2


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004744          629 NTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWR  685 (732)
Q Consensus       629 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  685 (732)
                      -.+...+...|+..+|..-|+.+..  .-|+...-......+.++|+.++|..-+..
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~--~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAIS--YYPGPQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHH--hCCCHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            2344555555666666666666555  334443322233344455555555443333

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.84  E-value=0.00032  Score=56.04  Aligned_cols=91  Identities=18%  Similarity=0.231  Sum_probs=58.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHH
Q 004744          628 YNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTLINGH  705 (732)
Q Consensus       628 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~  705 (732)
                      +..++..+...|++++|...++++.+.  .| +...+..++..+...|++++|...+++..+  ..| +...+..++.++
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~   78 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALE--LDPDNAKAYYNLGLAY   78 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCcchhHHHHHHHHH
Confidence            344555566667777777777776663  33 334556666666667777777777777766  334 335666677777


Q ss_pred             HhcCCHHHHHHHHHHHH
Q 004744          706 VSQNNLKEAFRFHDEML  722 (732)
Q Consensus       706 ~~~g~~~~A~~~~~~m~  722 (732)
                      ...|++++|...+++..
T Consensus        79 ~~~~~~~~a~~~~~~~~   95 (100)
T cd00189          79 YKLGKYEEALEAYEKAL   95 (100)
T ss_pred             HHHHhHHHHHHHHHHHH
Confidence            77777777777777665

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.83  E-value=0.00026  Score=66.48  Aligned_cols=128  Identities=19%  Similarity=0.121  Sum_probs=97.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCH
Q 004744          563 NGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPD-SISYNTLINGFVREENM  641 (732)
Q Consensus       563 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~  641 (732)
                      +-+.+.+++.+|+..|.+.++.. +-|.+.|..=..+|++.|.++.|++-.+..+..  .|. ..+|..|..+|...|++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCcH
Confidence            45678899999999999999984 677888888899999999999999999999874  454 67899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCCHH---HHHHHHHHHHHcCCCCCH
Q 004744          642 DKAFALVSKMENQGLVPDVITYNVILTG-FCRQGRMH---DSELILWRMIEKGLNPDR  695 (732)
Q Consensus       642 ~~A~~~~~~~~~~g~~p~~~~~~~l~~~-~~~~g~~~---~A~~~~~~~~~~g~~p~~  695 (732)
                      ++|++.|++.++  +.|+..+|-.=+.. =-+.+..+   .+..-++-....|..||.
T Consensus       166 ~~A~~aykKaLe--ldP~Ne~~K~nL~~Ae~~l~e~~~~~~~~~~~d~~~~ig~~Pd~  221 (304)
T KOG0553|consen  166 EEAIEAYKKALE--LDPDNESYKSNLKIAEQKLNEPKSSAQASGSFDMAGLIGAFPDS  221 (304)
T ss_pred             HHHHHHHHhhhc--cCCCcHHHHHHHHHHHHHhcCCCcccccccchhhhhhccCCccc
Confidence            999999999999  88987776443333 22333333   333444433344454554

>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=97.83  E-value=0.00031  Score=56.12  Aligned_cols=94  Identities=16%  Similarity=0.028  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004744          173 FDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCK  252 (732)
Q Consensus       173 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  252 (732)
                      +..++..+...|++++|+..|+++.+..+. +..++..+...+...|++++|.+.|....+.. +.+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPD-NADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            344555666667777777777766655433 33555556666666666666666666665543 3333455555555555


Q ss_pred             cCChhHHHHHHHHHHh
Q 004744          253 DHKIDSAKMFLCEMEQ  268 (732)
Q Consensus       253 ~g~~~~A~~~~~~~~~  268 (732)
                      .|++++|...+....+
T Consensus        81 ~~~~~~a~~~~~~~~~   96 (100)
T cd00189          81 LGKYEEALEAYEKALE   96 (100)
T ss_pred             HHhHHHHHHHHHHHHc
Confidence            5666666555555543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.82  E-value=0.0029  Score=62.50  Aligned_cols=166  Identities=16%  Similarity=0.180  Sum_probs=79.1

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHC----CCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 004744          177 IRTYVQARKLREGSEVFRLLRNK----GICF-SINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALC  251 (732)
Q Consensus       177 ~~~~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  251 (732)
                      .+.|-..|++++|.+.|.++.+.    +-.. -...|......+.+ +++++|.+.|++++               ..|.
T Consensus        42 a~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~-~~~~~Ai~~~~~A~---------------~~y~  105 (282)
T PF14938_consen   42 ANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKK-GDPDEAIECYEKAI---------------EIYR  105 (282)
T ss_dssp             HHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH-TTHHHHHHHHHHHH---------------HHHH
T ss_pred             HHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh-hCHHHHHHHHHHHH---------------HHHH
Confidence            56677888888888888876542    1110 11223333333323 36666666665553               3455


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHhhC----CCC-CCHhhHHHHHHHHHhcCC
Q 004744          252 KDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCRE-GFLEEAFQLMNSMSGK----GLK-PGVFTYNSLINGLCKKGR  325 (732)
Q Consensus       252 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~----g~~-p~~~~~~~li~~~~~~g~  325 (732)
                      +.|++..|-+++.++               ...|-.. |++++|++.|++..+.    |-. .-...+..+...+.+.|+
T Consensus       106 ~~G~~~~aA~~~~~l---------------A~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~  170 (282)
T PF14938_consen  106 EAGRFSQAAKCLKEL---------------AEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGR  170 (282)
T ss_dssp             HCT-HHHHHHHHHHH---------------HHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-
T ss_pred             hcCcHHHHHHHHHHH---------------HHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCC
Confidence            556555554444433               3334444 6666666666665431    100 012234455555666666


Q ss_pred             hhHHHHHHHHHHHCCCCC-----CHH-hHHHHHHHHHcCCCHhHHHHHHHHHHh
Q 004744          326 CDRAKEVLDEMLQMGLSP-----DTA-TYNTLLVESCRKENMSEAEEIFCEMSR  373 (732)
Q Consensus       326 ~~~A~~~~~~~~~~g~~~-----~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~  373 (732)
                      +++|.++|+++...-...     +.. .+...+-++...|+...|.+.+++...
T Consensus       171 y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~  224 (282)
T PF14938_consen  171 YEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCS  224 (282)
T ss_dssp             HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGT
T ss_pred             HHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            666666666655432111     111 122223344445666666666665543

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.81  E-value=5e-05  Score=59.25  Aligned_cols=78  Identities=15%  Similarity=0.252  Sum_probs=51.4

Q ss_pred             cCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHH
Q 004744          638 EENMDKAFALVSKMENQGLVP---DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-RSTYTTLINGHVSQNNLKE  713 (732)
Q Consensus       638 ~g~~~~A~~~~~~~~~~g~~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~  713 (732)
                      .|++++|+.+++++.+.  .|   +...+..++.+|.+.|++++|..++++ .+  ..|. ......++.+|.+.|++++
T Consensus         2 ~~~y~~Ai~~~~k~~~~--~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~--~~~~~~~~~~l~a~~~~~l~~y~e   76 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLEL--DPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LK--LDPSNPDIHYLLARCLLKLGKYEE   76 (84)
T ss_dssp             TT-HHHHHHHHHHHHHH--HCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HT--HHHCHHHHHHHHHHHHHHTT-HHH
T ss_pred             CccHHHHHHHHHHHHHH--CCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hC--CCCCCHHHHHHHHHHHHHhCCHHH
Confidence            46777788888877773  33   344555577777788888888888877 33  3332 3455556777888888888


Q ss_pred             HHHHHHH
Q 004744          714 AFRFHDE  720 (732)
Q Consensus       714 A~~~~~~  720 (732)
                      |++.+++
T Consensus        77 Ai~~l~~   83 (84)
T PF12895_consen   77 AIKALEK   83 (84)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            8877765

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.78  E-value=0.00037  Score=68.79  Aligned_cols=210  Identities=13%  Similarity=0.106  Sum_probs=110.6

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 004744          119 MSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRN  198 (732)
Q Consensus       119 ~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  198 (732)
                      ..|......|-..|++++|...|.++..-..        .+    .........|...+..|.+. ++++|++.++++.+
T Consensus        36 ~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~--------~~----~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~  102 (282)
T PF14938_consen   36 DLYEKAANCFKLAKDWEKAAEAYEKAADCYE--------KL----GDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIE  102 (282)
T ss_dssp             HHHHHHHHHHHHTT-CHHHHHHHHHHHHHHH--------HT----T-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccchhHHHHHHHHHHHH--------Hc----CCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHH
Confidence            4455555666777888888888877753110        00    00001133444445555444 77777777666553


Q ss_pred             CCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc-CChhHHHHHHHHHHhC----CCCC
Q 004744          199 KGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKD-HKIDSAKMFLCEMEQK----GVYP  273 (732)
Q Consensus       199 ~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~----g~~p  273 (732)
                                     .|.+.|++..|-+++..+               ...|-.. |++++|.+.|++..+.    | .+
T Consensus       103 ---------------~y~~~G~~~~aA~~~~~l---------------A~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~  151 (282)
T PF14938_consen  103 ---------------IYREAGRFSQAAKCLKEL---------------AEIYEEQLGDYEKAIEYYQKAAELYEQEG-SP  151 (282)
T ss_dssp             ---------------HHHHCT-HHHHHHHHHHH---------------HHHHCCTT--HHHHHHHHHHHHHHHHHTT--H
T ss_pred             ---------------HHHhcCcHHHHHHHHHHH---------------HHHHHHHcCCHHHHHHHHHHHHHHHHHCC-Ch
Confidence                           456666666666665554               2344444 6666666666665432    1 11


Q ss_pred             C--HHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCC-----CHh-hHHHHHHHHHhcCChhHHHHHHHHHHHCC--CCC
Q 004744          274 D--TVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKP-----GVF-TYNSLINGLCKKGRCDRAKEVLDEMLQMG--LSP  343 (732)
Q Consensus       274 ~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-----~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~g--~~~  343 (732)
                      .  ..++..++..+.+.|++++|.++|++....-...     +.. .|...+-++...|+...|...+++.....  +..
T Consensus       152 ~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~  231 (282)
T PF14938_consen  152 HSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFAS  231 (282)
T ss_dssp             HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTT
T ss_pred             hhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCC
Confidence            1  2345566777888888888888888876543221     111 22334445666788888888888877542  111


Q ss_pred             C--HHhHHHHHHHHHc--CCCHhHHHHHHHHHH
Q 004744          344 D--TATYNTLLVESCR--KENMSEAEEIFCEMS  372 (732)
Q Consensus       344 ~--~~~~~~li~~~~~--~g~~~~A~~~~~~~~  372 (732)
                      +  ......|+.++-.  ...+.++..-|+.+.
T Consensus       232 s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  232 SREYKFLEDLLEAYEEGDVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             SHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS
T ss_pred             cHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccC
Confidence            1  2234445555432  223444444444443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.77  E-value=4.1e-05  Score=47.56  Aligned_cols=32  Identities=41%  Similarity=0.717  Sum_probs=15.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCC
Q 004744          277 TYNTLINAYCREGFLEEAFQLMNSMSGKGLKP  308 (732)
Q Consensus       277 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  308 (732)
                      +|+.++.+|++.|+++.|.++|+.|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            44444444444444444444444444444443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.75  E-value=5.6e-05  Score=46.95  Aligned_cols=33  Identities=27%  Similarity=0.530  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 004744          696 STYTTLINGHVSQNNLKEAFRFHDEMLQRGFVP  728 (732)
Q Consensus       696 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p  728 (732)
                      .+|+.++.+|.+.|+++.|.+++++|.+.|++|
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            356666666666666666666666666666655

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.73  E-value=0.00034  Score=68.06  Aligned_cols=133  Identities=14%  Similarity=0.060  Sum_probs=81.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH----CCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCC-CCCHH
Q 004744          592 SCNTIIKGYCRSGDASKADEFLSKMVS----EGVD-PDSISYNTLINGFVREENMDKAFALVSKMEN----QGL-VPDVI  661 (732)
Q Consensus       592 ~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~g~-~p~~~  661 (732)
                      .|..+...|.-.|+++.|+...+.-+.    .|-. .....+..|.+++.-.|+++.|.+.|+....    .|- .....
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            344555555566777777766554332    1211 1244566777778888888888887776443    221 12334


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH----cC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          662 TYNVILTGFCRQGRMHDSELILWRMIE----KG-LNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQR  724 (732)
Q Consensus       662 ~~~~l~~~~~~~g~~~~A~~~~~~~~~----~g-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  724 (732)
                      +..+|...|.-..++++|+.++.+=+.    .+ ..-...++..|+.+|...|..+.|..+.+.-++.
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~  344 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRS  344 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            556677777777778888877765432    11 1113456777888888888888888777766543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.72  E-value=0.00083  Score=56.53  Aligned_cols=91  Identities=9%  Similarity=0.078  Sum_probs=44.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC----HHHHHH
Q 004744          629 NTLINGFVREENMDKAFALVSKMENQGLVPD----VITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD----RSTYTT  700 (732)
Q Consensus       629 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~  700 (732)
                      ..++..+.+.|++++|.+.++++...  .|+    ...+..++.++.+.|++++|...++++..  ..|+    ...+..
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~p~~~~~~~~~~~   81 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKK--YPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVK--KYPKSPKAPDALLK   81 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH--CCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHH--HCCCCCcccHHHHH
Confidence            33444455555555555555555542  121    22344455555555555555555555554  2222    234455


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH
Q 004744          701 LINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       701 l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      ++.++.+.|++++|.+.++++++
T Consensus        82 ~~~~~~~~~~~~~A~~~~~~~~~  104 (119)
T TIGR02795        82 LGMSLQELGDKEKAKATLQQVIK  104 (119)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHH
Confidence            55555555555555555555553

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.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.72  E-value=0.066  Score=53.59  Aligned_cols=71  Identities=14%  Similarity=0.263  Sum_probs=38.4

Q ss_pred             HHcCCHHHHHHHHHHHhhC--CCCC------------CHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC----CCCHHh
Q 004744          286 CREGFLEEAFQLMNSMSGK--GLKP------------GVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGL----SPDTAT  347 (732)
Q Consensus       286 ~~~g~~~~A~~~~~~m~~~--g~~p------------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~----~~~~~~  347 (732)
                      .+.|++++|.+.+..-.+.  +..|            |-.-=+..++.+...|++.+++.+++++...=+    .-+..+
T Consensus        90 Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~  169 (549)
T PF07079_consen   90 YKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDM  169 (549)
T ss_pred             HHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHH
Confidence            4566666666666555443  2111            111124445666677777777777777664322    245566


Q ss_pred             HHHHHHHHH
Q 004744          348 YNTLLVESC  356 (732)
Q Consensus       348 ~~~li~~~~  356 (732)
                      |+.++-.+.
T Consensus       170 yd~~vlmls  178 (549)
T PF07079_consen  170 YDRAVLMLS  178 (549)
T ss_pred             HHHHHHHHh
Confidence            666555543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.71  E-value=0.00077  Score=66.23  Aligned_cols=129  Identities=13%  Similarity=0.132  Sum_probs=75.0

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHH-cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          171 LIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVK-IGWVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       171 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      .+|..+++..-+.+..+.|..+|.++++.+.. +...|-.....-.+ .++.+.|..+|+..++. ++.+...|...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~-~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRC-TYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS--THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            35666666666666777777777777654322 33344444433223 45555577777776664 45566666666677


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 004744          250 LCKDHKIDSAKMFLCEMEQKGVYPDT----VTYNTLINAYCREGFLEEAFQLMNSMSG  303 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~  303 (732)
                      +.+.++.+.|+.+|++....  .|..    ..|...+..-.+.|+++.+.++.+++.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~--l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS--LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT--SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh--cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            77777777777777776654  2222    2566666666666666666666666655

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=97.71  E-value=0.0025  Score=67.95  Aligned_cols=73  Identities=15%  Similarity=0.130  Sum_probs=54.5

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 004744          623 PDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYT  699 (732)
Q Consensus       623 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~  699 (732)
                      .+...|..+.-.+...|++++|...+++++.  +.|+...|..++..+...|+.++|...++++..  +.|...+|.
T Consensus       418 ~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~--L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~--L~P~~pt~~  490 (517)
T PRK10153        418 VLPRIYEILAVQALVKGKTDEAYQAINKAID--LEMSWLNYVLLGKVYELKGDNRLAADAYSTAFN--LRPGENTLY  490 (517)
T ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCCchHH
Confidence            3456666666666667888888888888888  457777788888888888888888888888887  677655543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.68  E-value=0.0031  Score=57.13  Aligned_cols=113  Identities=17%  Similarity=0.140  Sum_probs=55.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHH
Q 004744          592 SCNTIIKGYCRSGDASKADEFLSKMVSEGVDPD--SISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILT  668 (732)
Q Consensus       592 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~  668 (732)
                      .+..+...+...|++++|...|++.++....+.  ...+..++..+.+.|++++|...++++..  ..| +...+..++.
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~  114 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE--LNPKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCcccHHHHHHHHH
Confidence            344444455555555555555555554321111  23445555555555666666666555555  233 2334444444


Q ss_pred             HHHhcCC--------------HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 004744          669 GFCRQGR--------------MHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNN  710 (732)
Q Consensus       669 ~~~~~g~--------------~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~  710 (732)
                      ++...|+              +++|..+++++..  ..|+.  |..++..+...|+
T Consensus       115 ~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~--~~p~~--~~~~~~~~~~~~~  166 (172)
T PRK02603        115 IYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIR--LAPNN--YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHh--hCchh--HHHHHHHHHhcCc
Confidence            5544444              4556666666655  44543  4444444444443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.67  E-value=0.0011  Score=67.66  Aligned_cols=92  Identities=9%  Similarity=-0.063  Sum_probs=72.3

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004744          177 IRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKI  256 (732)
Q Consensus       177 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  256 (732)
                      +..+...|++++|++.|+++++.++. +...|..+..+|.+.|++++|+..++++++.. +.+...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCH
Confidence            45566778888888888888887765 67778888888888888888888888887764 55667777778888888888


Q ss_pred             hHHHHHHHHHHhCC
Q 004744          257 DSAKMFLCEMEQKG  270 (732)
Q Consensus       257 ~~A~~~~~~~~~~g  270 (732)
                      ++|...|++..+.+
T Consensus        87 ~eA~~~~~~al~l~  100 (356)
T PLN03088         87 QTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHhC
Confidence            88888888887764

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.65  E-value=0.0033  Score=67.05  Aligned_cols=134  Identities=11%  Similarity=0.096  Sum_probs=90.4

Q ss_pred             CCCCHHHHHHHHHHHHH--cC---CHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhc--------CCHHHHHHHHHHH
Q 004744          586 IKPTLVSCNTIIKGYCR--SG---DASKADEFLSKMVSEGVDPD-SISYNTLINGFVRE--------ENMDKAFALVSKM  651 (732)
Q Consensus       586 ~~~~~~~~~~l~~~~~~--~g---~~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~--------g~~~~A~~~~~~~  651 (732)
                      .+.+...|..++.+...  .+   +.+.|+.+|+++++.  .|+ ...|..+..++...        +++..+.+..++.
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            35555666666655332  22   255677777777663  344 33444333333211        2234555555554


Q ss_pred             HHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          652 ENQG-LVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       652 ~~~g-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      .... ...++..|..+.-.....|++++|...++++++  +.|+...|..++.++...|+.++|.+.+++..+
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~--L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~  481 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAID--LEMSWLNYVLLGKVYELKGDNRLAADAYSTAFN  481 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4421 234567788887777788999999999999999  778889999999999999999999999999884

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.65  E-value=0.0021  Score=58.20  Aligned_cols=132  Identities=14%  Similarity=-0.024  Sum_probs=92.9

Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccC--HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFS--INACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNI  245 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  245 (732)
                      .....+..++..|...|++++|+..|+++.+.++.+.  ...+..+...+.+.|++++|...+.++++.. +.+...+..
T Consensus        33 ~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~  111 (172)
T PRK02603         33 KEAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNN  111 (172)
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHH
Confidence            3466778888889999999999999999987654432  4678888899999999999999999998864 455667777


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCC
Q 004744          246 MVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGR  325 (732)
Q Consensus       246 l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  325 (732)
                      +...+...|+...+..-++....                     .+++|.+.+++....    ++..|..++..+...|+
T Consensus       112 lg~~~~~~g~~~~a~~~~~~A~~---------------------~~~~A~~~~~~a~~~----~p~~~~~~~~~~~~~~~  166 (172)
T PRK02603        112 IAVIYHKRGEKAEEAGDQDEAEA---------------------LFDKAAEYWKQAIRL----APNNYIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHHcCChHhHhhCHHHHHH---------------------HHHHHHHHHHHHHhh----CchhHHHHHHHHHhcCc
Confidence            77888887776555543333221                     256667777776654    22335555555554443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.64  E-value=0.00011  Score=57.23  Aligned_cols=81  Identities=14%  Similarity=0.025  Sum_probs=38.1

Q ss_pred             cCChHHHHHHHHHHHHCCCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHH
Q 004744          183 ARKLREGSEVFRLLRNKGIC-FSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKM  261 (732)
Q Consensus       183 ~g~~~~A~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  261 (732)
                      +|++++|+.+|+++.+..+. ++...+..+..++.+.|++++|.++++. .+.+ +.+....-.+..++.+.|++++|++
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            45556666666666555432 1233344455555555666666555555 2211 1122223333455555555555555


Q ss_pred             HHHH
Q 004744          262 FLCE  265 (732)
Q Consensus       262 ~~~~  265 (732)
                      +|++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            5543

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.62  E-value=0.0016  Score=66.43  Aligned_cols=91  Identities=15%  Similarity=0.101  Sum_probs=53.6

Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHH
Q 004744          599 GYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMH  677 (732)
Q Consensus       599 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~  677 (732)
                      .+...|++++|++.|+++++.. +.+...|..+..+|.+.|++++|+..+++++.  +.| +...|..++.+|...|+++
T Consensus        11 ~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~--l~P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         11 EAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIE--LDPSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHhCCHH
Confidence            3445566666666666666543 12345555566666666666666666666665  334 3445556666666666666


Q ss_pred             HHHHHHHHHHHcCCCCC
Q 004744          678 DSELILWRMIEKGLNPD  694 (732)
Q Consensus       678 ~A~~~~~~~~~~g~~p~  694 (732)
                      +|...|+++++  +.|+
T Consensus        88 eA~~~~~~al~--l~P~  102 (356)
T PLN03088         88 TAKAALEKGAS--LAPG  102 (356)
T ss_pred             HHHHHHHHHHH--hCCC
Confidence            66666666666  5554

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.62  E-value=0.0014  Score=66.85  Aligned_cols=120  Identities=22%  Similarity=0.299  Sum_probs=66.6

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHH
Q 004744          237 ELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQK--GVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYN  314 (732)
Q Consensus       237 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  314 (732)
                      +.+......+++.+....+++++..++-+....  ...--..|..++|+.|.+.|..++++.+++.=...|+-||..++|
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            444445555555555555556666665555443  111112234466666666666666666666666666666666666


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHH
Q 004744          315 SLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESC  356 (732)
Q Consensus       315 ~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~  356 (732)
                      .|++.+.+.|++..|.++..+|...+...+..++..-+.++.
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~  184 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCY  184 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHH
Confidence            666666666666666666666655544444444443333333

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 [].

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.62  E-value=0.0021  Score=61.04  Aligned_cols=113  Identities=12%  Similarity=0.070  Sum_probs=73.9

Q ss_pred             HHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcC---ChHHHHHHHHHH
Q 004744          155 IVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIG---WVDLAREVYAEV  231 (732)
Q Consensus       155 ~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g---~~~~a~~~~~~~  231 (732)
                      +...+-......+.|..-|..|+..|...|+++.|...|++..+..++ |...+..+..++..+.   ...++.++|+++
T Consensus       141 l~a~Le~~L~~nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~-n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~a  219 (287)
T COG4235         141 LIARLETHLQQNPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGD-NPEILLGLAEALYYQAGQQMTAKARALLRQA  219 (287)
T ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCcccHHHHHHHHHH
Confidence            333444444556677777777777777777777777777777776544 6666666666654432   355666777777


Q ss_pred             HHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 004744          232 VRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       232 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      ++.+ +.|+.+...|...+...|++.+|...++.|.+.
T Consensus       220 l~~D-~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         220 LALD-PANIRALSLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            6654 555566666666666777777777777777665

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.61  E-value=0.096  Score=52.51  Aligned_cols=145  Identities=12%  Similarity=0.139  Sum_probs=81.3

Q ss_pred             HHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHH
Q 004744          127 FLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSIN  206 (732)
Q Consensus       127 ~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  206 (732)
                      ++-+.+++++|..+|.++..+.-.++..+-            ....-+.++++|...+ .+.-........+..+   ..
T Consensus        15 ~Lqkq~~~~esEkifskI~~e~~~~~f~lk------------eEvl~grilnAffl~n-ld~Me~~l~~l~~~~~---~s   78 (549)
T PF07079_consen   15 ILQKQKKFQESEKIFSKIYDEKESSPFLLK------------EEVLGGRILNAFFLNN-LDLMEKQLMELRQQFG---KS   78 (549)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhhcchHHHH------------HHHHhhHHHHHHHHhh-HHHHHHHHHHHHHhcC---Cc
Confidence            567889999999999888754322221111            1344556777776543 3444444444444321   22


Q ss_pred             HHHHHHHHH--HHcCChHHHHHHHHHHHHc--CCC------------CCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 004744          207 ACNSLLGGL--VKIGWVDLAREVYAEVVRS--GIE------------LNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKG  270 (732)
Q Consensus       207 ~~~~ll~~~--~~~g~~~~a~~~~~~~~~~--~~~------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g  270 (732)
                      .|-.+..++  -+.+.++.|.+.+......  +..            +|-..-+..+.++.+.|++.+++.+++++...=
T Consensus        79 ~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~l  158 (549)
T PF07079_consen   79 AYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERL  158 (549)
T ss_pred             hHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHH
Confidence            344444433  4778888888888766543  211            222233455666677777777777666665432


Q ss_pred             C----CCCHHHHHHHHHHHHH
Q 004744          271 V----YPDTVTYNTLINAYCR  287 (732)
Q Consensus       271 ~----~p~~~~~~~li~~~~~  287 (732)
                      +    .-++.+|+.++-++.+
T Consensus       159 lkrE~~w~~d~yd~~vlmlsr  179 (549)
T PF07079_consen  159 LKRECEWNSDMYDRAVLMLSR  179 (549)
T ss_pred             hhhhhcccHHHHHHHHHHHhH
Confidence            2    2456666665555544

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.58  E-value=0.16  Score=54.29  Aligned_cols=341  Identities=11%  Similarity=0.080  Sum_probs=176.6

Q ss_pred             CCCCCCHHhHH-----HHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCC--HHHHHHHH-HHHHHCC
Q 004744          339 MGLSPDTATYN-----TLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQ--LDRALMYF-REMKSAG  410 (732)
Q Consensus       339 ~g~~~~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~--~~~A~~l~-~~~~~~~  410 (732)
                      .|++....-|.     .+++-+...+.+..|.++-..+...-.. ...+|......+.+..+  -+++.+.. +++... 
T Consensus       426 ~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~-~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~-  503 (829)
T KOG2280|consen  426 IGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQ-GDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK-  503 (829)
T ss_pred             cCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCcccc-ccHHHHHHHHHHHhccCccchHHHHHHHHHhccc-
Confidence            35555554443     3466667777888888877666432212 14555555555555532  12222222 222221 


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC----cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH
Q 004744          411 LVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCV----MDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFY  486 (732)
Q Consensus       411 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  486 (732)
                      . .+..+|..+.+-....|+.+-|..+++.=...+..    .+..-+...+.-..+.|+.+-...++-.+...-   +..
T Consensus       504 ~-~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~---~~s  579 (829)
T KOG2280|consen  504 L-TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKL---NRS  579 (829)
T ss_pred             C-CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHH---HHH
Confidence            1 24456777777777788888887776542221111    011112222333344444444444444443320   000


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH-H----HCCCCCCHHHHHHH
Q 004744          487 TFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADM-I----SRKISPNYISYGIL  561 (732)
Q Consensus       487 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~----~~~~~~~~~~~~~l  561 (732)
                            +.+....+...|..+|.+..++.   |..+   +-+.|....+...+-.+.-+- .    ..+..|+   ....
T Consensus       580 ------~l~~~l~~~p~a~~lY~~~~r~~---~~~~---l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~---lk~~  644 (829)
T KOG2280|consen  580 ------SLFMTLRNQPLALSLYRQFMRHQ---DRAT---LYDFYNQDDNHQALASFHLQASYAAETIEGRIPA---LKTA  644 (829)
T ss_pred             ------HHHHHHHhchhhhHHHHHHHHhh---chhh---hhhhhhcccchhhhhhhhhhhhhhhhhhcccchh---HHHH
Confidence                  11112234455556665554431   1111   222233222222222111111 0    0111222   2233


Q ss_pred             HHHHHhcCCH----------HHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 004744          562 INGYCSMGHV----------TEAFRLWYEMVGK-GIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNT  630 (732)
Q Consensus       562 i~~~~~~g~~----------~~A~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  630 (732)
                      .+.+.+....          .+-+.+.+.+... |......+.+--+.-+...|+..+|.++-.+..    -||...|..
T Consensus       645 a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wL  720 (829)
T KOG2280|consen  645 ANAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWL  720 (829)
T ss_pred             HHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHH
Confidence            3444443331          1122222222221 223333445555566677899999998887764    378888888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 004744          631 LINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNN  710 (732)
Q Consensus       631 li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~  710 (732)
                      -+.+++..+++++-+++-+....      +.-|.-...+|.+.|+.+||.+++-+...     .    ...+.+|.+.|+
T Consensus       721 k~~aLa~~~kweeLekfAkskks------PIGy~PFVe~c~~~~n~~EA~KYiprv~~-----l----~ekv~ay~~~~~  785 (829)
T KOG2280|consen  721 KLTALADIKKWEELEKFAKSKKS------PIGYLPFVEACLKQGNKDEAKKYIPRVGG-----L----QEKVKAYLRVGD  785 (829)
T ss_pred             HHHHHHhhhhHHHHHHHHhccCC------CCCchhHHHHHHhcccHHHHhhhhhccCC-----h----HHHHHHHHHhcc
Confidence            88899999999888777665442      45577788899999999999998766532     1    156778888899


Q ss_pred             HHHHHHHHH
Q 004744          711 LKEAFRFHD  719 (732)
Q Consensus       711 ~~~A~~~~~  719 (732)
                      +.+|.+.--
T Consensus       786 ~~eAad~A~  794 (829)
T KOG2280|consen  786 VKEAADLAA  794 (829)
T ss_pred             HHHHHHHHH
Confidence            988887643

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.57  E-value=0.016  Score=55.52  Aligned_cols=83  Identities=7%  Similarity=-0.018  Sum_probs=51.3

Q ss_pred             ChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHH
Q 004744          117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLL  196 (732)
Q Consensus       117 ~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  196 (732)
                      +...+-.....+...|++++|...|.+++...+.++.               .....-.++.+|.+.+++++|+..|++.
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~---------------a~~a~l~la~ayy~~~~y~~A~~~~e~f   95 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPY---------------SQQVQLDLIYAYYKNADLPLAQAAIDRF   95 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChH---------------HHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            3444445556667788888888888888754332211               1223345677888888888888888888


Q ss_pred             HHCCCccCHHHHHHHHHH
Q 004744          197 RNKGICFSINACNSLLGG  214 (732)
Q Consensus       197 ~~~~~~~~~~~~~~ll~~  214 (732)
                      .+..|.-...-+...+.+
T Consensus        96 i~~~P~~~~~~~a~Y~~g  113 (243)
T PRK10866         96 IRLNPTHPNIDYVLYMRG  113 (243)
T ss_pred             HHhCcCCCchHHHHHHHH
Confidence            877554333333333333

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.57  E-value=8.5e-05  Score=44.93  Aligned_cols=28  Identities=43%  Similarity=0.905  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhC
Q 004744          277 TYNTLINAYCREGFLEEAFQLMNSMSGK  304 (732)
Q Consensus       277 ~~~~li~~~~~~g~~~~A~~~~~~m~~~  304 (732)
                      +|++++++|++.|++++|.++|++|.+.
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~   29 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRER   29 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHC
Confidence            3444555555555555555555554444

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.56  E-value=0.0012  Score=67.29  Aligned_cols=124  Identities=10%  Similarity=0.108  Sum_probs=97.7

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 004744          515 SIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISR--KISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVS  592 (732)
Q Consensus       515 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  592 (732)
                      +.+.+......+++.+....+++++..++.+....  ....-..|..+++..|.+.|..++++.+++.=...|+-||..+
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            44556777778888888888888888888887764  1212234556899999999999999999999888999999999


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004744          593 CNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVRE  638 (732)
Q Consensus       593 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  638 (732)
                      +|.+++.+.+.|++..|.++...|...+...+..|+...+.+|.+-
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            9999999999999999999998888776666667766666555554

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 [].

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.55  E-value=0.0015  Score=59.01  Aligned_cols=93  Identities=13%  Similarity=0.026  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHH
Q 004744          625 SISYNTLINGFVREENMDKAFALVSKMENQGLVP--DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-RSTYTTL  701 (732)
Q Consensus       625 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l  701 (732)
                      ...|..++..+...|++++|+..+++.......+  ...+|..+...+...|++++|...++++.+  +.|+ ..++..+
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~--~~~~~~~~~~~l  112 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE--RNPFLPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCcCcHHHHHHH
Confidence            3344555555556666666666666665521111  123566666666666666666666666665  4443 3445555


Q ss_pred             HHHHH-------hcCCHHHHHHHHH
Q 004744          702 INGHV-------SQNNLKEAFRFHD  719 (732)
Q Consensus       702 ~~~~~-------~~g~~~~A~~~~~  719 (732)
                      +..+.       ..|++++|...++
T Consensus       113 a~i~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033        113 AVICHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHHHHhhHHHHHcccHHHHHHHHH
Confidence            55555       5566554444443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.55  E-value=0.0024  Score=62.82  Aligned_cols=130  Identities=10%  Similarity=0.076  Sum_probs=80.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004744          521 VTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCS-MGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKG  599 (732)
Q Consensus       521 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  599 (732)
                      .+|..++....+.+..+.|..+|.+..+.+ ..+...|...+..-.. .++.+.|..+|+...+. ++.+...|...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            356666677777777777777777776432 2234444444444233 45555577777777765 46666777777777


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          600 YCRSGDASKADEFLSKMVSEGVDPD---SISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       600 ~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      +.+.|+.+.|+.+|++.+.. +.++   ...|...+..-.+.|+++.+.++.+++.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            77777777777777777654 2222   23677777777777777777777777776

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.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.51  E-value=0.0033  Score=56.69  Aligned_cols=81  Identities=11%  Similarity=-0.108  Sum_probs=62.1

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCcc--CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICF--SINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMV  247 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  247 (732)
                      ...|..++..+...|++++|+..|+++......+  ...++..+...+...|++++|...++.+++.. +....++..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            5567777888888999999999999998764332  23578888899999999999999999988753 44455666666


Q ss_pred             HHHH
Q 004744          248 NALC  251 (732)
Q Consensus       248 ~~~~  251 (732)
                      ..+.
T Consensus       114 ~i~~  117 (168)
T CHL00033        114 VICH  117 (168)
T ss_pred             HHHH
Confidence            6666

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.49  E-value=0.0065  Score=55.84  Aligned_cols=132  Identities=11%  Similarity=0.004  Sum_probs=65.7

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHH----
Q 004744          242 TLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLI----  317 (732)
Q Consensus       242 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li----  317 (732)
                      +.+.+++++.-.|++.-....+.+.++...+.+......|++.-.+.||.+.|...|++..+..-..|..+.+.++    
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            3444555555555555555555555555444455555555555555666666666665443322222333333222    


Q ss_pred             -HHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhC
Q 004744          318 -NGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRR  374 (732)
Q Consensus       318 -~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  374 (732)
                       ..|.-.+++.+|...+.+....+ +.|...-|.-.-+..-.|+..+|.+.++.|.+.
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence             22334455555555565555443 233333333333333456666666666666554

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.49  E-value=0.0019  Score=63.07  Aligned_cols=131  Identities=15%  Similarity=0.101  Sum_probs=64.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH----CCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CCCHHH
Q 004744          488 FTTLIHGHCKDGNMNKALNLFDIMTQ----KSI-KPDIVTYNTLIDGFCKVGEMEKANKLWADMISR----KI-SPNYIS  557 (732)
Q Consensus       488 ~~~li~~~~~~g~~~~A~~~~~~~~~----~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~~~  557 (732)
                      |..|...|.-.|+++.|+...+.-+.    -|- ......+..+.+++.-.|+++.|.+.|+.....    |- .....+
T Consensus       198 ~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQs  277 (639)
T KOG1130|consen  198 YGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQS  277 (639)
T ss_pred             hcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHH
Confidence            44444444445555555555443221    110 012234445555555566666666655543321    11 112233


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 004744          558 YGILINGYCSMGHVTEAFRLWYEMVGK-----GIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVS  618 (732)
Q Consensus       558 ~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  618 (732)
                      .-+|.+.|.-..++++|+..+..-+..     ...-....+-++..++...|..++|..+.+..++
T Consensus       278 cYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  278 CYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            445556666666666666666543321     1122345566667777777777777666655543

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.44  E-value=0.00017  Score=43.60  Aligned_cols=29  Identities=41%  Similarity=0.699  Sum_probs=17.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 004744          697 TYTTLINGHVSQNNLKEAFRFHDEMLQRG  725 (732)
Q Consensus       697 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  725 (732)
                      +|+.++++|++.|++++|.+++++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555666666666666666666665554

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.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.44  E-value=0.038  Score=52.91  Aligned_cols=55  Identities=15%  Similarity=0.077  Sum_probs=25.6

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          460 LCRAKMLTEADDLFNEMLERGVFPDFY--TFTTLIHGHCKDGNMNKALNLFDIMTQK  514 (732)
Q Consensus       460 ~~~~~~~~~A~~~~~~~~~~~~~~~~~--~~~~li~~~~~~g~~~~A~~~~~~~~~~  514 (732)
                      +.+.|++++|.+.|+.+....+.+...  ..-.++.++.+.+++++|...+++.++.
T Consensus        42 ~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         42 KLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            444555555555555555543221111  1123344445555555555555555544

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.44  E-value=0.07  Score=46.65  Aligned_cols=124  Identities=15%  Similarity=0.100  Sum_probs=52.4

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHH
Q 004744          588 PTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPD---VITYN  664 (732)
Q Consensus       588 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~---~~~~~  664 (732)
                      |....-..+..+..+.|+..+|...|++...--...|....-.+..+....+++.+|...++++.+.  +|+   +.+..
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~--~pa~r~pd~~L  164 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEY--NPAFRSPDGHL  164 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhc--CCccCCCCchH
Confidence            3333334444444445555555555544443222233444444444444445555555554444442  111   11222


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 004744          665 VILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAF  715 (732)
Q Consensus       665 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~  715 (732)
                      .+.+.+...|+..+|+..|+.+..  ..|+...-......+.++|+.++|.
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~--~ypg~~ar~~Y~e~La~qgr~~ea~  213 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAIS--YYPGPQARIYYAEMLAKQGRLREAN  213 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHH--hCCCHHHHHHHHHHHHHhcchhHHH
Confidence            334444444555555555555444  3333332222333344444444443

>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=97.42  E-value=0.00079  Score=50.08  Aligned_cols=62  Identities=18%  Similarity=0.244  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q 004744          660 VITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-RSTYTTLINGHVSQN-NLKEAFRFHDEMLQ  723 (732)
Q Consensus       660 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g-~~~~A~~~~~~m~~  723 (732)
                      ..+|..++..+...|++++|+..|+++++  +.|+ ...|..++.+|...| ++++|.+.+++.++
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~--~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIE--LDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHH--HSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            45566666666677777777777777776  5553 466666777777777 57777777766653

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.41  E-value=0.00077  Score=49.40  Aligned_cols=58  Identities=19%  Similarity=0.090  Sum_probs=44.2

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 004744          176 VIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRS  234 (732)
Q Consensus       176 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  234 (732)
                      ++..+.+.|++++|+..|+++++..+. +...+..+..++.+.|++++|..+|+++++.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            456677888888888888888877655 6777788888888888888888888887765

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.40  E-value=0.011  Score=49.08  Aligned_cols=106  Identities=18%  Similarity=0.103  Sum_probs=65.7

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCccC--HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC---CHHHHHHHHHHH
Q 004744          176 VIRTYVQARKLREGSEVFRLLRNKGICFS--INACNSLLGGLVKIGWVDLAREVYAEVVRSGIEL---NVYTLNIMVNAL  250 (732)
Q Consensus       176 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~  250 (732)
                      +..++-..|+.++|+..|++....|....  ...+-.+.+.+...|++++|..++++..... +.   +......+.-++
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~-p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF-PDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCccccHHHHHHHHHHH
Confidence            45566777888888888888888776533  3355666677778888888888888776542 22   222223334456


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 004744          251 CKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYC  286 (732)
Q Consensus       251 ~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~  286 (732)
                      ...|+.++|...+-.....    +...|.--|..|.
T Consensus        86 ~~~gr~~eAl~~~l~~la~----~~~~y~ra~~~ya  117 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEALAE----TLPRYRRAIRFYA  117 (120)
T ss_pred             HHCCCHHHHHHHHHHHHHH----HHHHHHHHHHHHH
Confidence            6777777777776655432    3334444444443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.38  E-value=0.00064  Score=49.84  Aligned_cols=53  Identities=17%  Similarity=0.259  Sum_probs=26.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          668 TGFCRQGRMHDSELILWRMIEKGLNPD-RSTYTTLINGHVSQNNLKEAFRFHDEML  722 (732)
Q Consensus       668 ~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~  722 (732)
                      ..+...|++++|...|+++++  ..|+ ...+..++.++...|++++|...+++++
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALK--QDPDNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHC--CSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344455555555555555555  3342 3455555555555555555555555554

>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=97.34  E-value=0.00097  Score=49.58  Aligned_cols=63  Identities=11%  Similarity=0.209  Sum_probs=47.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q 004744          624 DSISYNTLINGFVREENMDKAFALVSKMENQGLVPD-VITYNVILTGFCRQG-RMHDSELILWRMIE  688 (732)
Q Consensus       624 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~  688 (732)
                      +...|..+...+...|++++|+..|++.++  +.|+ ...|..++.++...| ++++|+..+++.++
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~--~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIE--LDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHH--HSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            455677777788888888888888888887  4453 457777777888888 68888888888776

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.33  E-value=0.013  Score=55.84  Aligned_cols=105  Identities=15%  Similarity=0.035  Sum_probs=52.9

Q ss_pred             HHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC---ChhHHHHHHHHHHhCCCCC
Q 004744          197 RNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDH---KIDSAKMFLCEMEQKGVYP  273 (732)
Q Consensus       197 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~g~~p  273 (732)
                      +..++. |...|-.|...|.+.|+++.|..-|.++.+.. +++...+..+..++....   .-.++..+|+++.+.+.. 
T Consensus       149 L~~nP~-d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~-  225 (287)
T COG4235         149 LQQNPG-DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPA-  225 (287)
T ss_pred             HHhCCC-CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCc-
Confidence            334444 55555555555555555555555555555543 444455544444443321   123455555555555322 


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC
Q 004744          274 DTVTYNTLINAYCREGFLEEAFQLMNSMSGK  304 (732)
Q Consensus       274 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  304 (732)
                      |+.+...|...+...|++.+|...++.|.+.
T Consensus       226 ~iral~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         226 NIRALSLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             cHHHHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            3444444445555555555555555555544

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.30  E-value=0.0056  Score=48.67  Aligned_cols=72  Identities=17%  Similarity=0.276  Sum_probs=32.3

Q ss_pred             HHHHcCChHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcC--------ChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004744          214 GLVKIGWVDLAREVYAEVVRSGI-ELNVYTLNIMVNALCKDH--------KIDSAKMFLCEMEQKGVYPDTVTYNTLINA  284 (732)
Q Consensus       214 ~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~~~~~g~~p~~~~~~~li~~  284 (732)
                      .+...+++.....+|+.+.+.|+ -|++.+|+.++.+.++..        ++-+.+.+++.|...+++|+..+|+.++..
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            33334455555555555555554 445555555544443321        112233344444444444555555444443


Q ss_pred             H
Q 004744          285 Y  285 (732)
Q Consensus       285 ~  285 (732)
                      +
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 [, , ].

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.30  E-value=0.056  Score=56.26  Aligned_cols=36  Identities=25%  Similarity=0.423  Sum_probs=21.1

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 004744          262 FLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNS  300 (732)
Q Consensus       262 ~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  300 (732)
                      -++++.+.|-.|+...   +...++-.|.+.+|-++|.+
T Consensus       622 EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~  657 (1081)
T KOG1538|consen  622 ELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKR  657 (1081)
T ss_pred             HHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHH
Confidence            4556666666666543   23345556677777766654

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.30  E-value=0.0043  Score=49.30  Aligned_cols=81  Identities=20%  Similarity=0.226  Sum_probs=69.9

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCC-ccCHHHHHHHHHHHHHcC--------ChHHHHHHHHHHHHcCCCCCHHH
Q 004744          172 IFDLVIRTYVQARKLREGSEVFRLLRNKGI-CFSINACNSLLGGLVKIG--------WVDLAREVYAEVVRSGIELNVYT  242 (732)
Q Consensus       172 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~g--------~~~~a~~~~~~~~~~~~~~~~~~  242 (732)
                      +....|..+...+++..--.+|+.+++.|+ .|+..+|+.++.+.++..        +.-..+.+|+.|+..++.|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            344556667777999999999999999999 899999999999988763        35677899999999999999999


Q ss_pred             HHHHHHHHHh
Q 004744          243 LNIMVNALCK  252 (732)
Q Consensus       243 ~~~l~~~~~~  252 (732)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9999988765

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 [, , ].

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.26  E-value=0.0042  Score=59.84  Aligned_cols=86  Identities=10%  Similarity=0.001  Sum_probs=42.4

Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcC
Q 004744          601 CRSGDASKADEFLSKMVSEGVDPD--SISYNTLINGFVREENMDKAFALVSKMENQGLVPD----VITYNVILTGFCRQG  674 (732)
Q Consensus       601 ~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~l~~~~~~~g  674 (732)
                      .+.|++++|+..|+.+++......  ...+-.++..|...|++++|...|+.+.+.  .|+    ...+..++..+...|
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~--yP~s~~~~dAl~klg~~~~~~g  231 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKN--YPKSPKAADAMFKVGVIMQDKG  231 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhHHHHHHHHHHHHcC
Confidence            444555555555555555321110  134444555555555555555555555542  222    223333444455555


Q ss_pred             CHHHHHHHHHHHHH
Q 004744          675 RMHDSELILWRMIE  688 (732)
Q Consensus       675 ~~~~A~~~~~~~~~  688 (732)
                      +.++|..+|++.++
T Consensus       232 ~~~~A~~~~~~vi~  245 (263)
T PRK10803        232 DTAKAKAVYQQVIK  245 (263)
T ss_pred             CHHHHHHHHHHHHH
Confidence            55555555555555

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.17  E-value=0.063  Score=50.02  Aligned_cols=68  Identities=7%  Similarity=-0.006  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 004744          119 MSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRN  198 (732)
Q Consensus       119 ~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  198 (732)
                      ..+-..+..+...|++.+|...|.+++...+.               .+..+.+.-.++.+|.+.|++++|...|++.++
T Consensus         6 ~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~---------------s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~   70 (203)
T PF13525_consen    6 EALYQKALEALQQGDYEEAIKLFEKLIDRYPN---------------SPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIK   70 (203)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TT---------------STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC---------------ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33444455566777788888777777654322               222344555667777777888888888877776


Q ss_pred             CCC
Q 004744          199 KGI  201 (732)
Q Consensus       199 ~~~  201 (732)
                      .-|
T Consensus        71 ~yP   73 (203)
T PF13525_consen   71 LYP   73 (203)
T ss_dssp             H-T
T ss_pred             HCC
Confidence            543

>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=97.16  E-value=0.0015  Score=48.43  Aligned_cols=48  Identities=19%  Similarity=0.099  Sum_probs=18.0

Q ss_pred             cCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 004744          183 ARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEV  231 (732)
Q Consensus       183 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  231 (732)
                      .|++++|++.|+++....+. +...+..+..+|.+.|++++|.++++.+
T Consensus         4 ~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             ccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33344444444443333332 3333333333333333333333333333

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.16  E-value=0.019  Score=47.62  Aligned_cols=90  Identities=14%  Similarity=0.167  Sum_probs=50.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHH
Q 004744          596 IIKGYCRSGDASKADEFLSKMVSEGVDPD--SISYNTLINGFVREENMDKAFALVSKMENQGLVPD----VITYNVILTG  669 (732)
Q Consensus       596 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~l~~~  669 (732)
                      ...++-..|+.++|+.+|++.+..|....  ...+-.+...+...|++++|..++++....  .|+    ......+.-+
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~--~p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE--FPDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCccccHHHHHHHHHH
Confidence            34455566666666666666666554433  234445556666667777777776666652  233    1122223334


Q ss_pred             HHhcCCHHHHHHHHHHHH
Q 004744          670 FCRQGRMHDSELILWRMI  687 (732)
Q Consensus       670 ~~~~g~~~~A~~~~~~~~  687 (732)
                      +...|+.++|...+-..+
T Consensus        85 L~~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEAL  102 (120)
T ss_pred             HHHCCCHHHHHHHHHHHH
Confidence            556677777766665543

>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=97.15  E-value=0.0013  Score=48.68  Aligned_cols=55  Identities=22%  Similarity=0.439  Sum_probs=32.7

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          637 REENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDR  695 (732)
Q Consensus       637 ~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  695 (732)
                      +.|++++|+++++++...  .| +...+..++.+|.+.|++++|..+++++..  ..|+.
T Consensus         3 ~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~--~~~~~   58 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERLLK--QDPDN   58 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG--GGTTH
T ss_pred             hccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCcCH
Confidence            456666666666666653  33 445555666666666666666666666666  45553

...

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.12  E-value=0.23  Score=46.12  Aligned_cols=155  Identities=11%  Similarity=0.097  Sum_probs=101.0

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 004744          535 EMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLS  614 (732)
Q Consensus       535 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  614 (732)
                      ..+...++|++-..       ...+.++..+.-.|.+.-...++++.++...+.++.....+.+.-.+.|+.+.|...|+
T Consensus       164 ~~ESsv~lW~KRl~-------~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~  236 (366)
T KOG2796|consen  164 AEESSIRLWRKRLG-------RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQ  236 (366)
T ss_pred             chhhHHHHHHHHHH-------HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            33555666655432       23455666666777788888888888887666677777888888888888888888888


Q ss_pred             HHHHCCCCCCHHHHH-----HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004744          615 KMVSEGVDPDSISYN-----TLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEK  689 (732)
Q Consensus       615 ~~~~~~~~~~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  689 (732)
                      ...+..-..|..+.+     .....|.-++++.+|...+.+.+... +.|+...|.-+-+..-.|+..+|++.++.|.+ 
T Consensus       237 ~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~-  314 (366)
T KOG2796|consen  237 DVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQ-  314 (366)
T ss_pred             HHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhc-
Confidence            665542222333332     33344556777888888888887742 22444445544445566888889998888888 


Q ss_pred             CCCCCHHHHH
Q 004744          690 GLNPDRSTYT  699 (732)
Q Consensus       690 g~~p~~~~~~  699 (732)
                       ..|...+-+
T Consensus       315 -~~P~~~l~e  323 (366)
T KOG2796|consen  315 -QDPRHYLHE  323 (366)
T ss_pred             -cCCccchhh
Confidence             666544333

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.97  E-value=0.079  Score=49.35  Aligned_cols=56  Identities=16%  Similarity=0.164  Sum_probs=26.8

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          459 GLCRAKMLTEADDLFNEMLERGVFP--DFYTFTTLIHGHCKDGNMNKALNLFDIMTQK  514 (732)
Q Consensus       459 ~~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  514 (732)
                      .+.+.|++++|++.|+.+...-+..  -......++.++.+.|+++.|...++..++.
T Consensus        14 ~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   14 EALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3455556666666666555542211  1223344455555556666666555555543

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.94  E-value=0.023  Score=51.32  Aligned_cols=35  Identities=20%  Similarity=0.428  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 004744          396 LDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGF  430 (732)
Q Consensus       396 ~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~  430 (732)
                      -+-|++++++|...|+-||..++..+++.+.+.+.
T Consensus       119 q~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  119 QECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            45566777777777777777777777776655543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.93  E-value=0.05  Score=56.60  Aligned_cols=20  Identities=5%  Similarity=-0.105  Sum_probs=10.9

Q ss_pred             HHHHHHHHHHhcCChhHHHH
Q 004744          242 TLNIMVNALCKDHKIDSAKM  261 (732)
Q Consensus       242 ~~~~l~~~~~~~g~~~~A~~  261 (732)
                      .+.+-+..|...|.+++|.+
T Consensus       558 p~~~~m~q~Ieag~f~ea~~  577 (1081)
T KOG1538|consen  558 PQSAPMYQYIERGLFKEAYQ  577 (1081)
T ss_pred             cccccchhhhhccchhhhhc
Confidence            33444445666666666654

>PRK15331 chaperone protein SicA; Provisional

Probab=96.92  E-value=0.061  Score=46.63  Aligned_cols=93  Identities=12%  Similarity=0.022  Sum_probs=78.3

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 004744          175 LVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDH  254 (732)
Q Consensus       175 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  254 (732)
                      ....-+.++|++++|..+|+-+...++. +..-|..|..++-..++++.|...|..+...+ ..|+..+--...+|...|
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 AHAYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMR  119 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhC
Confidence            3455567899999999999999888776 78888999999999999999999999887665 355555556788999999


Q ss_pred             ChhHHHHHHHHHHhC
Q 004744          255 KIDSAKMFLCEMEQK  269 (732)
Q Consensus       255 ~~~~A~~~~~~~~~~  269 (732)
                      +.+.|+..|+.....
T Consensus       120 ~~~~A~~~f~~a~~~  134 (165)
T PRK15331        120 KAAKARQCFELVNER  134 (165)
T ss_pred             CHHHHHHHHHHHHhC
Confidence            999999999998874

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.91  E-value=0.15  Score=51.19  Aligned_cols=163  Identities=12%  Similarity=0.058  Sum_probs=88.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 004744          524 NTLIDGFCKVGEMEKANKLWADMISRK---ISPNYISYGILINGYCS---MGHVTEAFRLWYEMVGKGIKPTLVSCNTII  597 (732)
Q Consensus       524 ~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~  597 (732)
                      ..++-+|....+++...++.+.+....   .......--..+-++.+   .|+.++|++++..++.....+++.+|..+.
T Consensus       145 ~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~G  224 (374)
T PF13281_consen  145 INLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHH
Confidence            344456777888888888888776541   11122222233444555   788888888888866555577777777777


Q ss_pred             HHHHHc---------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH----HHHHHHH---HH-HHHCCCC---
Q 004744          598 KGYCRS---------GDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENM----DKAFALV---SK-MENQGLV---  657 (732)
Q Consensus       598 ~~~~~~---------g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~----~~A~~~~---~~-~~~~g~~---  657 (732)
                      ..|-..         ...++|++.|.+.-+.  .||..+--.++..+...|.-    .+..++-   .. +.++|..   
T Consensus       225 RIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  225 RIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            665321         1356667666665542  34433322223333333321    1222322   11 1122221   


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          658 PDVITYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       658 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      .+--.+.+++.++.-.|+.++|.+..++|.+
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~  333 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFK  333 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Confidence            1223345566666667777777777777776

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.91  E-value=0.41  Score=45.56  Aligned_cols=221  Identities=18%  Similarity=0.111  Sum_probs=113.3

Q ss_pred             CCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004744          464 KMLTEADDLFNEMLERGVFP-DFYTFTTLIHGHCKDGNMNKALNLFDIMTQK-SIKPDIVTYNTLIDGFCKVGEMEKANK  541 (732)
Q Consensus       464 ~~~~~A~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~  541 (732)
                      +....+...+.......... ....+......+...+.+..+...+...... ........+......+...++++.+.+
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            44555555555554443221 2345555566666666666666666665542 122344445555555566666666666


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHH-HHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 004744          542 LWADMISRKISPNYISYGILIN-GYCSMGHVTEAFRLWYEMVGKGI--KPTLVSCNTIIKGYCRSGDASKADEFLSKMVS  618 (732)
Q Consensus       542 ~~~~~~~~~~~~~~~~~~~li~-~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  618 (732)
                      .+.........+ ......... .+...|++++|...+.+......  ......+......+...++.+.+...+.+...
T Consensus       117 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  195 (291)
T COG0457         117 LLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALK  195 (291)
T ss_pred             HHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh
Confidence            666666543222 111222222 45666666666666666644211  01223333333334555666666666666655


Q ss_pred             CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          619 EGVDP-DSISYNTLINGFVREENMDKAFALVSKMENQGLVPD-VITYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       619 ~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      .. .. ....+..+...+...+++++|...+.....  ..|+ ...+..+...+...|..+++...+.+..+
T Consensus       196 ~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         196 LN-PDDDAEALLNLGLLYLKLGKYEEALEYYEKALE--LDPDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             hC-cccchHHHHHhhHHHHHcccHHHHHHHHHHHHh--hCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            32 11 244555555556666666666666666665  2333 33333444444445556666666666655

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.90  E-value=0.021  Score=55.13  Aligned_cols=83  Identities=10%  Similarity=0.079  Sum_probs=40.4

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHh
Q 004744          636 VREENMDKAFALVSKMENQGLVPDV----ITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD----RSTYTTLINGHVS  707 (732)
Q Consensus       636 ~~~g~~~~A~~~~~~~~~~g~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~l~~~~~~  707 (732)
                      .+.|++++|+..|+.+++.  .|+.    ..+..++..|...|++++|...|+++++  ..|+    ...+..++.++..
T Consensus       154 ~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~--~yP~s~~~~dAl~klg~~~~~  229 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVK--NYPKSPKAADAMFKVGVIMQD  229 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCCcchhHHHHHHHHHHHH
Confidence            3445555555555555542  2321    2344455555555555555555555554  2221    2344444455555


Q ss_pred             cCCHHHHHHHHHHHH
Q 004744          708 QNNLKEAFRFHDEML  722 (732)
Q Consensus       708 ~g~~~~A~~~~~~m~  722 (732)
                      .|++++|.+.+++++
T Consensus       230 ~g~~~~A~~~~~~vi  244 (263)
T PRK10803        230 KGDTAKAKAVYQQVI  244 (263)
T ss_pred             cCCHHHHHHHHHHHH
Confidence            555555555555554

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.89  E-value=0.46  Score=51.62  Aligned_cols=232  Identities=14%  Similarity=0.103  Sum_probs=143.0

Q ss_pred             ChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcC--CCCCchHHHHHHHHHHHHcCChHHHHHHHH
Q 004744          117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYS--PCGSNSLIFDLVIRTYVQARKLREGSEVFR  194 (732)
Q Consensus       117 ~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  194 (732)
                      +..+.+.++.+|...+++--=..++....+..-. +.  ...++-...  .+.-.......-+....+...++-|+.+-.
T Consensus       282 s~ss~~~i~~~~d~~n~~v~ys~vl~~l~d~l~~-w~--~~~~vltsdg~~~~L~ek~le~kL~iL~kK~ly~~Ai~LAk  358 (933)
T KOG2114|consen  282 SNSSSNRIFKAYDLRNRYVLYSSVLEDLSDNLIE-WS--FDCLVLTSDGVVHELIEKDLETKLDILFKKNLYKVAINLAK  358 (933)
T ss_pred             CccchhheeehhhhcCcccchHHhHHHHHHHHHh-cC--CcEEEEecCCceeeeeeccHHHHHHHHHHhhhHHHHHHHHH
Confidence            3455677888888877765444444443321000 00  000000000  011123345566778888899999988766


Q ss_pred             HHHHCCCccC--HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 004744          195 LLRNKGICFS--INACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVY  272 (732)
Q Consensus       195 ~~~~~~~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~  272 (732)
                      .-.   ..++  ........+-+.+.|++++|...|-+.+.. +.|     ..++.-|....++.+--..++.+.+.|+.
T Consensus       359 ~~~---~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~IknLt~YLe~L~~~gla  429 (933)
T KOG2114|consen  359 SQH---LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQRIKNLTSYLEALHKKGLA  429 (933)
T ss_pred             hcC---CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHHHHHHHHHHHHHHHcccc
Confidence            432   2222  234455566677899999999999887653 233     23455666666777777888999999876


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHH
Q 004744          273 PDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLL  352 (732)
Q Consensus       273 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li  352 (732)
                       +...-..|+..|.+.++.++-.++.+... .|..  ..-....+..+.+.+-.++|..+-.+...     +......+ 
T Consensus       430 -~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~il-  499 (933)
T KOG2114|consen  430 -NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDIL-  499 (933)
T ss_pred             -cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHH-
Confidence             56666789999999999998888777654 3321  12345567777788888888777665532     33333333 


Q ss_pred             HHHHcCCCHhHHHHHHHHHH
Q 004744          353 VESCRKENMSEAEEIFCEMS  372 (732)
Q Consensus       353 ~~~~~~g~~~~A~~~~~~~~  372 (732)
                        +-..+++++|++.+..+.
T Consensus       500 --le~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  500 --LEDLHNYEEALRYISSLP  517 (933)
T ss_pred             --HHHhcCHHHHHHHHhcCC
Confidence              345688999999887763

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.85  E-value=0.02  Score=51.68  Aligned_cols=103  Identities=19%  Similarity=0.382  Sum_probs=51.7

Q ss_pred             CHHHHHHHHHHHHHc-----CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhH
Q 004744          274 DTVTYNTLINAYCRE-----GFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATY  348 (732)
Q Consensus       274 ~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~  348 (732)
                      |..+|..+|..|.+.     |..+=....+..|.+-|+.-|..+|+.|++.+=+ |.+- -..+|+.+            
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~------------  111 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAE------------  111 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHH------------
Confidence            555555555555542     4555555555666666666666666666555432 1111 00000000            


Q ss_pred             HHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCC
Q 004744          349 NTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQ  395 (732)
Q Consensus       349 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~  395 (732)
                         ..-  .-.+-+-|++++++|...|+-||..++..+++.+.+.+.
T Consensus       112 ---F~h--yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  112 ---FMH--YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             ---hcc--CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence               000  112334566666666666666666666666666655543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>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=96.81  E-value=0.0058  Score=46.69  Aligned_cols=63  Identities=19%  Similarity=0.267  Sum_probs=40.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCC---CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          661 ITYNVILTGFCRQGRMHDSELILWRMIEK--GLN---PD-RSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       661 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--g~~---p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      .+|+.+...|...|++++|+..|+++++.  -..   |+ ..++..++.+|...|++++|.+++++.++
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            35666777777777777777777776642  111   12 35677777777777777777777777653

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.76  E-value=0.005  Score=46.28  Aligned_cols=59  Identities=22%  Similarity=0.338  Sum_probs=43.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          633 NGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDR  695 (732)
Q Consensus       633 ~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  695 (732)
                      ..|.+.+++++|.+++++++.  +.| +...|...+..+.+.|++++|...|++.++  ..|+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~--~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~--~~p~~   62 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALE--LDPDDPELWLQRARCLFQLGRYEEALEDLERALE--LSPDD   62 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHH--hCcccchhhHHHHHHHHHhccHHHHHHHHHHHHH--HCCCc
Confidence            456777888888888888887  344 445667777777788888888888888887  55654

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.74  E-value=0.69  Score=45.70  Aligned_cols=284  Identities=15%  Similarity=0.110  Sum_probs=158.5

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH--HHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHH----HHHhcCCH
Q 004744          393 NGQLDRALMYFREMKSAGLVPDNVLYTIIING--YCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILN----GLCRAKML  466 (732)
Q Consensus       393 ~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~----~~~~~~~~  466 (732)
                      .|+-..|.++-.+..+. +..|......++.+  -.-.|++++|.+-|+.|..     |+.+-..=+.    .-.+.|..
T Consensus        97 AGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~-----dPEtRllGLRgLyleAqr~Gar  170 (531)
T COG3898          97 AGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD-----DPETRLLGLRGLYLEAQRLGAR  170 (531)
T ss_pred             cCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc-----ChHHHHHhHHHHHHHHHhcccH
Confidence            45555555555443321 22233333333322  2335777777777777765     3333222222    22356777


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHH--HHHHHHHHH---hcCCHHHHH
Q 004744          467 TEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKS-IKPDIVT--YNTLIDGFC---KVGEMEKAN  540 (732)
Q Consensus       467 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~--~~~li~~~~---~~g~~~~A~  540 (732)
                      +.|..+-+..-+.-.. -...+...+...|..|+++.|+++.+.-.... +.++..-  -..|+.+-.   -..+...|.
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            7777776666554332 34556667777777777777777776554421 2233221  112222111   112344555


Q ss_pred             HHHHHHHHCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 004744          541 KLWADMISRKISPNYISY-GILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSE  619 (732)
Q Consensus       541 ~~~~~~~~~~~~~~~~~~-~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  619 (732)
                      ..-.+..+  ..||.+-- ..-...+.+.|+..++-.+++.+-+.  .|.+..+..+  .+.+.|+.  ++.-+++..+.
T Consensus       250 ~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~--ePHP~ia~lY--~~ar~gdt--a~dRlkRa~~L  321 (531)
T COG3898         250 DDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA--EPHPDIALLY--VRARSGDT--ALDRLKRAKKL  321 (531)
T ss_pred             HHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc--CCChHHHHHH--HHhcCCCc--HHHHHHHHHHH
Confidence            54444443  34454432 23346778889999999998888877  3444433322  23455552  33333332221


Q ss_pred             -CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHcCCCC
Q 004744          620 -GVDP-DSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCR-QGRMHDSELILWRMIEKGLNP  693 (732)
Q Consensus       620 -~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~g~~p  693 (732)
                       ..+| +..+...+..+-...|++..|..--+....  ..|....|..|.+.-.. .|+-.++...+-+.++..-+|
T Consensus       322 ~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~APrdP  396 (531)
T COG3898         322 ESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDP  396 (531)
T ss_pred             HhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCC
Confidence             2334 455666777777888888888877777776  57888888877777554 488888888888888754444

>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=96.74  E-value=0.054  Score=47.44  Aligned_cols=55  Identities=20%  Similarity=0.384  Sum_probs=26.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          630 TLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRM  686 (732)
Q Consensus       630 ~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  686 (732)
                      .++..+...|++++|..+.+++..  ..| |...|..++.+|...|+..+|.+.|+++
T Consensus        67 ~l~~~~~~~~~~~~a~~~~~~~l~--~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   67 RLAEALLEAGDYEEALRLLQRALA--LDPYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHH--HSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            344444455555555555555555  233 3345555555555555555555555544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.62  E-value=0.012  Score=44.23  Aligned_cols=54  Identities=13%  Similarity=0.101  Sum_probs=25.7

Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          599 GYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       599 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      .|.+.+++++|.++++.++..+ +.+...+.....++.+.|++++|.+.+++..+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3444555555555555555432 11333444444455555555555555555554

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.61  E-value=0.89  Score=45.35  Aligned_cols=22  Identities=23%  Similarity=0.297  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHH
Q 004744          278 YNTLINAYCREGFLEEAFQLMN  299 (732)
Q Consensus       278 ~~~li~~~~~~g~~~~A~~~~~  299 (732)
                      |..+...-...|+.+-|..+++
T Consensus         3 ~a~IA~~A~~~GR~~LA~~LL~   24 (319)
T PF04840_consen    3 YAEIARKAYEEGRPKLATKLLE   24 (319)
T ss_pred             HHHHHHHHHHcChHHHHHHHHH
Confidence            4444444455555555555544

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

>PRK15331 chaperone protein SicA; Provisional

Probab=96.60  E-value=0.07  Score=46.27  Aligned_cols=87  Identities=10%  Similarity=-0.056  Sum_probs=48.9

Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 004744          600 YCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDS  679 (732)
Q Consensus       600 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A  679 (732)
                      +...|++++|..+|+-+...+. -+..-|..|..++-..+++++|+..|..+...+ .-|+..+-..+.++...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCHHHH
Confidence            3456666666666666555332 234445555566666666666666666655432 12333344455566666666666


Q ss_pred             HHHHHHHHH
Q 004744          680 ELILWRMIE  688 (732)
Q Consensus       680 ~~~~~~~~~  688 (732)
                      ...|+..++
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            666666665

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.60  E-value=0.91  Score=45.29  Aligned_cols=104  Identities=16%  Similarity=0.165  Sum_probs=58.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 004744          420 IIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDG  499 (732)
Q Consensus       420 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  499 (732)
                      .-+.-+...|+...|.++..+..    .|+...|...+.+++..++|++-..+-..  +    -.+..|...+..|.+.|
T Consensus       182 ~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s--k----KsPIGyepFv~~~~~~~  251 (319)
T PF04840_consen  182 DTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS--K----KSPIGYEPFVEACLKYG  251 (319)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC--C----CCCCChHHHHHHHHHCC
Confidence            33444455666666655544432    24666666666777777776665543321  1    13355666666666777


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 004744          500 NMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLW  543 (732)
Q Consensus       500 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  543 (732)
                      +..+|..+...+     +     +..-+..|.++|++.+|.+.-
T Consensus       252 ~~~eA~~yI~k~-----~-----~~~rv~~y~~~~~~~~A~~~A  285 (319)
T PF04840_consen  252 NKKEASKYIPKI-----P-----DEERVEMYLKCGDYKEAAQEA  285 (319)
T ss_pred             CHHHHHHHHHhC-----C-----hHHHHHHHHHCCCHHHHHHHH
Confidence            777666666551     1     134455666677776665543

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

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.59  E-value=0.054  Score=53.70  Aligned_cols=95  Identities=12%  Similarity=0.110  Sum_probs=69.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHH
Q 004744          626 ISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-RSTYTTLING  704 (732)
Q Consensus       626 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~  704 (732)
                      .+++.|..+|.+.+++.+|++.-++.++.+ ++|.-....-+.+|...|+++.|+..|+++++  +.|+ ..+-..|+.+
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~l  334 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIKL  334 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHH
Confidence            456667778888888888888888888843 34555666677888888899999999999988  8885 4555566655


Q ss_pred             HHhcCCHHHH-HHHHHHHHH
Q 004744          705 HVSQNNLKEA-FRFHDEMLQ  723 (732)
Q Consensus       705 ~~~~g~~~~A-~~~~~~m~~  723 (732)
                      -.+..+..+. .++|..|..
T Consensus       335 ~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  335 KQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            5555444443 777888864

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.54  E-value=1.1  Score=45.29  Aligned_cols=465  Identities=14%  Similarity=0.097  Sum_probs=238.1

Q ss_pred             HHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 004744          193 FRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVY  272 (732)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~  272 (732)
                      +++-++.++. |..+|-.|+.-|..+|.+++.+++|+++..- ++--..+|...+.+=....++...+.+|.+.+.... 
T Consensus        31 LRerIkdNPt-nI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l-  107 (660)
T COG5107          31 LRERIKDNPT-NILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSL-  107 (660)
T ss_pred             HHHHhhcCch-hHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhc-
Confidence            3333344444 8899999999999999999999999999753 355566788888877777899999999999988743 


Q ss_pred             CCHHHHHHHHHHHHHcCC---------HHHHHHHHHHHhhCCCCCC-HhhHHHHHHHHH---------hcCChhHHHHHH
Q 004744          273 PDTVTYNTLINAYCREGF---------LEEAFQLMNSMSGKGLKPG-VFTYNSLINGLC---------KKGRCDRAKEVL  333 (732)
Q Consensus       273 p~~~~~~~li~~~~~~g~---------~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~---------~~g~~~~A~~~~  333 (732)
                       +...|...+.---+...         +-+|.++.-.  -.++.|- ...|+..+..+-         .+.++|.....+
T Consensus       108 -~ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~--~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y  184 (660)
T COG5107         108 -NLDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLG--CAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGY  184 (660)
T ss_pred             -cHhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHh--cccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHH
Confidence             56667666653333221         1223322211  2334443 334444443322         122334444455


Q ss_pred             HHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHH--CCC
Q 004744          334 DEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKS--AGL  411 (732)
Q Consensus       334 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~--~~~  411 (732)
                      .+|+...                 .|++++-.+-|+.....   .|..|-..++.  -..--+-.|.+.++++..  .|.
T Consensus       185 ~ral~tP-----------------~~nleklW~dy~~fE~e---~N~~TarKfvg--e~sp~ym~ar~~yqe~~nlt~Gl  242 (660)
T COG5107         185 MRALQTP-----------------MGNLEKLWKDYENFELE---LNKITARKFVG--ETSPIYMSARQRYQEIQNLTRGL  242 (660)
T ss_pred             HHHHcCc-----------------cccHHHHHHHHHHHHHH---HHHHHHHHHhc--ccCHHHHHHHHHHHHHHHHhccc
Confidence            5554321                 12222222222211110   01111000000  000112233344443321  111


Q ss_pred             C----CCHHHH-----------HHHHHHHHHc-----CCH--HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHH
Q 004744          412 V----PDNVLY-----------TIIINGYCRN-----GFV--LEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEA  469 (732)
Q Consensus       412 ~----~~~~~~-----------~~li~~~~~~-----g~~--~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A  469 (732)
                      .    .+..++           ...|+.=...     |+.  ....-+++..+.. +.-....|--....+...++-+.|
T Consensus       243 ~v~~~~~~Rt~nK~~r~s~S~WlNwIkwE~en~l~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~a  321 (660)
T COG5107         243 SVKNPINLRTANKAARTSDSNWLNWIKWEMENGLKLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKA  321 (660)
T ss_pred             cccCchhhhhhccccccccchhhhHhhHhhcCCcccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHH
Confidence            1    011111           1122111111     010  0011112222111 111233333333334445555566


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHH
Q 004744          470 DDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCK---VGEMEKANKLWADM  546 (732)
Q Consensus       470 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~~  546 (732)
                      ......-.+.  .|.  .-..+...|....+-++....|+...+.     ...--..+++=..   .|+++...+++-+-
T Consensus       322 l~tv~rg~~~--sps--L~~~lse~yel~nd~e~v~~~fdk~~q~-----L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr  392 (660)
T COG5107         322 LKTVERGIEM--SPS--LTMFLSEYYELVNDEEAVYGCFDKCTQD-----LKRKYSMGESESASKVDNNFEYSKELLLKR  392 (660)
T ss_pred             HHHHHhcccC--CCc--hheeHHHHHhhcccHHHHhhhHHHHHHH-----HHHHHhhhhhhhhccccCCccccHHHHHHH
Confidence            5554433222  112  1111222333334444444445444321     0000001111000   22333233322222


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH
Q 004744          547 ISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKG-IKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDS  625 (732)
Q Consensus       547 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  625 (732)
                      ..    .-...|...++...+..-++.|..+|-++.+.+ ..+++.++++++..++ .|+...|..+|+.=...  -||.
T Consensus       393 ~~----k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~  465 (660)
T COG5107         393 IN----KLTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDS  465 (660)
T ss_pred             Hh----hhhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCc
Confidence            22    145667778888788888899999999998887 6678888888887765 57888888888765553  2443


Q ss_pred             HH-HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004744          626 IS-YNTLINGFVREENMDKAFALVSKMENQGLVPD--VITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLI  702 (732)
Q Consensus       626 ~~-~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~  702 (732)
                      .. -+-.+.-+..-++-+.|..+|+..+.+ +..+  ..+|..++.-=..-|++..+..+=+++.+  +.|...+.....
T Consensus       466 ~~y~~kyl~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~  542 (660)
T COG5107         466 TLYKEKYLLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFT  542 (660)
T ss_pred             hHHHHHHHHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHH
Confidence            33 345566677888889999999976653 3333  45788888877788999888888888887  666554444443


Q ss_pred             HHH
Q 004744          703 NGH  705 (732)
Q Consensus       703 ~~~  705 (732)
                      .-|
T Consensus       543 Sry  545 (660)
T COG5107         543 SRY  545 (660)
T ss_pred             HHH
Confidence            333

>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=96.53  E-value=0.01  Score=45.34  Aligned_cols=69  Identities=7%  Similarity=0.045  Sum_probs=51.5

Q ss_pred             hHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCC-chHHHHHHHHHHHHcCChHHHHHHHHHH
Q 004744          118 SMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGS-NSLIFDLVIRTYVQARKLREGSEVFRLL  196 (732)
Q Consensus       118 ~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  196 (732)
                      ..+++.+..+|...|++++|...|++++...            ..+....+ -..++..++.+|...|++++|++.|++.
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~------------~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIE------------EQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH------------HHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH------------HHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4678999999999999999999999998521            11111111 2567888888999999999999988887


Q ss_pred             HH
Q 004744          197 RN  198 (732)
Q Consensus       197 ~~  198 (732)
                      .+
T Consensus        73 l~   74 (78)
T PF13424_consen   73 LD   74 (78)
T ss_dssp             HH
T ss_pred             Hh
Confidence            64

...

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.52  E-value=0.032  Score=56.61  Aligned_cols=65  Identities=12%  Similarity=0.047  Sum_probs=44.8

Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          587 KPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDS----ISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       587 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      +.+...++.+..+|.+.|++++|+..|++.++.  .|+.    .+|..+..+|.+.|+.++|+..++++++
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            445566777777777777777777777777664  3442    3467777777777777777777777776

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.51  E-value=0.06  Score=51.59  Aligned_cols=115  Identities=13%  Similarity=0.148  Sum_probs=50.5

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH----HHHHHHHHhcCCHHH
Q 004744          568 MGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISY----NTLINGFVREENMDK  643 (732)
Q Consensus       568 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~----~~li~~~~~~g~~~~  643 (732)
                      .|+..+|...|+++++. .|.|...++-.-++|.-.|+.+.-...+++++.. ..+|...|    ..+..++..+|-+++
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            34455555555555443 3444444444445555555555555555544432 11222111    122233344555555


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004744          644 AFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWR  685 (732)
Q Consensus       644 A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  685 (732)
                      |.+..++..+.+ +.|.-.-.++...+...|+..++.++.++
T Consensus       194 AEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~  234 (491)
T KOG2610|consen  194 AEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYK  234 (491)
T ss_pred             HHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHh
Confidence            555555554421 11222333444444455555555554443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.46  E-value=0.015  Score=59.04  Aligned_cols=99  Identities=13%  Similarity=0.062  Sum_probs=73.9

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH----HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHH
Q 004744          623 PDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVI----TYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTY  698 (732)
Q Consensus       623 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~  698 (732)
                      .+...++.+..+|.+.|++++|+..|++.++  +.|+..    .|..+..+|.+.|+.++|+..++++++.+ .|   .|
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALe--L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels-n~---~f  146 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALE--LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY-NL---KF  146 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-ch---hH
Confidence            3577899999999999999999999999998  677743    58999999999999999999999999831 22   22


Q ss_pred             HHHHH--HHHhcCCHHHHHHHHHHHHHCCCC
Q 004744          699 TTLIN--GHVSQNNLKEAFRFHDEMLQRGFV  727 (732)
Q Consensus       699 ~~l~~--~~~~~g~~~~A~~~~~~m~~~g~~  727 (732)
                      ..+..  .+....+.++..++++.+.+.|..
T Consensus       147 ~~i~~DpdL~plR~~pef~eLlee~rk~G~~  177 (453)
T PLN03098        147 STILNDPDLAPFRASPEFKELQEEARKGGED  177 (453)
T ss_pred             HHHHhCcchhhhcccHHHHHHHHHHHHhCCc
Confidence            22211  112233445777788877776653

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.45  E-value=0.22  Score=45.78  Aligned_cols=35  Identities=6%  Similarity=0.118  Sum_probs=25.5

Q ss_pred             CCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 004744          112 PNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVR  146 (732)
Q Consensus       112 ~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~  146 (732)
                      |++..-...|..-..+|-.++.|++|...+.++.+
T Consensus        25 ad~dgaas~yekAAvafRnAk~feKakdcLlkA~~   59 (308)
T KOG1585|consen   25 ADWDGAASLYEKAAVAFRNAKKFEKAKDCLLKASK   59 (308)
T ss_pred             CCchhhHHHHHHHHHHHHhhccHHHHHHHHHHHHH
Confidence            55555566677777777888888888887777763

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.40  E-value=0.94  Score=45.69  Aligned_cols=167  Identities=14%  Similarity=0.117  Sum_probs=107.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004744          486 YTFTTLIHGHCKDGNMNKALNLFDIMTQKS---IKPDIVTYNTLIDGFCK---VGEMEKANKLWADMISRKISPNYISYG  559 (732)
Q Consensus       486 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~  559 (732)
                      .+...++-+|....+++.-+++.+.+....   +......-....-++.+   .|+.++|+.++..+......+++.++.
T Consensus       142 div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~g  221 (374)
T PF13281_consen  142 DIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLG  221 (374)
T ss_pred             hHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHH
Confidence            344456667888899999999999887651   11122222234445666   889999999999877666777888888


Q ss_pred             HHHHHHHhc---------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCH----HHHHHHHHH----HHHCCC-
Q 004744          560 ILINGYCSM---------GHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDA----SKADEFLSK----MVSEGV-  621 (732)
Q Consensus       560 ~li~~~~~~---------g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----~~A~~~~~~----~~~~~~-  621 (732)
                      .+...|...         ...++|+..|.+.-+.  .||..+--.++..+...|..    .+..++--+    +.+.|. 
T Consensus       222 L~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~  299 (374)
T PF13281_consen  222 LLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSL  299 (374)
T ss_pred             HHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccc
Confidence            888877421         2366788888776654  35554444444444455542    233444311    112332 


Q ss_pred             --CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          622 --DPDSISYNTLINGFVREENMDKAFALVSKMENQ  654 (732)
Q Consensus       622 --~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  654 (732)
                        ..+-.-+.+++.++.-.|+.++|.+..++|...
T Consensus       300 ~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  300 EKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence              234445567888888899999999999999873

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.37  E-value=0.12  Score=50.16  Aligned_cols=47  Identities=19%  Similarity=0.364  Sum_probs=23.8

Q ss_pred             HHhcCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004744          460 LCRAKMLTEADDLFNEMLERG--VFPDFYTFTTLIHGHCKDGNMNKALN  506 (732)
Q Consensus       460 ~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~  506 (732)
                      +....+.++|+..+.+.+.+-  ...-..++..+..+.++.|.+++++.
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            445566666666666555431  11112344455555566666555544

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.31  E-value=1  Score=42.70  Aligned_cols=221  Identities=18%  Similarity=0.093  Sum_probs=107.0

Q ss_pred             CCHHHHHHHHHHHHHCCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004744          429 GFVLEALKMRDEMLEKGCVM-DVVTYNTILNGLCRAKMLTEADDLFNEMLER-GVFPDFYTFTTLIHGHCKDGNMNKALN  506 (732)
Q Consensus       429 g~~~~A~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~  506 (732)
                      +....+...+.......... ....+......+...+.+..+...+...... ........+......+...+++..+..
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            44444444444444432221 2344555555555666666666666555431 112234444555555555556666666


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHH-HHHhcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 004744          507 LFDIMTQKSIKPDIVTYNTLID-GFCKVGEMEKANKLWADMISRKI--SPNYISYGILINGYCSMGHVTEAFRLWYEMVG  583 (732)
Q Consensus       507 ~~~~~~~~~~~~~~~~~~~li~-~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  583 (732)
                      .+.........+ ......... .+...|+++.|...+.+......  ......+......+...++.++|...+.....
T Consensus       117 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  195 (291)
T COG0457         117 LLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALK  195 (291)
T ss_pred             HHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh
Confidence            666555433222 111112222 45566666666666666544211  01222333333334455666666666666655


Q ss_pred             CCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          584 KGIKP-TLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPD-SISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       584 ~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      .. +. ....+..+...+...++.+.|...+.......  |+ ...+..+...+...+..+++...+.+...
T Consensus       196 ~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         196 LN-PDDDAEALLNLGLLYLKLGKYEEALEYYEKALELD--PDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             hC-cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhC--cccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            42 22 34555555555666666666666666655532  22 22333333333345556666666666555

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.17  E-value=2.2  Score=45.06  Aligned_cols=410  Identities=11%  Similarity=0.054  Sum_probs=206.5

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHH-HHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSIN-ACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVN  248 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  248 (732)
                      ...|+.||.---....++.+..+++.++..  .|... -|.....-=.+.|..+.+.++|++.+. +++.++..|.....
T Consensus        45 f~~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~-aip~SvdlW~~Y~~  121 (577)
T KOG1258|consen   45 FDAWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQ-AIPLSVDLWLSYLA  121 (577)
T ss_pred             ccchHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-hhhhHHHHHHHHHH
Confidence            445666654433334456666777777644  24443 566667777788999999999999986 46788888888776


Q ss_pred             HHHh-cCChhHHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHH---h
Q 004744          249 ALCK-DHKIDSAKMFLCEMEQK-GVY-PDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLC---K  322 (732)
Q Consensus       249 ~~~~-~g~~~~A~~~~~~~~~~-g~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~---~  322 (732)
                      .++. .|+.+..+..|+..... |.. .....|...|..-..++++.....++++.++.    ...-++....-|.   +
T Consensus       122 f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei----P~~~~~~~f~~f~~~l~  197 (577)
T KOG1258|consen  122 FLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI----PLHQLNRHFDRFKQLLN  197 (577)
T ss_pred             HHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh----hhhHhHHHHHHHHHHHh
Confidence            6664 47777788888887764 221 24556888888778889999999999999874    2222333322222   1


Q ss_pred             c------CChhHHHHHHHHHHHC---C-CCCCHHhHHHHHHHHHc-CCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHH
Q 004744          323 K------GRCDRAKEVLDEMLQM---G-LSPDTATYNTLLVESCR-KENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFS  391 (732)
Q Consensus       323 ~------g~~~~A~~~~~~~~~~---g-~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~  391 (732)
                      .      -..+++.++-....+.   . ..+....+..-+.--.. .+..+++..+..+..           ...-.++.
T Consensus       198 ~~~~~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~-----------~~~~~~~~  266 (577)
T KOG1258|consen  198 QNEEKILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIV-----------SIHEKVYQ  266 (577)
T ss_pred             cCChhhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHH-----------HHHHHHHH
Confidence            1      1222332222222210   0 00000011111110000 111111111111111           11111222


Q ss_pred             hCCCHHHHHHHHHHHHHCC---C----CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 004744          392 RNGQLDRALMYFREMKSAG---L----VPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAK  464 (732)
Q Consensus       392 ~~g~~~~A~~l~~~~~~~~---~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  464 (732)
                      ......+....|+.-.+..   +    .++..+|...+.--.+.|+.+...-+++...-- +..-...|-..+......|
T Consensus       267 ~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~  345 (577)
T KOG1258|consen  267 KSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSG  345 (577)
T ss_pred             hhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcC
Confidence            2333333334444333321   1    123356676777777777777777777766541 1123344555555555567


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHH---
Q 004744          465 MLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIV-TYNTLIDGFCKVGEMEKAN---  540 (732)
Q Consensus       465 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~---  540 (732)
                      +.+-|..++....+--++-.+.+-..-....-..|+++.|..+++.+... . |+.. .-..-+....+.|..+.+.   
T Consensus       346 ~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e-~-pg~v~~~l~~~~~e~r~~~~~~~~~~~  423 (577)
T KOG1258|consen  346 DVSLANNVLARACKIHVKKTPIIHLLEARFEESNGNFDDAKVILQRIESE-Y-PGLVEVVLRKINWERRKGNLEDANYKN  423 (577)
T ss_pred             chhHHHHHHHhhhhhcCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhh-C-CchhhhHHHHHhHHHHhcchhhhhHHH
Confidence            77777766666555433322222211122223356777777777777654 2 3322 1222234445566666665   


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHH-----HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 004744          541 KLWADMISRKISPNYISYGILING-----YCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRS  603 (732)
Q Consensus       541 ~~~~~~~~~~~~~~~~~~~~li~~-----~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  603 (732)
                      +++........  +......+.--     +.-.++.+.|..++.++.+. .+++...|..++......
T Consensus       424 ~l~s~~~~~~~--~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~  488 (577)
T KOG1258|consen  424 ELYSSIYEGKE--NNGILEKLYVKFARLRYKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQ  488 (577)
T ss_pred             HHHHHhccccc--CcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhC
Confidence            33332222111  11111111111     22345666666666666655 355555566555554433

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.15  E-value=0.1  Score=42.63  Aligned_cols=92  Identities=12%  Similarity=0.073  Sum_probs=63.2

Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCH--HHHHHHHHHHHhcCC
Q 004744          599 GYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQ-GLVPDV--ITYNVILTGFCRQGR  675 (732)
Q Consensus       599 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-g~~p~~--~~~~~l~~~~~~~g~  675 (732)
                      ++...|+.+.|++.|.+.+..- +-....||.-..++.-.|+.++|+.-+++..+. |-....  ..|..-...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            5667788888888888877642 235677888888888888888888888887773 211111  234444455667788


Q ss_pred             HHHHHHHHHHHHHcCC
Q 004744          676 MHDSELILWRMIEKGL  691 (732)
Q Consensus       676 ~~~A~~~~~~~~~~g~  691 (732)
                      -+.|..-|+.+.+.|.
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            8888888888877553

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.09  E-value=2.4  Score=44.76  Aligned_cols=115  Identities=11%  Similarity=0.176  Sum_probs=62.6

Q ss_pred             hhHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHH-hcCChhHHHHHH
Q 004744          256 IDSAKMFLCEMEQKGVYPDTV-TYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLC-KKGRCDRAKEVL  333 (732)
Q Consensus       256 ~~~A~~~~~~~~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~-~~g~~~~A~~~~  333 (732)
                      .+.++.++..++..  .|-.. -|.....--.+.|..+.+.++|++... |++-....|......+. ..|+.+.....|
T Consensus        61 ~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~-aip~SvdlW~~Y~~f~~n~~~d~~~lr~~f  137 (577)
T KOG1258|consen   61 VDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQ-AIPLSVDLWLSYLAFLKNNNGDPETLRDLF  137 (577)
T ss_pred             HHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-hhhhHHHHHHHHHHHHhccCCCHHHHHHHH
Confidence            34455555555544  34443 344455555566777777777777665 34445555555444333 345666666666


Q ss_pred             HHHHHC-CCC-CCHHhHHHHHHHHHcCCCHhHHHHHHHHHHh
Q 004744          334 DEMLQM-GLS-PDTATYNTLLVESCRKENMSEAEEIFCEMSR  373 (732)
Q Consensus       334 ~~~~~~-g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  373 (732)
                      +..+.. |.. .....|...|.--..++++.....+++++++
T Consensus       138 e~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRile  179 (577)
T KOG1258|consen  138 ERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILE  179 (577)
T ss_pred             HHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHh
Confidence            666543 211 1233455555555556666666666666665

>PRK11906 transcriptional regulator; Provisional

Probab=96.06  E-value=0.45  Score=48.70  Aligned_cols=145  Identities=12%  Similarity=0.078  Sum_probs=68.0

Q ss_pred             HHHHHHHHHHHHHC-CCCCC-HHHHHHHHHHHHhc---------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC
Q 004744          536 MEKANKLWADMISR-KISPN-YISYGILINGYCSM---------GHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSG  604 (732)
Q Consensus       536 ~~~A~~~~~~~~~~-~~~~~-~~~~~~li~~~~~~---------g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  604 (732)
                      .+.|..+|.+.... ...|+ ...|..+..++...         ....+|.++-+..++.+ +.|......+..+....|
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhc
Confidence            44566666666621 11222 33444443333221         12334555555555554 445555555555555555


Q ss_pred             CHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCCHHHHH
Q 004744          605 DASKADEFLSKMVSEGVDPD-SISYNTLINGFVREENMDKAFALVSKMENQGLVPDV---ITYNVILTGFCRQGRMHDSE  680 (732)
Q Consensus       605 ~~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~---~~~~~l~~~~~~~g~~~~A~  680 (732)
                      +++.|...|++....  .|| ..+|......+.-.|+.++|.+.+++..+  +.|..   .+....++.|+.. ..++|+
T Consensus       353 ~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alr--LsP~~~~~~~~~~~~~~~~~~-~~~~~~  427 (458)
T PRK11906        353 QAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKSLQ--LEPRRRKAVVIKECVDMYVPN-PLKNNI  427 (458)
T ss_pred             chhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhc--cCchhhHHHHHHHHHHHHcCC-chhhhH
Confidence            566666666655553  233 33444444444555666666666666554  34432   1222233344443 345555


Q ss_pred             HHHHHH
Q 004744          681 LILWRM  686 (732)
Q Consensus       681 ~~~~~~  686 (732)
                      +++.+-
T Consensus       428 ~~~~~~  433 (458)
T PRK11906        428 KLYYKE  433 (458)
T ss_pred             HHHhhc
Confidence            555443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.04  E-value=2.8  Score=45.28  Aligned_cols=343  Identities=13%  Similarity=0.083  Sum_probs=184.3

Q ss_pred             CCCCCCHhhHH-----HHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCH--hHHHHHH-HHHHhCC
Q 004744          304 KGLKPGVFTYN-----SLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENM--SEAEEIF-CEMSRRG  375 (732)
Q Consensus       304 ~g~~p~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~--~~A~~~~-~~~~~~g  375 (732)
                      -|++.+..-|.     .++.-+...+.+..|+++-..+...-.. +...|.....-+.+..+.  +++.+.+ +++... 
T Consensus       426 ~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~-~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~-  503 (829)
T KOG2280|consen  426 IGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQ-GDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK-  503 (829)
T ss_pred             cCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCcccc-ccHHHHHHHHHHHhccCccchHHHHHHHHHhccc-
Confidence            35555555443     4456677788888888887766532111 145666666666665322  2222222 233221 


Q ss_pred             CCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHH
Q 004744          376 VAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVP----DNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVV  451 (732)
Q Consensus       376 ~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  451 (732)
                      . -...+|..++......|+.+-|..+++.=...+...    +..-+...+.-..+.|+.+-...++-.+..+   .+..
T Consensus       504 ~-~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~---~~~s  579 (829)
T KOG2280|consen  504 L-TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNK---LNRS  579 (829)
T ss_pred             C-CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHH---HHHH
Confidence            2 245678888888888899988888876422111000    0011222333344445555544444444332   1111


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH-----HHCCCCCCHHHHHHH
Q 004744          452 TYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIM-----TQKSIKPDIVTYNTL  526 (732)
Q Consensus       452 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-----~~~~~~~~~~~~~~l  526 (732)
                      .+..      -..+...|..+|.+..+..   |.   ..+-+.|-...+...+-.+.-+-     ...+..|+   ....
T Consensus       580 ~l~~------~l~~~p~a~~lY~~~~r~~---~~---~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~---lk~~  644 (829)
T KOG2280|consen  580 SLFM------TLRNQPLALSLYRQFMRHQ---DR---ATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPA---LKTA  644 (829)
T ss_pred             HHHH------HHHhchhhhHHHHHHHHhh---ch---hhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchh---HHHH
Confidence            1111      1223455666666655431   11   11222232223332222221111     01122222   2334


Q ss_pred             HHHHHhcCCHHHH----------HHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 004744          527 IDGFCKVGEMEKA----------NKLWADMISR-KISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNT  595 (732)
Q Consensus       527 i~~~~~~g~~~~A----------~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  595 (732)
                      .+.+.+.....-.          +++.+.+... +..-.-.+.+--+.-+...|+..+|.++-.+..    -||...|-.
T Consensus       645 a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wL  720 (829)
T KOG2280|consen  645 ANAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWL  720 (829)
T ss_pred             HHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHH
Confidence            4445444332211          1222222211 211122234444556677899999998887764    678888888


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004744          596 IIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGR  675 (732)
Q Consensus       596 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~  675 (732)
                      -+.+++..+++++-+++-+...      .+.-|.-....|.+.|+.+||.+++.+...     ..    -...+|.+.|+
T Consensus       721 k~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA~KYiprv~~-----l~----ekv~ay~~~~~  785 (829)
T KOG2280|consen  721 KLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEAKKYIPRVGG-----LQ----EKVKAYLRVGD  785 (829)
T ss_pred             HHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHHhhhhhccCC-----hH----HHHHHHHHhcc
Confidence            8999999999998777665443      245577788899999999999999887543     11    46778889999


Q ss_pred             HHHHHHHHHHH
Q 004744          676 MHDSELILWRM  686 (732)
Q Consensus       676 ~~~A~~~~~~~  686 (732)
                      +.+|.+..-+-
T Consensus       786 ~~eAad~A~~~  796 (829)
T KOG2280|consen  786 VKEAADLAAEH  796 (829)
T ss_pred             HHHHHHHHHHh
Confidence            99998765443

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.03  E-value=3.1  Score=45.62  Aligned_cols=148  Identities=17%  Similarity=0.207  Sum_probs=66.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH--HHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh
Q 004744          245 IMVNALCKDHKIDSAKMFLCEMEQKGVYPDTV--TYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCK  322 (732)
Q Consensus       245 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~--~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  322 (732)
                      .-+..+++...++.|..+-..   .+..++..  ......+-+.+.|++++|...+-+.+.. ++|     ..++.-|..
T Consensus       339 ~kL~iL~kK~ly~~Ai~LAk~---~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLd  409 (933)
T KOG2114|consen  339 TKLDILFKKNLYKVAINLAKS---QHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLD  409 (933)
T ss_pred             HHHHHHHHhhhHHHHHHHHHh---cCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcC
Confidence            345555555555555554332   22222211  1222233344456666666655554432 121     223444444


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHH
Q 004744          323 KGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMY  402 (732)
Q Consensus       323 ~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l  402 (732)
                      ..+..+-...++.+.+.|+. +...-+.|+.+|.+.++.++-.+..+... .|.-  ..-....+..+.+.+-.++|..+
T Consensus       410 aq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~L  485 (933)
T KOG2114|consen  410 AQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELL  485 (933)
T ss_pred             HHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHH
Confidence            44555555555555555532 33333455566666666555555444332 1111  11123344444555555555444


Q ss_pred             HHH
Q 004744          403 FRE  405 (732)
Q Consensus       403 ~~~  405 (732)
                      -.+
T Consensus       486 A~k  488 (933)
T KOG2114|consen  486 ATK  488 (933)
T ss_pred             HHH
Confidence            433

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.01  E-value=0.17  Score=50.38  Aligned_cols=23  Identities=4%  Similarity=0.007  Sum_probs=17.0

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHH
Q 004744          176 VIRTYVQARKLREGSEVFRLLRN  198 (732)
Q Consensus       176 l~~~~~~~g~~~~A~~~~~~~~~  198 (732)
                      -++.|.+.|++..|..-|+++..
T Consensus       214 ~Gn~~fK~gk~~~A~~~Yerav~  236 (397)
T KOG0543|consen  214 RGNVLFKEGKFKLAKKRYERAVS  236 (397)
T ss_pred             hhhHHHhhchHHHHHHHHHHHHH
Confidence            35567888888888888887654

>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=96.00  E-value=0.076  Score=46.47  Aligned_cols=70  Identities=20%  Similarity=0.171  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHH-----cCCCCCHHH
Q 004744          172 IFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVR-----SGIELNVYT  242 (732)
Q Consensus       172 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~  242 (732)
                      +...++..+...|++++|+...+.+....|. |...|..++.+|...|+..+|.++|+++.+     .|+.|+..+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~-~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPY-DEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT--HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            3444555566666666666666666666544 666666666666666666666666666542     255555444

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.96  E-value=0.11  Score=49.01  Aligned_cols=95  Identities=15%  Similarity=0.156  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-cCCCCC-HHHHHHH
Q 004744          627 SYNTLINGFVREENMDKAFALVSKMENQGLVP---DVITYNVILTGFCRQGRMHDSELILWRMIE-KGLNPD-RSTYTTL  701 (732)
Q Consensus       627 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~g~~p~-~~~~~~l  701 (732)
                      .|+.-++ +.+.|++.+|...|...++.. +.   ....+..|+.++...|++++|..+|..+.+ .+-.|- +..+.-|
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            3444443 345666777777777776632 11   122344577777777777777777777766 333332 3667777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 004744          702 INGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       702 ~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      +.+..+.|+.++|...|+++.+
T Consensus       222 g~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         222 GVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHhcCHHHHHHHHHHHHH
Confidence            7777777777777777777764

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=95.91  E-value=1.3  Score=40.18  Aligned_cols=63  Identities=14%  Similarity=0.054  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 004744          555 YISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVS  618 (732)
Q Consensus       555 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  618 (732)
                      +..||-+.--+...|+++.|.+.|+...+.+..-+-...|.-+..| -.|+++-|.+-+.+.-.
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~Y-Y~gR~~LAq~d~~~fYQ  161 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALY-YGGRYKLAQDDLLAFYQ  161 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeee-ecCchHhhHHHHHHHHh
Confidence            3455555555556666666666666665553222333333333222 24556655555555444

>PRK11906 transcriptional regulator; Provisional

Probab=95.90  E-value=1  Score=46.31  Aligned_cols=148  Identities=13%  Similarity=0.070  Sum_probs=83.2

Q ss_pred             CHHHHHHHHHHHHHC-CCCCC-HHHHHHHHHHHHh---------cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004744          500 NMNKALNLFDIMTQK-SIKPD-IVTYNTLIDGFCK---------VGEMEKANKLWADMISRKISPNYISYGILINGYCSM  568 (732)
Q Consensus       500 ~~~~A~~~~~~~~~~-~~~~~-~~~~~~li~~~~~---------~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~  568 (732)
                      ..+.|+.+|.+.... ...|+ ...|..+..++..         ..+..+|.++-++..+.+.. |......+..+..-.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~-Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTV-DGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHhh
Confidence            456677777777621 12333 3344444333321         12344566666666666433 666666666666666


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHHH
Q 004744          569 GHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPD---SISYNTLINGFVREENMDKAF  645 (732)
Q Consensus       569 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~  645 (732)
                      ++++.|...|++....+ |....+|........-.|+.++|.+.+++..+.  .|.   ....-..++.|+.. .+++|+
T Consensus       352 ~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~~~~~~~~~~~~~~~~-~~~~~~  427 (458)
T PRK11906        352 GQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRRKAVVIKECVDMYVPN-PLKNNI  427 (458)
T ss_pred             cchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--CchhhHHHHHHHHHHHHcCC-chhhhH
Confidence            77777777777777653 333455555555566677777777777776653  233   22233334455544 456666


Q ss_pred             HHHHHHH
Q 004744          646 ALVSKME  652 (732)
Q Consensus       646 ~~~~~~~  652 (732)
                      +++-+-.
T Consensus       428 ~~~~~~~  434 (458)
T PRK11906        428 KLYYKET  434 (458)
T ss_pred             HHHhhcc
Confidence            6654433

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.84  E-value=0.59  Score=49.77  Aligned_cols=26  Identities=15%  Similarity=0.061  Sum_probs=15.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          488 FTTLIHGHCKDGNMNKALNLFDIMTQ  513 (732)
Q Consensus       488 ~~~li~~~~~~g~~~~A~~~~~~~~~  513 (732)
                      +..++....-.||-+.+++.+.+..+
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~  216 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASK  216 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhc
Confidence            44455555556777777776666554

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.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.83  E-value=2.8  Score=47.83  Aligned_cols=139  Identities=14%  Similarity=0.169  Sum_probs=74.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004744          453 YNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCK  532 (732)
Q Consensus       453 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  532 (732)
                      |...++.--+.|.+.+|..++..=.+.    -...|.+...-+...+.+++|.-.|+..-+.         .--+.+|..
T Consensus       911 ~~e~~n~I~kh~Ly~~aL~ly~~~~e~----~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~  977 (1265)
T KOG1920|consen  911 FPECKNYIKKHGLYDEALALYKPDSEK----QKVIYEAYADHLREELMSDEAALMYERCGKL---------EKALKAYKE  977 (1265)
T ss_pred             cHHHHHHHHhcccchhhhheeccCHHH----HHHHHHHHHHHHHHhccccHHHHHHHHhccH---------HHHHHHHHH
Confidence            333444444556666666555322111    1233444445555566677776666654321         223556667


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 004744          533 VGEMEKANKLWADMISRKISPNYI--SYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKAD  610 (732)
Q Consensus       533 ~g~~~~A~~~~~~~~~~~~~~~~~--~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  610 (732)
                      +|+|++|+.+..++...   .+..  +-..|+.-+...+++-+|-++..+....   |     ...+..|++...+++|.
T Consensus       978 ~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd---~-----~~av~ll~ka~~~~eAl 1046 (1265)
T KOG1920|consen  978 CGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEAAKILLEYLSD---P-----EEAVALLCKAKEWEEAL 1046 (1265)
T ss_pred             hccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC---H-----HHHHHHHhhHhHHHHHH
Confidence            77777777776665432   1222  2245666677777777777777766542   1     12233445555566666


Q ss_pred             HHHHH
Q 004744          611 EFLSK  615 (732)
Q Consensus       611 ~~~~~  615 (732)
                      .+...
T Consensus      1047 rva~~ 1051 (1265)
T KOG1920|consen 1047 RVASK 1051 (1265)
T ss_pred             HHHHh
Confidence            55443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.78  E-value=0.21  Score=40.94  Aligned_cols=93  Identities=14%  Similarity=-0.064  Sum_probs=70.2

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH---HHHHHHHHHhc
Q 004744          177 IRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYT---LNIMVNALCKD  253 (732)
Q Consensus       177 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~  253 (732)
                      .-+....|+++.|++.|.+.+..-+. ....||.-..++--+|+.++|++-++++++..-+.+...   |..-...|...
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 AIALAEAGDLDGALELFGQALCLAPE-RASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHhccc-chHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            44577889999999999999887666 788999999999999999999999998887532333322   22223446667


Q ss_pred             CChhHHHHHHHHHHhCC
Q 004744          254 HKIDSAKMFLCEMEQKG  270 (732)
Q Consensus       254 g~~~~A~~~~~~~~~~g  270 (732)
                      |+.+.|+.-|+...+.|
T Consensus       129 g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLG  145 (175)
T ss_pred             CchHHHHHhHHHHHHhC
Confidence            88888888888777776

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.78  E-value=1.7  Score=40.78  Aligned_cols=180  Identities=17%  Similarity=0.132  Sum_probs=103.2

Q ss_pred             HHHHhhc-cChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCC
Q 004744           88 EVLYRLR-DNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPC  166 (732)
Q Consensus        88 ~~l~~~~-~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  166 (732)
                      ..+...+ +++..|.+.|+.+.+.+|.-..+..+--.++-++.+.+++++|...+++.++..+.+++.            
T Consensus        40 ~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~------------  107 (254)
T COG4105          40 EGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNA------------  107 (254)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCCh------------
Confidence            3444443 688999999999998888777788888889999999999999999999999876654432            


Q ss_pred             CCchHHHHHHHHHHHH-----cCC---hHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC
Q 004744          167 GSNSLIFDLVIRTYVQ-----ARK---LREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIEL  238 (732)
Q Consensus       167 ~~~~~~~~~l~~~~~~-----~g~---~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  238 (732)
                         ..++-..+-++..     ..+   ..+|+.-|+.++.+  -||..             -..+|......+...    
T Consensus       108 ---dY~~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~r--yPnS~-------------Ya~dA~~~i~~~~d~----  165 (254)
T COG4105         108 ---DYAYYLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQR--YPNSR-------------YAPDAKARIVKLNDA----  165 (254)
T ss_pred             ---hHHHHHHHHHHhccCCccccCHHHHHHHHHHHHHHHHH--CCCCc-------------chhhHHHHHHHHHHH----
Confidence               1111111111111     112   34445555555544  12221             111111111111100    


Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 004744          239 NVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPD----TVTYNTLINAYCREGFLEEAFQLMNSMSG  303 (732)
Q Consensus       239 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~  303 (732)
                      =..-=..+.+.|.+.|.+..|..-+++|.+.  .|+    ....-.+..+|...|-.++|.+.-.-+..
T Consensus       166 LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~--y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         166 LAGHEMAIARYYLKRGAYVAAINRFEEVLEN--YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHHHHHHHHhcChHHHHHHHHHHHhc--cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            0000123456677777777777777777766  222    22344556677777777777766555544

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.66  E-value=1.7  Score=41.69  Aligned_cols=141  Identities=16%  Similarity=0.116  Sum_probs=67.5

Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHH
Q 004744          250 LCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRA  329 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  329 (732)
                      ....|++.+|...|......... +...--.++..|...|+.+.|..++..+...--.........-+..+.+.....+.
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            34445555555555555554322 23344445556666666666666666554431111111111223333344444444


Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhC--CCCCCHhHHHHHHHHHHhCC
Q 004744          330 KEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRR--GVAPDIVSFSTLIGIFSRNG  394 (732)
Q Consensus       330 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--g~~~~~~~~~~l~~~~~~~g  394 (732)
                      ..+-.+.-..  +.|...-..+...+...|+.++|.+.+-.+.++  |.. |...-..++..+.-.|
T Consensus       223 ~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g  286 (304)
T COG3118         223 QDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFG  286 (304)
T ss_pred             HHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcC
Confidence            4444443332  224445555666666666666666665555443  222 3444555555554444

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.65  E-value=0.04  Score=36.29  Aligned_cols=41  Identities=15%  Similarity=0.088  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHH
Q 004744          171 LIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLL  212 (732)
Q Consensus       171 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll  212 (732)
                      .+|..+...|.+.|++++|+++|+++++..+. |...|..+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~-~~~a~~~La   42 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPD-DPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-CHHHHHHhh
Confidence            35667777788888888888888888777665 666665543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.64  E-value=1.3  Score=45.59  Aligned_cols=166  Identities=14%  Similarity=0.103  Sum_probs=94.3

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004744          173 FDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCK  252 (732)
Q Consensus       173 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  252 (732)
                      -..++..--+..+...-++.-+++++.++. -+..|..|..  -......+|.++|++.++.|-           ..+.+
T Consensus       171 Aq~IMq~AWRERnp~aRIkaA~eALei~pd-CAdAYILLAE--EeA~Ti~Eae~l~rqAvkAgE-----------~~lg~  236 (539)
T PF04184_consen  171 AQEIMQKAWRERNPQARIKAAKEALEINPD-CADAYILLAE--EEASTIVEAEELLRQAVKAGE-----------ASLGK  236 (539)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHhhhh-hhHHHhhccc--ccccCHHHHHHHHHHHHHHHH-----------Hhhch
Confidence            334455555677777777888888776322 1122322221  123457889999998887640           00111


Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCC-CCHhhHHHHHHHHHhcCChhHHHH
Q 004744          253 DHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLK-PGVFTYNSLINGLCKKGRCDRAKE  331 (732)
Q Consensus       253 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~~~~~li~~~~~~g~~~~A~~  331 (732)
                      ....+..-...+.+..+...|-..+-..+....-+.|+.++|++.+++|.+.... .+......|+.++...+.+.++..
T Consensus       237 s~~~~~~g~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~  316 (539)
T PF04184_consen  237 SQFLQHHGHFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQA  316 (539)
T ss_pred             hhhhhcccchhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHH
Confidence            0000111112222223322222333344666667789999999999999765322 234567788899999999999999


Q ss_pred             HHHHHHHCCCCCC-HHhHHHHH
Q 004744          332 VLDEMLQMGLSPD-TATYNTLL  352 (732)
Q Consensus       332 ~~~~~~~~g~~~~-~~~~~~li  352 (732)
                      ++.+.-+...+.. ..+|+..+
T Consensus       317 lL~kYdDi~lpkSAti~YTaAL  338 (539)
T PF04184_consen  317 LLAKYDDISLPKSATICYTAAL  338 (539)
T ss_pred             HHHHhccccCCchHHHHHHHHH
Confidence            9988765433222 23565544

The molecular function of this protein is uncertain.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.63  E-value=1  Score=43.04  Aligned_cols=147  Identities=14%  Similarity=0.129  Sum_probs=93.5

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004744          177 IRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKI  256 (732)
Q Consensus       177 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  256 (732)
                      .......|++.+|...|.......+. +...--.+...|...|+.+.|..++..+...--.........-+..+.+....
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcC
Confidence            34566788888898888888877655 55666778888888888888888888765432112222222334455555555


Q ss_pred             hHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC--CCCCCHhhHHHHHHHHHhcCChhH
Q 004744          257 DSAKMFLCEMEQKGVYP-DTVTYNTLINAYCREGFLEEAFQLMNSMSGK--GLKPGVFTYNSLINGLCKKGRCDR  328 (732)
Q Consensus       257 ~~A~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~~~~~li~~~~~~g~~~~  328 (732)
                      .+...+-.+....   | |...-..+...+...|+.++|++.+-.+..+  |.. |...-..++..+.-.|..+.
T Consensus       220 ~~~~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g~~Dp  290 (304)
T COG3118         220 PEIQDLQRRLAAD---PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFGPADP  290 (304)
T ss_pred             CCHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcCCCCH
Confidence            5555555555443   3 5666667777888888888888877776554  333 44455555555555554333

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=95.61  E-value=0.22  Score=41.84  Aligned_cols=98  Identities=14%  Similarity=0.161  Sum_probs=60.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004744          589 TLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILT  668 (732)
Q Consensus       589 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~  668 (732)
                      |..++..++.++++.|+.+....+++..-  |+..+...         ..+.         --....+.|+..+..+++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~---------~~~~---------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKK---------KEGD---------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCcc---------ccCc---------cCCCCCCCCCHHHHHHHHH
Confidence            34566677777777777777777665443  23222100         0000         1112335677778888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHH
Q 004744          669 GFCRQGRMHDSELILWRMIE-KGLNPDRSTYTTLINGHV  706 (732)
Q Consensus       669 ~~~~~g~~~~A~~~~~~~~~-~g~~p~~~~~~~l~~~~~  706 (732)
                      +|+..|++..|.++++...+ .+++-+...|..|+.-..
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            88888888888888887776 566656777777775444

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.29  E-value=2.4  Score=39.24  Aligned_cols=55  Identities=16%  Similarity=0.153  Sum_probs=30.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 004744          558 YGILINGYCSMGHVTEAFRLWYEMVGKG---IKPTLVSCNTIIKGYCRSGDASKADEFL  613 (732)
Q Consensus       558 ~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~  613 (732)
                      |...|-.|.-..++..|...+++-.+.+   -+.+..+...|+.+|- .|+.+++.+++
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd-~gD~E~~~kvl  250 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-EGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhc-cCCHHHHHHHH
Confidence            3344444555567777777777643321   2334566666776663 46666655444

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.20  E-value=2.6  Score=41.39  Aligned_cols=229  Identities=10%  Similarity=0.026  Sum_probs=127.3

Q ss_pred             HHHcCCHHHHHHHHHHHHHCC--CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH----HcC-CCCCHHHHHHHHHHHHh
Q 004744          425 YCRNGFVLEALKMRDEMLEKG--CVMDVVTYNTILNGLCRAKMLTEADDLFNEML----ERG-VFPDFYTFTTLIHGHCK  497 (732)
Q Consensus       425 ~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~----~~~-~~~~~~~~~~li~~~~~  497 (732)
                      +....+.++|+..+.+.+.+-  ..--..++..+..+.++.|.+++++..--.-+    +.. -..-...|..+..++.+
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~   95 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK   95 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            446778889988888776641  11123456667778888888877665432211    110 00012345556666666


Q ss_pred             cCCHHHHHHHHHHHHHC-CCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----CCCHHHHHHHHHHHHhc
Q 004744          498 DGNMNKALNLFDIMTQK-SIKPD---IVTYNTLIDGFCKVGEMEKANKLWADMISRKI-----SPNYISYGILINGYCSM  568 (732)
Q Consensus       498 ~g~~~~A~~~~~~~~~~-~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~  568 (732)
                      ..++.+++.+-+.-... |..|.   -.....+..++...+.++++++.|+...+...     ......+..|...|.+.
T Consensus        96 l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l  175 (518)
T KOG1941|consen   96 LCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQL  175 (518)
T ss_pred             HHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHH
Confidence            66666666655544432 22221   12223455566666777888888877665311     11234667777778888


Q ss_pred             CCHHHHHHHHHHHHhC----CCCCCHH-----HHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHH
Q 004744          569 GHVTEAFRLWYEMVGK----GIKPTLV-----SCNTIIKGYCRSGDASKADEFLSKMVSE----GVDP-DSISYNTLING  634 (732)
Q Consensus       569 g~~~~A~~~~~~~~~~----~~~~~~~-----~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~li~~  634 (732)
                      .++++|.-...+..+.    ++..-..     ....+.-++...|..-.|.+.-++..+.    |-.+ .......+.+.
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDI  255 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADI  255 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            8888877666554432    2221111     2223344566667777777776665442    3211 12334456677


Q ss_pred             HHhcCCHHHHHHHHHHHHH
Q 004744          635 FVREENMDKAFALVSKMEN  653 (732)
Q Consensus       635 ~~~~g~~~~A~~~~~~~~~  653 (732)
                      |...|+.+.|+.-|+.+..
T Consensus       256 yR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  256 YRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHhcccHhHHHHHHHHHHH
Confidence            7777777777776666543

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.18  E-value=0.048  Score=35.90  Aligned_cols=39  Identities=23%  Similarity=0.506  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHH
Q 004744          662 TYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-RSTYTTLI  702 (732)
Q Consensus       662 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~  702 (732)
                      +|..+..+|...|++++|++.|+++++  ..|+ ...|..++
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~--~~P~~~~a~~~La   42 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALA--LDPDDPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH--HCcCCHHHHHHhh
Confidence            455666777777777777777777777  5553 45554443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.16  E-value=2.9  Score=39.36  Aligned_cols=54  Identities=20%  Similarity=0.151  Sum_probs=26.6

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          461 CRAKMLTEADDLFNEMLERGVF--PDFYTFTTLIHGHCKDGNMNKALNLFDIMTQK  514 (732)
Q Consensus       461 ~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  514 (732)
                      .+.|++++|.+.|+.+..+.+.  -...+...++-++.+.+++++|+...++....
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~l  100 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRL  100 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            4455556666655555544221  11223334444555555555555555555543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.16  E-value=2.3  Score=45.32  Aligned_cols=154  Identities=10%  Similarity=0.098  Sum_probs=87.4

Q ss_pred             hhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHH
Q 004744           97 LQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLV  176 (732)
Q Consensus        97 ~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l  176 (732)
                      ...+...|+-+.+.-|      .....++++.+=.|+-+.+++++.+..+..+.... +..-+          ...|...
T Consensus       173 v~~G~G~f~L~lSlLP------p~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~-la~L~----------LL~y~~~  235 (468)
T PF10300_consen  173 VYFGFGLFNLVLSLLP------PKVLKLLSFVGFSGDRELGLRLLWEASKSENIRSP-LAALV----------LLWYHLV  235 (468)
T ss_pred             HHHHHHHHHHHHHhCC------HHHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchH-HHHHH----------HHHHHHH
Confidence            4445666776666544      46778888888899999999999888653333221 11100          1233333


Q ss_pred             HHHHHH----cCChHHHHHHHHHHHHCCCccCHHHHHHHH-HHHHHcCChHHHHHHHHHHHHcCC-CC--CHHHHHHHHH
Q 004744          177 IRTYVQ----ARKLREGSEVFRLLRNKGICFSINACNSLL-GGLVKIGWVDLAREVYAEVVRSGI-EL--NVYTLNIMVN  248 (732)
Q Consensus       177 ~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll-~~~~~~g~~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~  248 (732)
                      +..++.    ....+.|.++++.+.++  .|+...|...- +.+...|+.++|.+.|+.+..... .+  ....+--+..
T Consensus       236 ~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w  313 (468)
T PF10300_consen  236 VPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAW  313 (468)
T ss_pred             HHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHH
Confidence            333332    45677788888888776  45666554443 455667788888888886653110 01  1111222333


Q ss_pred             HHHhcCChhHHHHHHHHHHhC
Q 004744          249 ALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       249 ~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      .+.-.+++++|...|.++.+.
T Consensus       314 ~~~~~~~w~~A~~~f~~L~~~  334 (468)
T PF10300_consen  314 CHMFQHDWEEAAEYFLRLLKE  334 (468)
T ss_pred             HHHHHchHHHHHHHHHHHHhc
Confidence            344455555555555555543

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.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.15  E-value=0.5  Score=44.68  Aligned_cols=99  Identities=12%  Similarity=0.087  Sum_probs=66.4

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 004744          120 SLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNK  199 (732)
Q Consensus       120 ~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  199 (732)
                      .|+.-+. +.+.|++.+|...|...+++.+.               ....+..+--|+.++...|++++|..+|..+.+.
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~YP~---------------s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~  207 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKYPN---------------STYTPNAYYWLGESLYAQGDYEDAAYIFARVVKD  207 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcCCC---------------CcccchhHHHHHHHHHhcccchHHHHHHHHHHHh
Confidence            4444443 34667788888888888865332               1222334444778888888888888888888765


Q ss_pred             CCc-c-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 004744          200 GIC-F-SINACNSLLGGLVKIGWVDLAREVYAEVVRS  234 (732)
Q Consensus       200 ~~~-~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  234 (732)
                      -++ | -+..+-.|...+.+.|+.++|...|+++++.
T Consensus       208 ~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         208 YPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             CCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            332 1 2356677777788888888888888888775

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.06  E-value=4.6  Score=46.27  Aligned_cols=157  Identities=13%  Similarity=0.127  Sum_probs=75.1

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004744          498 DGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRL  577 (732)
Q Consensus       498 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  577 (732)
                      .++++.|+.-+..+.       ...|.-.++.--+.|.+++|+.++..=.+.    --..|.+..+-+...+.+++|.-.
T Consensus       893 L~ry~~AL~hLs~~~-------~~~~~e~~n~I~kh~Ly~~aL~ly~~~~e~----~k~i~~~ya~hL~~~~~~~~Aal~  961 (1265)
T KOG1920|consen  893 LKRYEDALSHLSECG-------ETYFPECKNYIKKHGLYDEALALYKPDSEK----QKVIYEAYADHLREELMSDEAALM  961 (1265)
T ss_pred             HHHHHHHHHHHHHcC-------ccccHHHHHHHHhcccchhhhheeccCHHH----HHHHHHHHHHHHHHhccccHHHHH
Confidence            345555555554443       112233344445556666666555321111    112333333444455666666665


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 004744          578 WYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSI--SYNTLINGFVREENMDKAFALVSKMENQG  655 (732)
Q Consensus       578 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~li~~~~~~g~~~~A~~~~~~~~~~g  655 (732)
                      |+..-+.         ..-+.+|..+|++.+|..+..++..   .-|..  +-..|+.-+...++.-+|-++..+...  
T Consensus       962 Ye~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~---~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~s-- 1027 (1265)
T KOG1920|consen  962 YERCGKL---------EKALKAYKECGDWREALSLAAQLSE---GKDELVILAEELVSRLVEQRKHYEAAKILLEYLS-- 1027 (1265)
T ss_pred             HHHhccH---------HHHHHHHHHhccHHHHHHHHHhhcC---CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhc--
Confidence            5543221         1334556666777776666665543   11211  124455566666666666666665543  


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004744          656 LVPDVITYNVILTGFCRQGRMHDSELILWR  685 (732)
Q Consensus       656 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  685 (732)
                       .|.     -.+..||+...|++|.++...
T Consensus      1028 -d~~-----~av~ll~ka~~~~eAlrva~~ 1051 (1265)
T KOG1920|consen 1028 -DPE-----EAVALLCKAKEWEEALRVASK 1051 (1265)
T ss_pred             -CHH-----HHHHHHhhHhHHHHHHHHHHh
Confidence             221     122334455555555554443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.00  E-value=0.64  Score=44.90  Aligned_cols=117  Identities=12%  Similarity=-0.025  Sum_probs=74.5

Q ss_pred             HcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHhcCChhH
Q 004744          182 QARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRS---GIELNVYTLNIMVNALCKDHKIDS  258 (732)
Q Consensus       182 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~  258 (732)
                      ..|++.+|-..++++++.-|. |..+++..=.++.-.|+...-...+++++-.   ++|-..++...+.-++..+|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d~Pt-Dlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDYPT-DLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHhCch-hhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            456777777777777765333 6667777777777777777777777766532   333334444455555666777777


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 004744          259 AKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNS  300 (732)
Q Consensus       259 A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  300 (732)
                      |++.-++..+.+. .|..+-.++.+.+--.|+..++.++..+
T Consensus       194 AEk~A~ralqiN~-~D~Wa~Ha~aHVlem~~r~Keg~eFM~~  234 (491)
T KOG2610|consen  194 AEKQADRALQINR-FDCWASHAKAHVLEMNGRHKEGKEFMYK  234 (491)
T ss_pred             HHHHHHhhccCCC-cchHHHHHHHHHHHhcchhhhHHHHHHh
Confidence            7777777666542 2666666666666667777777766554

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.99  E-value=1  Score=38.21  Aligned_cols=54  Identities=11%  Similarity=0.117  Sum_probs=29.5

Q ss_pred             HHHcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          600 YCRSGDASKADEFLSKMVSEGV--DPDSISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       600 ~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      ..+.|++++|++.|+.+...-.  +-....--.|+.+|.+.|++++|...+++.++
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFir   75 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIR   75 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            3455666666666666655411  11223344455666666666666666666666

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.93  E-value=2.1  Score=37.00  Aligned_cols=41  Identities=7%  Similarity=0.070  Sum_probs=18.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 004744          561 LINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCR  602 (732)
Q Consensus       561 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~  602 (732)
                      ++..+.+.+........++.+...+ +.+....+.++..|++
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~   53 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHH
Confidence            3334444444444555554444443 2344444444444443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.87  E-value=2.3  Score=36.74  Aligned_cols=42  Identities=12%  Similarity=-0.033  Sum_probs=18.5

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHH
Q 004744          175 LVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVK  217 (732)
Q Consensus       175 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~  217 (732)
                      .++..+.+.+........++.+...+. .+....+.++..|++
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~   53 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHH
Confidence            344444444444444444444444432 234444444444443

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.84  E-value=3  Score=37.90  Aligned_cols=160  Identities=16%  Similarity=0.063  Sum_probs=90.5

Q ss_pred             CCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH--HH
Q 004744          166 CGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVY--TL  243 (732)
Q Consensus       166 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--~~  243 (732)
                      .|.-+.+||-|+--+...|+++.|.+.|+...+.++..+-...|.= -++--.|++.-|.+-+...-+.+ +.|++  .|
T Consensus        95 ~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRg-i~~YY~gR~~LAq~d~~~fYQ~D-~~DPfR~LW  172 (297)
T COG4785          95 RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRG-IALYYGGRYKLAQDDLLAFYQDD-PNDPFRSLW  172 (297)
T ss_pred             CCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccc-eeeeecCchHhhHHHHHHHHhcC-CCChHHHHH
Confidence            4555788999998899999999999999999888766333333332 33445688888888777776654 33332  23


Q ss_pred             HHHHHHHHhcCChhHHHHHH-HHHHhCCCCCCHHHHHHHHHHHHH-cCCHHHHHHHHHHHhhCCCCC-------CHhhHH
Q 004744          244 NIMVNALCKDHKIDSAKMFL-CEMEQKGVYPDTVTYNTLINAYCR-EGFLEEAFQLMNSMSGKGLKP-------GVFTYN  314 (732)
Q Consensus       244 ~~l~~~~~~~g~~~~A~~~~-~~~~~~g~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~g~~p-------~~~~~~  314 (732)
                      --++   -..-+..+|..-+ ++..+.    |..-|...|..|.- .=..+.   +++++... ...       -..||-
T Consensus       173 LYl~---E~k~dP~~A~tnL~qR~~~~----d~e~WG~~iV~~yLgkiS~e~---l~~~~~a~-a~~n~~~Ae~LTEtyF  241 (297)
T COG4785         173 LYLN---EQKLDPKQAKTNLKQRAEKS----DKEQWGWNIVEFYLGKISEET---LMERLKAD-ATDNTSLAEHLTETYF  241 (297)
T ss_pred             HHHH---HhhCCHHHHHHHHHHHHHhc----cHhhhhHHHHHHHHhhccHHH---HHHHHHhh-ccchHHHHHHHHHHHH
Confidence            2222   1234555665443 334433    55555554444332 112222   22332221 110       134566


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHH
Q 004744          315 SLINGLCKKGRCDRAKEVLDEMLQ  338 (732)
Q Consensus       315 ~li~~~~~~g~~~~A~~~~~~~~~  338 (732)
                      .|.+-+...|+.++|..+|+-.+.
T Consensus       242 YL~K~~l~~G~~~~A~~LfKLaia  265 (297)
T COG4785         242 YLGKYYLSLGDLDEATALFKLAVA  265 (297)
T ss_pred             HHHHHHhccccHHHHHHHHHHHHH
Confidence            666666666777777777666554

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.76  E-value=0.71  Score=48.35  Aligned_cols=157  Identities=15%  Similarity=0.112  Sum_probs=77.7

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHH
Q 004744          180 YVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSA  259 (732)
Q Consensus       180 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  259 (732)
                      ..-.|+++++.+..+.-.-. +.....-.+.++.-+-+.|..+.|+++-..         +.+-   .....+.|+++.|
T Consensus       271 av~~~d~~~v~~~i~~~~ll-~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D---------~~~r---FeLAl~lg~L~~A  337 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLL-PNIPKDQGQSIARFLEKKGYPELALQFVTD---------PDHR---FELALQLGNLDIA  337 (443)
T ss_dssp             HHHTT-HHH-----HHHHTG-GG--HHHHHHHHHHHHHTT-HHHHHHHSS----------HHHH---HHHHHHCT-HHHH
T ss_pred             HHHcCChhhhhhhhhhhhhc-ccCChhHHHHHHHHHHHCCCHHHHHhhcCC---------hHHH---hHHHHhcCCHHHH
Confidence            34456666665555411100 111244466667777777777777665332         1111   2334456777766


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 004744          260 KMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQM  339 (732)
Q Consensus       260 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  339 (732)
                      .++.++.      .+...|..|.....+.|+++-|.+.|.+...         |..|+-.|.-.|+.+.-.++.+.....
T Consensus       338 ~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  338 LEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            6544332      2556677777777777777777777765442         455556666666666666666555554


Q ss_pred             CCCCCHHhHHHHHHHHHcCCCHhHHHHHHHH
Q 004744          340 GLSPDTATYNTLLVESCRKENMSEAEEIFCE  370 (732)
Q Consensus       340 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  370 (732)
                      | .     ++....++.-.|+.++..+++.+
T Consensus       403 ~-~-----~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  403 G-D-----INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             T-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             c-C-----HHHHHHHHHHcCCHHHHHHHHHH
Confidence            4 1     23333334444566555555543

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.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.76  E-value=0.032  Score=34.20  Aligned_cols=31  Identities=35%  Similarity=0.531  Sum_probs=22.6

Q ss_pred             HHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHH
Q 004744          683 LWRMIEKGLNP-DRSTYTTLINGHVSQNNLKEAF  715 (732)
Q Consensus       683 ~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~  715 (732)
                      |+++++  +.| +...|..++..|...|++++|.
T Consensus         2 y~kAie--~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIE--LNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHH--HCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            456666  667 4577888888888888887775

>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=94.69  E-value=1.5  Score=36.34  Aligned_cols=64  Identities=16%  Similarity=0.198  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004744          662 TYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGF  726 (732)
Q Consensus       662 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  726 (732)
                      ..+.-++.+..+|+-+.-.+++..+.+ .-+|++.....+..+|.+.|+..++.++++++-++|+
T Consensus        88 ~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   88 YVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            344455666677777777777777654 2455667777777778888888888887777777775

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=94.67  E-value=0.72  Score=48.34  Aligned_cols=153  Identities=19%  Similarity=0.123  Sum_probs=73.8

Q ss_pred             HcCCHHHHHHHHHH-HhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHH
Q 004744          287 REGFLEEAFQLMNS-MSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAE  365 (732)
Q Consensus       287 ~~g~~~~A~~~~~~-m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~  365 (732)
                      -.|+++++.++.+. -.-..+  ...-.+.++..+.+.|..+.|+++..+-.            .-.+...+.|+++.|.
T Consensus       273 ~~~d~~~v~~~i~~~~ll~~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~~A~  338 (443)
T PF04053_consen  273 LRGDFEEVLRMIAASNLLPNI--PKDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLDIAL  338 (443)
T ss_dssp             HTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HHHHH
T ss_pred             HcCChhhhhhhhhhhhhcccC--ChhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHHHHH
Confidence            34566665555541 111011  13335666666666666666666543321            1233445667777766


Q ss_pred             HHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 004744          366 EIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKG  445 (732)
Q Consensus       366 ~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  445 (732)
                      ++.++.      .+...|..|.....+.|+++-|.+.|.+..+         +..|+-.|.-.|+.+.-.++.+.....|
T Consensus       339 ~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  339 EIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             HHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            654332      2556677777777777777777777766432         4445555666666655555555544432


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          446 CVMDVVTYNTILNGLCRAKMLTEADDLFN  474 (732)
Q Consensus       446 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~  474 (732)
                      -      +|....++.-.|+.++..+++.
T Consensus       404 ~------~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  404 D------INIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             -------HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             C------HHHHHHHHHHcCCHHHHHHHHH
Confidence            1      2333344444455555555443

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.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.62  E-value=3  Score=43.05  Aligned_cols=56  Identities=14%  Similarity=0.207  Sum_probs=24.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 004744          561 LINGYCSMGHVTEAFRLWYEMVGKGIK-PTLVSCNTIIKGYCRSGDASKADEFLSKM  616 (732)
Q Consensus       561 li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  616 (732)
                      +..+.-+.|+.+||++.|++|.+.... .+..+...++.++...+.+.++..++.+-
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            334444445555555555555443111 11223334444555555555555554443

The molecular function of this protein is uncertain.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=94.60  E-value=9.4  Score=42.54  Aligned_cols=52  Identities=13%  Similarity=0.118  Sum_probs=27.5

Q ss_pred             hcCCHHHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 004744          567 SMGHVTEAFRLWYEMVGK----GIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVS  618 (732)
Q Consensus       567 ~~g~~~~A~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  618 (732)
                      ..|++++|.++-+.....    -..+....+..+..+..-.|++++|..+..+..+
T Consensus       470 ~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a~~~~G~~~~Al~~~~~a~~  525 (894)
T COG2909         470 NRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEAAHIRGELTQALALMQQAEQ  525 (894)
T ss_pred             hcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHHHHHhchHHHHHHHHHHHHH
Confidence            345666666666555543    1122334444555555556666666666555544

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=94.47  E-value=10  Score=42.31  Aligned_cols=191  Identities=12%  Similarity=0.094  Sum_probs=109.6

Q ss_pred             HHHHHHHhHHhh-CCCCCCChHHHHHHHHHHH-hCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHH
Q 004744           99 VGQRFIDFIALN-FPNVKHSSMSLSAMIHFLV-RGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLV  176 (732)
Q Consensus        99 ~a~~~f~~~~~~-~~~~~~~~~~~~~l~~~l~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l  176 (732)
                      .|++.++-+... .+.......++-.++.+|. ...++++|...+.+.+.....  ..+.+          .--.....+
T Consensus        39 ~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~--~~~~d----------~k~~~~~ll  106 (608)
T PF10345_consen   39 TAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCER--HRLTD----------LKFRCQFLL  106 (608)
T ss_pred             HHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccc--cchHH----------HHHHHHHHH
Confidence            355666554421 1111223456667788887 678999999999988643221  11100          001233456


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHC----CCccCHHHHHHH-HHHHHHcCChHHHHHHHHHHHHcC---CCCCHHHHHHHHH
Q 004744          177 IRTYVQARKLREGSEVFRLLRNK----GICFSINACNSL-LGGLVKIGWVDLAREVYAEVVRSG---IELNVYTLNIMVN  248 (732)
Q Consensus       177 ~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~~l-l~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~  248 (732)
                      ++.|.+.+... |....++.++.    +..+-...+..+ +..+...+++..|.+.++.+...-   ..|-..++-.++.
T Consensus       107 ~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~  185 (608)
T PF10345_consen  107 ARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSE  185 (608)
T ss_pred             HHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHH
Confidence            77777777766 88888887653    112223333333 233334479999999998876532   2444555555555


Q ss_pred             HHH--hcCChhHHHHHHHHHHhCCC---------CCCHHHHHHHHHHHH--HcCCHHHHHHHHHHHh
Q 004744          249 ALC--KDHKIDSAKMFLCEMEQKGV---------YPDTVTYNTLINAYC--REGFLEEAFQLMNSMS  302 (732)
Q Consensus       249 ~~~--~~g~~~~A~~~~~~~~~~g~---------~p~~~~~~~li~~~~--~~g~~~~A~~~~~~m~  302 (732)
                      +..  +.+..+++.+.++++.....         .|-..+|..+++.++  ..|+++.+...++++.
T Consensus       186 ~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq  252 (608)
T PF10345_consen  186 ALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQ  252 (608)
T ss_pred             HHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            544  45666777777777643211         234556777766544  4677777776666553

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 [].

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=93.99  E-value=0.6  Score=45.12  Aligned_cols=116  Identities=13%  Similarity=-0.059  Sum_probs=74.2

Q ss_pred             HHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHH
Q 004744          145 VRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLA  224 (732)
Q Consensus       145 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a  224 (732)
                      ++....+...+...|+..-+       -.-.-++-|.++|++++|++.|.......+. |.+++..-..+|.+..++..|
T Consensus        79 I~~~dL~vd~I~~~LL~~~S-------EiKE~GN~yFKQgKy~EAIDCYs~~ia~~P~-NpV~~~NRA~AYlk~K~FA~A  150 (536)
T KOG4648|consen   79 IEKQDLPVDPIAQQLLKKAS-------EIKERGNTYFKQGKYEEAIDCYSTAIAVYPH-NPVYHINRALAYLKQKSFAQA  150 (536)
T ss_pred             hhhccCCccHHHHHHHHhhH-------HHHHhhhhhhhccchhHHHHHhhhhhccCCC-CccchhhHHHHHHHHHHHHHH
Confidence            33334444555555544111       1233466788999999999999887776443 788888888888888888888


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 004744          225 REVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      ..-...++..+ ..-+.+|+.-+.+-...|+..+|.+-++..+..
T Consensus       151 E~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~~EAKkD~E~vL~L  194 (536)
T KOG4648|consen  151 EEDCEAAIALD-KLYVKAYSRRMQARESLGNNMEAKKDCETVLAL  194 (536)
T ss_pred             HHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhHHHHHHhHHHHHhh
Confidence            77777766543 222234444444444556677777777776665

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=93.93  E-value=1  Score=37.84  Aligned_cols=48  Identities=15%  Similarity=0.137  Sum_probs=22.3

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHH
Q 004744          621 VDPDSISYNTLINGFVREENMDKAFALVSKMEN-QGLVPDVITYNVILT  668 (732)
Q Consensus       621 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~g~~p~~~~~~~l~~  668 (732)
                      ..|+..+..+++.+|+..|++..|+++++...+ .+++.+..+|..|+.
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            344445555555555555555555555444433 233334444444443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.70  E-value=4.5  Score=35.42  Aligned_cols=128  Identities=10%  Similarity=0.110  Sum_probs=69.1

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH-HHHHH--HHHHHhcCCH
Q 004744          566 CSMGHVTEAFRLWYEMVGKGIKPTL-VSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSI-SYNTL--INGFVREENM  641 (732)
Q Consensus       566 ~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~l--i~~~~~~g~~  641 (732)
                      ++.++.++|+.-|.++.+.|...=+ .............|+...|...|+++-.....|... -...|  ...+...|.+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            4556666677777666665533211 112223334556677777777777765543333322 11111  2334566777


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 004744          642 DKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNP  693 (732)
Q Consensus       642 ~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p  693 (732)
                      ++.....+-+...+.+--...-..|.-+-.+.|++.+|.+.|..+.+....|
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~ap  200 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAP  200 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCc
Confidence            7776666665543322222333456666667777777777777776643444

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.63  E-value=4.6  Score=35.34  Aligned_cols=124  Identities=15%  Similarity=0.037  Sum_probs=75.4

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCccCH-HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-HHHH--HHHHHHhcCC
Q 004744          180 YVQARKLREGSEVFRLLRNKGICFSI-NACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVY-TLNI--MVNALCKDHK  255 (732)
Q Consensus       180 ~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~--l~~~~~~~g~  255 (732)
                      +.+.++.++|+.-|..+.+.|...-+ -....+.....+.|+...|...|+++-+....|... -...  -.-.+...|.
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            46778889999999999887655222 223344456677888888888888876643333322 1111  1223445667


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 004744          256 IDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSG  303 (732)
Q Consensus       256 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  303 (732)
                      +++...-.+-+...+-.--...-.+|.-+-.+.|++.+|.+.|..+..
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            776666666555444333344455566666677777777777776655

>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=93.62  E-value=8  Score=38.07  Aligned_cols=62  Identities=15%  Similarity=0.132  Sum_probs=34.0

Q ss_pred             HHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          487 TFTTLIHGHCKDGNM---NKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISR  549 (732)
Q Consensus       487 ~~~~li~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  549 (732)
                      ++..++.+|...+..   ++|..+++.+... ....+..+..-++.+.+.++.+.+.+.+.+|+..
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            445566666665543   3445555555333 2222344444455555567777777777777765

It is also involved in sporulation [].

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=93.36  E-value=1  Score=42.43  Aligned_cols=104  Identities=20%  Similarity=0.212  Sum_probs=60.1

Q ss_pred             CCCHHHHHHHHHHHHH-----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 004744          587 KPTLVSCNTIIKGYCR-----SGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVI  661 (732)
Q Consensus       587 ~~~~~~~~~l~~~~~~-----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  661 (732)
                      +.|..+|...+..+..     .+.++--...++.|.+.|+.-|..+|+.|++.+-+..                +.|...
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgk----------------fiP~nv  127 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGK----------------FIPQNV  127 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccc----------------cccHHH
Confidence            4456666666655543     2445555666677777777777777777776654322                112111


Q ss_pred             HHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 004744          662 TYNVILTGFCRQ-GRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNN  710 (732)
Q Consensus       662 ~~~~l~~~~~~~-g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~  710 (732)
                       +.   ..+.+- ..-+-++.++++|...|+-||.++-..|++++.+.|-
T Consensus       128 -fQ---~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  128 -FQ---KVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             -HH---HHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence             11   111111 1224467777777777788887777777777765554

>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=93.10  E-value=4.5  Score=33.64  Aligned_cols=140  Identities=14%  Similarity=0.177  Sum_probs=68.8

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHH
Q 004744          180 YVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSA  259 (732)
Q Consensus       180 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  259 (732)
                      ..-.|.+++..++..+.....   +..-+|.++.-....-+-+-..++++.+-+.   -|..          .+|++...
T Consensus        12 ~ildG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGki---FDis----------~C~NlKrV   75 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKI---FDIS----------KCGNLKRV   75 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGG---S-GG----------G-S-THHH
T ss_pred             HHHhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhh---cCch----------hhcchHHH
Confidence            344577777888888777642   5556666666555555555555555544221   1111          12333333


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 004744          260 KMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQM  339 (732)
Q Consensus       260 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  339 (732)
                      ...+-.+-.     +..-....+....+.|+-+.-.++++++.. +-.+++.....+..+|.+.|+..++.+++.+.-+.
T Consensus        76 i~C~~~~n~-----~se~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek  149 (161)
T PF09205_consen   76 IECYAKRNK-----LSEYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEK  149 (161)
T ss_dssp             HHHHHHTT--------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHhcc-----hHHHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            322222111     223334445556666776666666666653 22446666666667777777777777777766666


Q ss_pred             CC
Q 004744          340 GL  341 (732)
Q Consensus       340 g~  341 (732)
                      |+
T Consensus       150 G~  151 (161)
T PF09205_consen  150 GL  151 (161)
T ss_dssp             T-
T ss_pred             ch
Confidence            53

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.06  E-value=0.22  Score=30.37  Aligned_cols=27  Identities=15%  Similarity=0.250  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          662 TYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       662 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      +|..++.+|...|++++|+..|+++++
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            344455555555555555555555554

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 ....

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.03  E-value=0.21  Score=31.03  Aligned_cols=26  Identities=15%  Similarity=0.194  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          697 TYTTLINGHVSQNNLKEAFRFHDEML  722 (732)
Q Consensus       697 ~~~~l~~~~~~~g~~~~A~~~~~~m~  722 (732)
                      +|..|+.+|.+.|++++|.+++++.+
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            46677788888888888888888755

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.00  E-value=10  Score=37.49  Aligned_cols=129  Identities=19%  Similarity=0.341  Sum_probs=64.7

Q ss_pred             HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh--c----CChhHHHHHHHHHHHCCC---CCCHHhHHHHHHHHHcCCC-
Q 004744          291 LEEAFQLMNSMSGKGLKPGVFTYNSLINGLCK--K----GRCDRAKEVLDEMLQMGL---SPDTATYNTLLVESCRKEN-  360 (732)
Q Consensus       291 ~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~--~----g~~~~A~~~~~~~~~~g~---~~~~~~~~~li~~~~~~g~-  360 (732)
                      +++.+.+++.|.+.|+..+..+|.+..-....  .    -...+|..+|+.|++...   .++..++..++..  ..++ 
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            34455666777777777666555443322222  1    124467777777776532   2344455555433  2222 


Q ss_pred             ---HhHHHHHHHHHHhCCCCCC-H-hHHHHHHHHHHhCCC--HHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004744          361 ---MSEAEEIFCEMSRRGVAPD-I-VSFSTLIGIFSRNGQ--LDRALMYFREMKSAGLVPDNVLYTII  421 (732)
Q Consensus       361 ---~~~A~~~~~~~~~~g~~~~-~-~~~~~l~~~~~~~g~--~~~A~~l~~~~~~~~~~~~~~~~~~l  421 (732)
                         .+.+..+|+.+.+.|+..+ . .....++........  ...+.++++.+.+.|+++....|..+
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               2445566666666665442 2 222222222221111  33566666667766666655555444

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.91  E-value=6.7  Score=35.23  Aligned_cols=53  Identities=9%  Similarity=0.144  Sum_probs=21.8

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          634 GFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       634 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      .....|.+|+|+..++...+.+.  .......-++++...|+-++|+.-|++.++
T Consensus       135 vq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~  187 (207)
T COG2976         135 VQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGDKQEARAAYEKALE  187 (207)
T ss_pred             HHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHH
Confidence            33444444444444444433211  111222233444444444444444444444

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=92.63  E-value=4.6  Score=34.43  Aligned_cols=57  Identities=9%  Similarity=-0.070  Sum_probs=27.7

Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 004744          213 GGLVKIGWVDLAREVYAEVVRSGIEL---NVYTLNIMVNALCKDHKIDSAKMFLCEMEQKG  270 (732)
Q Consensus       213 ~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g  270 (732)
                      ....+.|++++|.+.|+.+... .|.   ...+.-.++.+|.+.+++++|...+++.++..
T Consensus        18 ~~~l~~~~Y~~A~~~le~L~~r-yP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh   77 (142)
T PF13512_consen   18 QEALQKGNYEEAIKQLEALDTR-YPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH   77 (142)
T ss_pred             HHHHHhCCHHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            3334455555555555554432 121   22233345555555555555555555555553

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=92.56  E-value=12  Score=37.07  Aligned_cols=127  Identities=11%  Similarity=0.150  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHh--cC----CHHHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHHcCC----
Q 004744          539 ANKLWADMISRKISPNYISYGILINGYCS--MG----HVTEAFRLWYEMVGKGI---KPTLVSCNTIIKGYCRSGD----  605 (732)
Q Consensus       539 A~~~~~~~~~~~~~~~~~~~~~li~~~~~--~g----~~~~A~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~----  605 (732)
                      ...+++.+.+.|+..+..+|-+.......  ..    ....|..+|+.|.+...   .++...+..++..  ..++    
T Consensus        81 ~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~l  158 (297)
T PF13170_consen   81 VLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEEL  158 (297)
T ss_pred             HHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHHH
Confidence            44555555666555555444332222111  11    23345566666655421   1222333333322  1222    


Q ss_pred             HHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCC--HHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004744          606 ASKADEFLSKMVSEGVDPDS--ISYNTLINGFVREEN--MDKAFALVSKMENQGLVPDVITYNVIL  667 (732)
Q Consensus       606 ~~~A~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~--~~~A~~~~~~~~~~g~~p~~~~~~~l~  667 (732)
                      .+..+.+|+.+.+.|+..+.  .....++..+.....  ...+.++++.+.+.|+++....|..++
T Consensus       159 ~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  159 AERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence            24455555555554444332  122222222111111  334555566666666555555554443

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=92.33  E-value=1.6  Score=42.02  Aligned_cols=76  Identities=12%  Similarity=0.194  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCCCCHHHHHH
Q 004744          627 SYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIE-----KGLNPDRSTYTT  700 (732)
Q Consensus       627 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~g~~p~~~~~~~  700 (732)
                      ++..++..+...|+++.+.+.++++...  .| +...|..++.+|.+.|+...|+..|+++.+     .|+.|...+...
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~--dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIEL--DPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            4455666666677777777777777763  34 556777777777777777777777776653     466676665555


Q ss_pred             HHHH
Q 004744          701 LING  704 (732)
Q Consensus       701 l~~~  704 (732)
                      ...+
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5544

>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=92.25  E-value=2  Score=38.78  Aligned_cols=61  Identities=10%  Similarity=0.077  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          627 SYNTLINGFVREENMDKAFALVSKMENQGLVPDV--ITYNVILTGFCRQGRMHDSELILWRMI  687 (732)
Q Consensus       627 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~  687 (732)
                      .+..+++.|++.|+.++|++.+.++.+....+..  ..+..++......|++..+...+.++.
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            3444555555555555555555555553323322  234445555555555555555555544

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=92.21  E-value=15  Score=37.57  Aligned_cols=65  Identities=9%  Similarity=-0.044  Sum_probs=43.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 004744          554 NYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKP---TLVSCNTIIKGYCRSGDASKADEFLSKMVS  618 (732)
Q Consensus       554 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  618 (732)
                      ...+|..++..+.+.|.++.|...+..+...+...   .+......++..-..|+..+|+..++..+.
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44567777777778888888888777776643111   334444455666677788888887777776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.13  E-value=0.34  Score=29.41  Aligned_cols=26  Identities=8%  Similarity=0.204  Sum_probs=11.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          663 YNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       663 ~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      |..++..+...|++++|++.|+++++
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            33444444444444444444444444

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 ....

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=92.09  E-value=13  Score=36.56  Aligned_cols=163  Identities=15%  Similarity=0.133  Sum_probs=86.5

Q ss_pred             HHHHHHHHHHhcCCHH---HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004744          557 SYGILINGYCSMGHVT---EAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLIN  633 (732)
Q Consensus       557 ~~~~li~~~~~~g~~~---~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~  633 (732)
                      +...++.+|...+..+   +|..+.+.+... .+..+.++..-++.+.+.++.+++.+.+.+|+..- .-....+..++.
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~~l~  163 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDSILH  163 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHHHHH
Confidence            5566777887776654   455566666544 23334555555666667888889999999988752 212233333333


Q ss_pred             HH---HhcCCHHHHHHHHHHHHHCCCCCCHHHHH--HHH---HHHHhcCC------HHHHHHHHHHHHH---cCCCCCH-
Q 004744          634 GF---VREENMDKAFALVSKMENQGLVPDVITYN--VIL---TGFCRQGR------MHDSELILWRMIE---KGLNPDR-  695 (732)
Q Consensus       634 ~~---~~~g~~~~A~~~~~~~~~~g~~p~~~~~~--~l~---~~~~~~g~------~~~A~~~~~~~~~---~g~~p~~-  695 (732)
                      .+   ... ....|...+..+...-+.|....|.  .++   ......++      ++....++....+   ..+.+.. 
T Consensus       164 ~i~~l~~~-~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~  242 (278)
T PF08631_consen  164 HIKQLAEK-SPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAA  242 (278)
T ss_pred             HHHHHHhh-CcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHH
Confidence            33   333 3355666666665543455442121  111   11112222      4444444553332   1222222 


Q ss_pred             HHHHHH----HHHHHhcCCHHHHHHHHHHHH
Q 004744          696 STYTTL----INGHVSQNNLKEAFRFHDEML  722 (732)
Q Consensus       696 ~~~~~l----~~~~~~~g~~~~A~~~~~~m~  722 (732)
                      .+..+|    +..+.+.+++++|.++++-.+
T Consensus       243 ~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  243 SAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            222222    345668899999999998654

It is also involved in sporulation [].

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=91.89  E-value=24  Score=39.22  Aligned_cols=64  Identities=14%  Similarity=0.188  Sum_probs=36.8

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCC-------hhHHHHHHHHHHHC
Q 004744          274 DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGR-------CDRAKEVLDEMLQM  339 (732)
Q Consensus       274 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~-------~~~A~~~~~~~~~~  339 (732)
                      +...| ++|--+.++|++++|.++.++.... .......+...+..|....+       -+....-|++..+.
T Consensus       111 ~~p~W-a~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~  181 (613)
T PF04097_consen  111 GDPIW-ALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRN  181 (613)
T ss_dssp             TEEHH-HHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT
T ss_pred             CCccH-HHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcC
Confidence            34455 3566677888888888888554432 33355566677777765422       23455555555544

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.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=91.88  E-value=0.26  Score=30.17  Aligned_cols=31  Identities=16%  Similarity=-0.007  Sum_probs=15.3

Q ss_pred             HHHHHCCCccCHHHHHHHHHHHHHcCChHHHH
Q 004744          194 RLLRNKGICFSINACNSLLGGLVKIGWVDLAR  225 (732)
Q Consensus       194 ~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~  225 (732)
                      +++++..|. |..+|+.+...|...|++++|+
T Consensus         3 ~kAie~~P~-n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIELNPN-NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHCCC-CHHHHHHHHHHHHHCcCHHhhc
Confidence            344444444 4555555555555555555543

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.84  E-value=23  Score=38.87  Aligned_cols=48  Identities=13%  Similarity=0.121  Sum_probs=23.0

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH----hcCCHHHHHHHHHHHHHCC
Q 004744          465 MLTEADDLFNEMLERGVFPDFYTFTTLIHGHC----KDGNMNKALNLFDIMTQKS  515 (732)
Q Consensus       465 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~----~~g~~~~A~~~~~~~~~~~  515 (732)
                      +...|.++|....+.|..   ..+..+..+|.    -..+.+.|..++++..+.|
T Consensus       343 d~~~A~~yy~~Aa~~G~~---~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g  394 (552)
T KOG1550|consen  343 DYRRAFEYYSLAAKAGHI---LAIYRLALCYELGLGVERNLELAFAYYKKAAEKG  394 (552)
T ss_pred             cHHHHHHHHHHHHHcCCh---HHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc
Confidence            455666666666655532   22222222221    1235566666666666554

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=91.73  E-value=1.3  Score=41.72  Aligned_cols=103  Identities=17%  Similarity=0.272  Sum_probs=55.1

Q ss_pred             CHHHHHHHHHHHHH-----cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhH
Q 004744          274 DTVTYNTLINAYCR-----EGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATY  348 (732)
Q Consensus       274 ~~~~~~~li~~~~~-----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~  348 (732)
                      |-.+|-+.+..+..     .+.++-....++.|.+.|+..|..+|+.|+..+-+..-                .|.. .+
T Consensus        66 dK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkf----------------iP~n-vf  128 (406)
T KOG3941|consen   66 DKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKF----------------IPQN-VF  128 (406)
T ss_pred             cHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCccccc----------------ccHH-HH
Confidence            55555555555443     24455555566667777777777777766665432211                1111 11


Q ss_pred             HHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCC
Q 004744          349 NTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQ  395 (732)
Q Consensus       349 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~  395 (732)
                      ......|-  .+-+-+++++++|...|+.||-.+-..++.++.+.+-
T Consensus       129 Q~~F~HYP--~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  129 QKVFLHYP--QQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHhhCc--hhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            11111111  1223456777777777777777777777777766654

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.66  E-value=0.41  Score=29.76  Aligned_cols=27  Identities=11%  Similarity=0.054  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          662 TYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       662 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      +|..|+..|.+.|++++|+.++++++.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            467788888888888888888888654

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=91.64  E-value=26  Score=39.02  Aligned_cols=63  Identities=17%  Similarity=0.127  Sum_probs=37.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCC-------HhHHHHHHHHHHhCCC
Q 004744          313 YNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKEN-------MSEAEEIFCEMSRRGV  376 (732)
Q Consensus       313 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~-------~~~A~~~~~~~~~~g~  376 (732)
                      .-.+|-.|.+.|++++|.++..+..+. .......+...+..|....+       -+....-|....+...
T Consensus       114 ~Wa~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~~~  183 (613)
T PF04097_consen  114 IWALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRNST  183 (613)
T ss_dssp             HHHHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT-T
T ss_pred             cHHHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcCCC
Confidence            345677788999999999999555432 23444556666777765422       2344555666555433

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.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=91.59  E-value=2.1  Score=41.34  Aligned_cols=74  Identities=12%  Similarity=0.129  Sum_probs=45.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCCCCHHHHHHH
Q 004744          557 SYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVS-----EGVDPDSISYNTL  631 (732)
Q Consensus       557 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~~~~~l  631 (732)
                      ++..++..+...|+.+.+...++++.... +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+...+
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            44555666666666666666666666653 55666666666666666666666666666554     2555555544433

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.47  E-value=25  Score=38.57  Aligned_cols=178  Identities=17%  Similarity=0.168  Sum_probs=95.4

Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHH----H-HHHcCCHHHHHHHHHHHhh-------CCCCCCHhhHHHHHHHHHhc
Q 004744          256 IDSAKMFLCEMEQKGVYPDTVTYNTLIN----A-YCREGFLEEAFQLMNSMSG-------KGLKPGVFTYNSLINGLCKK  323 (732)
Q Consensus       256 ~~~A~~~~~~~~~~g~~p~~~~~~~li~----~-~~~~g~~~~A~~~~~~m~~-------~g~~p~~~~~~~li~~~~~~  323 (732)
                      ..+|.++++...+.|   +...-..++.    + +....+.+.|+..|..+.+       .|   +......+...|.+.
T Consensus       228 ~~~a~~~~~~~a~~g---~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLG---HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhc---chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            356777777777765   3333222222    2 4455678888888888766       44   333555666666654


Q ss_pred             C-----ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHc-CCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHH----hC
Q 004744          324 G-----RCDRAKEVLDEMLQMGLSPDTATYNTLLVESCR-KENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFS----RN  393 (732)
Q Consensus       324 g-----~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~----~~  393 (732)
                      .     +.+.|..++.+..+.| .|+....-..+..... ..+...|.++|....+.|..   ..+-.+..+|.    ..
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~---~A~~~la~~y~~G~gv~  377 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI---LAIYRLALCYELGLGVE  377 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh---HHHHHHHHHHHhCCCcC
Confidence            3     4566888887777776 3444433322222222 23567788888887777642   22222222222    23


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 004744          394 GQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKG  445 (732)
Q Consensus       394 g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  445 (732)
                      .+.+.|..++.+..+.|.. ...--...+..+.. ++.+.+.-.+..+.+.|
T Consensus       378 r~~~~A~~~~k~aA~~g~~-~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKGNP-SAAYLLGAFYEYGV-GRYDTALALYLYLAELG  427 (552)
T ss_pred             CCHHHHHHHHHHHHHccCh-hhHHHHHHHHHHcc-ccccHHHHHHHHHHHhh
Confidence            4567777777777776622 21111122222333 55555555555554443

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=91.09  E-value=3.4  Score=36.55  Aligned_cols=41  Identities=12%  Similarity=0.270  Sum_probs=20.1

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          676 MHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQR  724 (732)
Q Consensus       676 ~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  724 (732)
                      +++|...|+++.+  .+|+...|..-+....      +|-++..++.+.
T Consensus        96 F~kA~~~FqkAv~--~~P~ne~Y~ksLe~~~------kap~lh~e~~~~  136 (186)
T PF06552_consen   96 FEKATEYFQKAVD--EDPNNELYRKSLEMAA------KAPELHMEIHKQ  136 (186)
T ss_dssp             HHHHHHHHHHHHH--H-TT-HHHHHHHHHHH------THHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHh--cCCCcHHHHHHHHHHH------hhHHHHHHHHHH
Confidence            4445555555555  6666666665555442      344444444443

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.06  E-value=0.37  Score=29.25  Aligned_cols=32  Identities=19%  Similarity=0.342  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 004744          696 STYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPD  729 (732)
Q Consensus       696 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd  729 (732)
                      ..|..++.++...|++++|.+.+++.++  +.|+
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~--l~p~   33 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALE--LDPN   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHH--HCcC
Confidence            4688899999999999999999999984  4454

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=90.99  E-value=3.1  Score=37.52  Aligned_cols=95  Identities=14%  Similarity=0.132  Sum_probs=55.7

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC---CCCCCH----H
Q 004744          591 VSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPD--SISYNTLINGFVREENMDKAFALVSKMENQ---GLVPDV----I  661 (732)
Q Consensus       591 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---g~~p~~----~  661 (732)
                      ..+..+...|++.|+.++|.+.|.++.+....+.  ...+-.+|......+++..+...+.++...   |-+++.    .
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            3455666677777777777777777766533333  334555666667777777777776666542   111111    1


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          662 TYNVILTGFCRQGRMHDSELILWRMI  687 (732)
Q Consensus       662 ~~~~l~~~~~~~g~~~~A~~~~~~~~  687 (732)
                      +|..+  .+...|++.+|-+.|-+..
T Consensus       117 ~~~gL--~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGL--ANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHH--HHHHhchHHHHHHHHHccC
Confidence            12111  2335688888888776654

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=90.96  E-value=22  Score=36.99  Aligned_cols=100  Identities=13%  Similarity=0.086  Sum_probs=62.2

Q ss_pred             CCCHHHH-HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH--hcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 004744          587 KPTLVSC-NTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFV--REENMDKAFALVSKMENQGLVPDVITY  663 (732)
Q Consensus       587 ~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~--~~g~~~~A~~~~~~~~~~g~~p~~~~~  663 (732)
                      .++..++ +.+++.+.+.|-.++|.+.+..+... .+|+...|..+|..-.  ..-++.-+.++++.|... +-.|+..|
T Consensus       456 ~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~l-pp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~-fg~d~~lw  533 (568)
T KOG2396|consen  456 GADSVTLKSKYLDWAYESGGYKKARKVYKSLQEL-PPFSLDLFRKMIQFEKEQESCNLANIREYYDRALRE-FGADSDLW  533 (568)
T ss_pred             CCceeehhHHHHHHHHHhcchHHHHHHHHHHHhC-CCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHH-hCCChHHH
Confidence            3444433 45566666777777777777777664 3455666666654321  122366777778777653 22566677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          664 NVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       664 ~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      ...+.-=...|..+.+-.++.++.+
T Consensus       534 ~~y~~~e~~~g~~en~~~~~~ra~k  558 (568)
T KOG2396|consen  534 MDYMKEELPLGRPENCGQIYWRAMK  558 (568)
T ss_pred             HHHHHhhccCCCcccccHHHHHHHH
Confidence            6666555577888877777777665

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=90.95  E-value=31  Score=38.72  Aligned_cols=226  Identities=15%  Similarity=0.092  Sum_probs=120.6

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCH-------HHHHHHHH-HHHhcCCHHHHHHHHHHHHHC----CCCCCHHHHHHHH
Q 004744          460 LCRAKMLTEADDLFNEMLERGVFPDF-------YTFTTLIH-GHCKDGNMNKALNLFDIMTQK----SIKPDIVTYNTLI  527 (732)
Q Consensus       460 ~~~~~~~~~A~~~~~~~~~~~~~~~~-------~~~~~li~-~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~~li  527 (732)
                      .....++++|..+..++...-..|+.       ..++.+-. .....|+++.|.++.+.....    -..+....+..+.
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            44567888888888877654222221       12333322 234578899999888877664    1223455666777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHH---HHHH--HHHHHhcCC--HHHHHHHHHHHHhC---CCC---CCHHHHH
Q 004744          528 DGFCKVGEMEKANKLWADMISRKISPNYIS---YGIL--INGYCSMGH--VTEAFRLWYEMVGK---GIK---PTLVSCN  594 (732)
Q Consensus       528 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---~~~l--i~~~~~~g~--~~~A~~~~~~~~~~---~~~---~~~~~~~  594 (732)
                      .+..-.|++++|..+..+..+..-.-+...   |..+  ...+...|.  ..+....|......   ..+   +-..+..
T Consensus       505 ~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~  584 (894)
T COG2909         505 EAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRA  584 (894)
T ss_pred             HHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHH
Confidence            777788999999888877665422223332   2222  233455663  23333333333221   111   1223445


Q ss_pred             HHHHHHHHc-CCHHHHHHHHHHHHHCCCCCCHHHH--HHHHHHHHhcCCHHHHHHHHHHHHHCCCCC----CHHHHHHHH
Q 004744          595 TIIKGYCRS-GDASKADEFLSKMVSEGVDPDSISY--NTLINGFVREENMDKAFALVSKMENQGLVP----DVITYNVIL  667 (732)
Q Consensus       595 ~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~--~~li~~~~~~g~~~~A~~~~~~~~~~g~~p----~~~~~~~l~  667 (732)
                      .++.++.+. +...++..-++--......|-...+  ..|+......|++++|...++++......+    +-..-...+
T Consensus       585 ~ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~~v  664 (894)
T COG2909         585 QLLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAYKV  664 (894)
T ss_pred             HHHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHHHh
Confidence            555555541 2222233333222222222222222  266777888999999999999887733222    222222222


Q ss_pred             HH--HHhcCCHHHHHHHHHH
Q 004744          668 TG--FCRQGRMHDSELILWR  685 (732)
Q Consensus       668 ~~--~~~~g~~~~A~~~~~~  685 (732)
                      ..  -...|+..+|.....+
T Consensus       665 ~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         665 KLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             hHHHhcccCCHHHHHHHHHh
Confidence            22  2356888888777666

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=90.77  E-value=0.76  Score=44.47  Aligned_cols=94  Identities=12%  Similarity=0.104  Sum_probs=66.9

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 004744          597 IKGYCRSGDASKADEFLSKMVSEGVDP-DSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGR  675 (732)
Q Consensus       597 ~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~  675 (732)
                      ..-|.+.|.+++|+..|.+.+..  .| +.+++..-..+|.+..++..|..--..++..+ ..-...|..-+.+-...|+
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhh
Confidence            45688889999999999887763  45 78888888888998888888877777666521 1112245555555555677


Q ss_pred             HHHHHHHHHHHHHcCCCCCH
Q 004744          676 MHDSELILWRMIEKGLNPDR  695 (732)
Q Consensus       676 ~~~A~~~~~~~~~~g~~p~~  695 (732)
                      ..+|.+-++..++  ++|+.
T Consensus       181 ~~EAKkD~E~vL~--LEP~~  198 (536)
T KOG4648|consen  181 NMEAKKDCETVLA--LEPKN  198 (536)
T ss_pred             HHHHHHhHHHHHh--hCccc
Confidence            8888888888877  77864

>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=90.66  E-value=11  Score=32.93  Aligned_cols=53  Identities=13%  Similarity=0.058  Sum_probs=28.7

Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHHcCCHHHHHHHHHHHhhC
Q 004744          250 LCKDHKIDSAKMFLCEMEQKGVYPDTVTY-NTLINAYCREGFLEEAFQLMNSMSGK  304 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~  304 (732)
                      -.+.++.+++..+++.+.-.  .|..... ..-...+.+.|++.+|..+|+++.+.
T Consensus        20 al~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   20 ALRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HHccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            34455666666666666655  2332221 11223445667777777777776554

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.61  E-value=0.61  Score=28.35  Aligned_cols=29  Identities=14%  Similarity=0.088  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 004744          171 LIFDLVIRTYVQARKLREGSEVFRLLRNK  199 (732)
Q Consensus       171 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  199 (732)
                      .+|..++..|...|++++|+..|+++++.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            35666677777777777777777776665

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 ....

>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=90.58  E-value=57  Score=41.12  Aligned_cols=314  Identities=11%  Similarity=0.056  Sum_probs=167.1

Q ss_pred             HHHHHHHhCCCHHHHHHHHHHH----HHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 004744          385 TLIGIFSRNGQLDRALMYFREM----KSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGL  460 (732)
Q Consensus       385 ~l~~~~~~~g~~~~A~~l~~~~----~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  460 (732)
                      .+..+-.+.+.+..|...++.-    ++.  .....-|..+...|...++++...-+......     +...+. -|...
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            4455666788888888888873    211  11122344444588888888887766653111     222222 33446


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHhcCCHHHH
Q 004744          461 CRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVT-YNTLIDGFCKVGEMEKA  539 (732)
Q Consensus       461 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~A  539 (732)
                      ...|++..|...|+.+.+.+.. ...+++.++......|.++..+...+-..... .+.... ++.-+.+-.+.++++..
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-KEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDLL 1537 (2382)
T ss_pred             HhhccHHHHHHHHHHhhcCCCc-cccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhhh
Confidence            7789999999999999887543 46677777777777888888877666554432 222222 23334555788888877


Q ss_pred             HHHHHHHHHCCCCCCHHHHHH--HHHHHHhcCC--HHHHHHHHHHHHhC--------CCCCC-HHHHHHHHHHHHHcCCH
Q 004744          540 NKLWADMISRKISPNYISYGI--LINGYCSMGH--VTEAFRLWYEMVGK--------GIKPT-LVSCNTIIKGYCRSGDA  606 (732)
Q Consensus       540 ~~~~~~~~~~~~~~~~~~~~~--li~~~~~~g~--~~~A~~~~~~~~~~--------~~~~~-~~~~~~l~~~~~~~g~~  606 (732)
                      .....   +.    +..+|..  ++..+.+..+  .-.-.+..+-+.+.        +..-+ ...|..+++...-.   
T Consensus      1538 e~~l~---~~----n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~--- 1607 (2382)
T KOG0890|consen 1538 ESYLS---DR----NIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLL--- 1607 (2382)
T ss_pred             hhhhh---cc----cccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHH---
Confidence            76654   21    2222322  2222222211  11111122222211        00000 12233333222111   


Q ss_pred             HHHHHHHHHHHHCCCCCC------HHHHHHHHHHHHhcCCHHHHHHHHHH-HHHCCCCCC-----HHHHHHHHHHHHhcC
Q 004744          607 SKADEFLSKMVSEGVDPD------SISYNTLINGFVREENMDKAFALVSK-MENQGLVPD-----VITYNVILTGFCRQG  674 (732)
Q Consensus       607 ~~A~~~~~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~-~~~~g~~p~-----~~~~~~l~~~~~~~g  674 (732)
                       +-....+...  +..++      ...|-.-+..-....+..+-+--+++ +......|+     ..+|...++.....|
T Consensus      1608 -el~~~~~~l~--~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG 1684 (2382)
T KOG0890|consen 1608 -ELENSIEELK--KVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAG 1684 (2382)
T ss_pred             -HHHHHHHHhh--ccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcc
Confidence             1111111111  22222      11222222111111112222222222 222112222     358888999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          675 RMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQR  724 (732)
Q Consensus       675 ~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  724 (732)
                      .++.|...+-++.+.+   -+..+...+..+.+.|+...|..++++-++.
T Consensus      1685 ~~q~A~nall~A~e~r---~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~ 1731 (2382)
T KOG0890|consen 1685 HLQRAQNALLNAKESR---LPEIVLERAKLLWQTGDELNALSVLQEILSK 1731 (2382)
T ss_pred             cHHHHHHHHHhhhhcc---cchHHHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            9999999988888754   2356777888899999999999999998864

>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=90.48  E-value=12  Score=33.12  Aligned_cols=101  Identities=21%  Similarity=0.315  Sum_probs=44.8

Q ss_pred             HHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCC
Q 004744          296 QLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRG  375 (732)
Q Consensus       296 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  375 (732)
                      ++++.+...+++|+...+..++..+.+.|++..-.+    +++.++-+|.......+-.+.  +....+.++=-+|.++ 
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~q----llq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkR-   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQ----LLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKR-   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH----HHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHH-
Confidence            344444555556666666666666666665443333    233333444433332222221  1222233333333322 


Q ss_pred             CCCCHhHHHHHHHHHHhCCCHHHHHHHHHHH
Q 004744          376 VAPDIVSFSTLIGIFSRNGQLDRALMYFREM  406 (732)
Q Consensus       376 ~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~  406 (732)
                         =...+..++..+...|++-+|.++.+..
T Consensus        88 ---L~~~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   88 ---LGTAYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             ---hhhhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence               0112344555556666666666655543

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.39  E-value=5.1  Score=35.99  Aligned_cols=95  Identities=15%  Similarity=0.195  Sum_probs=71.3

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHH
Q 004744          597 IKGYCRSGDASKADEFLSKMVSEGVDPD----SISYNTLINGFVREENMDKAFALVSKMENQGLVPDV-ITYNVILTGFC  671 (732)
Q Consensus       597 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~~~  671 (732)
                      ..-+.+.|++++|..-|..++..-....    .+.|..-..++.+.+.++.|++--.+.++  +.|.. .....-..+|.
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaie--l~pty~kAl~RRAeaye  179 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIE--LNPTYEKALERRAEAYE  179 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHh--cCchhHHHHHHHHHHHH
Confidence            4457788999999999999988532111    34566666778899999999999999988  44532 23344456788


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          672 RQGRMHDSELILWRMIEKGLNPDR  695 (732)
Q Consensus       672 ~~g~~~~A~~~~~~~~~~g~~p~~  695 (732)
                      +..++++|+.-|+++.+  ..|..
T Consensus       180 k~ek~eealeDyKki~E--~dPs~  201 (271)
T KOG4234|consen  180 KMEKYEEALEDYKKILE--SDPSR  201 (271)
T ss_pred             hhhhHHHHHHHHHHHHH--hCcch
Confidence            88999999999999998  77754

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.90  E-value=3.9  Score=43.07  Aligned_cols=45  Identities=20%  Similarity=0.193  Sum_probs=22.3

Q ss_pred             HcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 004744          287 REGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEML  337 (732)
Q Consensus       287 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  337 (732)
                      +.|+++.|.++..+..      +..-|..|..+....|++..|.+.|.+..
T Consensus       649 ~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~  693 (794)
T KOG0276|consen  649 KLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRAR  693 (794)
T ss_pred             hcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhc
Confidence            4455555555444332      33445555555555555555555554443

>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=88.73  E-value=16  Score=31.99  Aligned_cols=52  Identities=15%  Similarity=-0.062  Sum_probs=22.8

Q ss_pred             HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 004744          217 KIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       217 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      +.++.+++..++..+.-.. |-....-..-...+.+.|++.+|+.+|+++...
T Consensus        22 ~~~~~~D~e~lL~ALrvLR-P~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLR-PEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             ccCChHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            3344555555555443321 111111112233345556666666666665544

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=88.62  E-value=0.033  Score=48.53  Aligned_cols=51  Identities=14%  Similarity=0.060  Sum_probs=21.8

Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHH
Q 004744          214 GLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLC  264 (732)
Q Consensus       214 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  264 (732)
                      .+.+.+..+....+++.+...+...+....+.++..|++.++.++...+++
T Consensus        16 ~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   16 AFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            333344444444444444443333344444444555554444444444443

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.40  E-value=21  Score=33.14  Aligned_cols=22  Identities=9%  Similarity=0.197  Sum_probs=13.1

Q ss_pred             HHHhCCCHHHHHHHHHHHHHCC
Q 004744          389 IFSRNGQLDRALMYFREMKSAG  410 (732)
Q Consensus       389 ~~~~~g~~~~A~~l~~~~~~~~  410 (732)
                      .-...+++.+|+++|+++....
T Consensus       163 yaa~leqY~~Ai~iyeqva~~s  184 (288)
T KOG1586|consen  163 YAAQLEQYSKAIDIYEQVARSS  184 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Confidence            3345566666777776665543

>PRK11619 lytic murein transglycosylase; Provisional

Probab=88.32  E-value=48  Score=37.08  Aligned_cols=450  Identities=11%  Similarity=0.014  Sum_probs=233.0

Q ss_pred             ChHHHHHHHHHhccCCcchhhhhccC-----CChHHHHHHHHhhcc--ChhHHHHHHHhHHhhCCCCCCChHHHHHHHHH
Q 004744           55 DSLLVEKILLNLKQGNVNSLRSYQFR-----LNSVIIVEVLYRLRD--NLQVGQRFIDFIALNFPNVKHSSMSLSAMIHF  127 (732)
Q Consensus        55 ~~~~~~~~~~~~~~~~~~~l~~~~~~-----l~~~~~~~~l~~~~~--~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~  127 (732)
                      +.....++.+.++++++....++...     +.+..-...|..-.+  ++.....|.    ...|+..-....-..-+..
T Consensus        33 ~r~~f~~A~~a~~~g~~~~~~~~~~~l~d~pL~~yl~y~~L~~~l~~~~~~ev~~Fl----~~~~~~P~~~~Lr~~~l~~  108 (644)
T PRK11619         33 QRQRYQQIKQAWDNRQMDVVEQLMPTLKDYPLYPYLEYRQLTQDLMNQPAVQVTNFI----RANPTLPPARSLQSRFVNE  108 (644)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHhccCCCcHhHHHHHHHHhccccCCHHHHHHHH----HHCCCCchHHHHHHHHHHH
Confidence            35567778889999988665554333     333333333322211  223222222    3344432222222233333


Q ss_pred             HHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHH
Q 004744          128 LVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINA  207 (732)
Q Consensus       128 l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  207 (732)
                      +.+.+...+-..                      .+...+.+...-.....+....|+.++|....+.+-..|.. ....
T Consensus       109 La~~~~w~~~~~----------------------~~~~~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g~~-~p~~  165 (644)
T PRK11619        109 LARREDWRGLLA----------------------FSPEKPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTGKS-LPNA  165 (644)
T ss_pred             HHHccCHHHHHH----------------------hcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC-CChH
Confidence            444444332222                      12233456666777888889999998898888888777654 6788


Q ss_pred             HHHHHHHHHHcCChHH--HHHHHHHHHHcCCCCCHHHHHHHHHHHHhc------------CChhHHHHHHHHHHhCCCCC
Q 004744          208 CNSLLGGLVKIGWVDL--AREVYAEVVRSGIELNVYTLNIMVNALCKD------------HKIDSAKMFLCEMEQKGVYP  273 (732)
Q Consensus       208 ~~~ll~~~~~~g~~~~--a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~------------g~~~~A~~~~~~~~~~g~~p  273 (732)
                      |+.++..+.+.|....  .++-++.+...|   +...-..++..+...            .+...+..++..     +.|
T Consensus       166 cd~l~~~~~~~g~lt~~d~w~R~~~al~~~---~~~lA~~l~~~l~~~~~~~a~a~~al~~~p~~~~~~~~~-----~~~  237 (644)
T PRK11619        166 CDKLFSVWQQSGKQDPLAYLERIRLAMKAG---NTGLVTYLAKQLPADYQTIASALIKLQNDPNTVETFART-----TGP  237 (644)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHhcChhHHHHHHHHHHHHHCHHHHHHHhhc-----cCC
Confidence            9999999987776443  333344444433   222222222221000            111111111111     112


Q ss_pred             CHHHHHHHHHHHH--HcCCHHHHHHHHHHHhhCC-CCCC--HhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhH
Q 004744          274 DTVTYNTLINAYC--REGFLEEAFQLMNSMSGKG-LKPG--VFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATY  348 (732)
Q Consensus       274 ~~~~~~~li~~~~--~~g~~~~A~~~~~~m~~~g-~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~  348 (732)
                      +...-..++.++.  ...+.+.|..++....... +.+.  ...+..+.......+...+|...+.......  .+....
T Consensus       238 ~~~~~~~~~~~l~Rlar~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~--~~~~~~  315 (644)
T PRK11619        238 TDFTRQMAAVAFASVARQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRS--QSTSLL  315 (644)
T ss_pred             ChhhHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccccc--CCcHHH
Confidence            2222222222222  3456688999888764432 2222  2234444444444433567777666654332  233444


Q ss_pred             HHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 004744          349 NTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRN  428 (732)
Q Consensus       349 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~  428 (732)
                      ..-+......++++.+...+..|....- -...-..=+..++...|+.++|...|+.+...   .+  -|..|..  .+.
T Consensus       316 e~r~r~Al~~~dw~~~~~~i~~L~~~~~-~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a~~---~~--fYG~LAa--~~L  387 (644)
T PRK11619        316 ERRVRMALGTGDRRGLNTWLARLPMEAK-EKDEWRYWQADLLLEQGRKAEAEEILRQLMQQ---RG--FYPMVAA--QRL  387 (644)
T ss_pred             HHHHHHHHHccCHHHHHHHHHhcCHhhc-cCHhhHHHHHHHHHHcCCHHHHHHHHHHHhcC---CC--cHHHHHH--HHc
Confidence            4445555688899998888888755321 13333344666667789999999999987431   12  2322221  122


Q ss_pred             CCHHHH-HHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004744          429 GFVLEA-LKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNL  507 (732)
Q Consensus       429 g~~~~A-~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  507 (732)
                      |..-.- ...... ....+..++  --.-+..+...|....|...+..+...   .+......+.....+.|.++.++..
T Consensus       388 g~~~~~~~~~~~~-~~~~~~~~~--~~~ra~~L~~~g~~~~a~~ew~~~~~~---~~~~~~~~la~~A~~~g~~~~ai~~  461 (644)
T PRK11619        388 GEEYPLKIDKAPK-PDSALTQGP--EMARVRELMYWNMDNTARSEWANLVAS---RSKTEQAQLARYAFNQQWWDLSVQA  461 (644)
T ss_pred             CCCCCCCCCCCCc-hhhhhccCh--HHHHHHHHHHCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            221000 000000 000000011  122344567789999999988888774   2445556666666778888888776


Q ss_pred             HHHHHHC-----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 004744          508 FDIMTQK-----SIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISY  558 (732)
Q Consensus       508 ~~~~~~~-----~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  558 (732)
                      .......     .++   ..|...+..+.+.-.++.++-.---..+.++.|+..+.
T Consensus       462 ~~~~~~~~~~~~rfp---~~~~~~~~~~a~~~~v~~~lv~ai~rqES~f~p~a~S~  514 (644)
T PRK11619        462 TIAGKLWDHLEERFP---LAWNDEFRRYTSGKGIPQSYAMAIARQESAWNPKARSP  514 (644)
T ss_pred             HhhchhHHHHHHhCC---cchHHHHHHHHHHcCCCHHHHHHHHHHhcCCCCCCccC
Confidence            6543221     111   24666777777766777766544444566777776553

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=88.23  E-value=13  Score=33.57  Aligned_cols=98  Identities=13%  Similarity=0.058  Sum_probs=69.5

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCcc
Q 004744          124 MIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICF  203 (732)
Q Consensus       124 l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  203 (732)
                      =..-+.++|.+.+|.+-|.+++...+..+...             ..+.|..-..++.+.+.++.|+.--.+.++.++. 
T Consensus       101 EGN~~F~ngdyeeA~skY~~Ale~cp~~~~e~-------------rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-  166 (271)
T KOG4234|consen  101 EGNELFKNGDYEEANSKYQEALESCPSTSTEE-------------RSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-  166 (271)
T ss_pred             HHHHhhhcccHHHHHHHHHHHHHhCccccHHH-------------HHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-
Confidence            34456788999999999999885433222211             2345556667788899999999999888888765 


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 004744          204 SINACNSLLGGLVKIGWVDLAREVYAEVVRSG  235 (732)
Q Consensus       204 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  235 (732)
                      ...+...-..+|-+...+++|++=|..+....
T Consensus       167 y~kAl~RRAeayek~ek~eealeDyKki~E~d  198 (271)
T KOG4234|consen  167 YEKALERRAEAYEKMEKYEEALEDYKKILESD  198 (271)
T ss_pred             hHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC
Confidence            44444455567778888888888888887753

>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=87.79  E-value=0.82  Score=27.72  Aligned_cols=27  Identities=11%  Similarity=0.137  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          662 TYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       662 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      +|..+...|...|++++|...|++.++
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            344455555555555555555555555

...

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=87.55  E-value=39  Score=35.26  Aligned_cols=99  Identities=7%  Similarity=0.048  Sum_probs=65.4

Q ss_pred             CCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH--hcCCHHHHHHHHHHHHH-cCCCCCHHH
Q 004744          622 DPDSISY-NTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFC--RQGRMHDSELILWRMIE-KGLNPDRST  697 (732)
Q Consensus       622 ~~~~~~~-~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~--~~g~~~~A~~~~~~~~~-~g~~p~~~~  697 (732)
                      .|+..++ +.++.-+.+.|-..+|...+..+... .+|....|..++..=.  ..-+..-+..+++.|.. .|  .|+..
T Consensus       456 ~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~l-pp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg--~d~~l  532 (568)
T KOG2396|consen  456 GADSVTLKSKYLDWAYESGGYKKARKVYKSLQEL-PPFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFG--ADSDL  532 (568)
T ss_pred             CCceeehhHHHHHHHHHhcchHHHHHHHHHHHhC-CCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhC--CChHH
Confidence            3555544 45677778888889999999988874 2345666766664321  12237778888888876 66  45556


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          698 YTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       698 ~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      |.....-=...|..+.+-.++.++.+
T Consensus       533 w~~y~~~e~~~g~~en~~~~~~ra~k  558 (568)
T KOG2396|consen  533 WMDYMKEELPLGRPENCGQIYWRAMK  558 (568)
T ss_pred             HHHHHHhhccCCCcccccHHHHHHHH
Confidence            66655555577887777777666543

>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=87.22  E-value=21  Score=31.67  Aligned_cols=100  Identities=15%  Similarity=0.165  Sum_probs=49.7

Q ss_pred             HHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 004744          192 VFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGV  271 (732)
Q Consensus       192 ~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~  271 (732)
                      ..+.+.+.+..|+...+..++..+.+.|++....++.    ..++-+|.......+-.+.  +....+.++--+|.++  
T Consensus        16 YirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qll----q~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkR--   87 (167)
T PF07035_consen   16 YIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLL----QYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKR--   87 (167)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH----hhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHH--
Confidence            3444455666666667777777777777655443333    3333333333322221111  2233444444444433  


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 004744          272 YPDTVTYNTLINAYCREGFLEEAFQLMNSM  301 (732)
Q Consensus       272 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  301 (732)
                        =...+..++..+...|++-+|+++.+..
T Consensus        88 --L~~~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   88 --LGTAYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             --hhhhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence              1113445556666667777776666654

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=86.95  E-value=43  Score=35.06  Aligned_cols=100  Identities=12%  Similarity=-0.022  Sum_probs=54.1

Q ss_pred             CCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH
Q 004744          164 SPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTL  243 (732)
Q Consensus       164 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  243 (732)
                      ++.+-|....-+++..++++.++.-...+-.+|+..|  -+--.+..++..|..+ ..+.-..+++++++..+ .|+..-
T Consensus        60 s~~~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~  135 (711)
T COG1747          60 SKQLLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIG  135 (711)
T ss_pred             hhccccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHH
Confidence            4444455555566666666666666666666666654  2445566666666666 44555566666655432 222222


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHh
Q 004744          244 NIMVNALCKDHKIDSAKMFLCEMEQ  268 (732)
Q Consensus       244 ~~l~~~~~~~g~~~~A~~~~~~~~~  268 (732)
                      ..|+.-|- .++.+.+..+|.++..
T Consensus       136 ReLa~~yE-kik~sk~a~~f~Ka~y  159 (711)
T COG1747         136 RELADKYE-KIKKSKAAEFFGKALY  159 (711)
T ss_pred             HHHHHHHH-HhchhhHHHHHHHHHH
Confidence            33333333 3555566555555543

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=86.85  E-value=29  Score=32.92  Aligned_cols=208  Identities=15%  Similarity=0.129  Sum_probs=127.1

Q ss_pred             CCCcCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----C
Q 004744          445 GCVMDVVTYNTILNG-LCRAKMLTEADDLFNEMLERGVFPD---FYTFTTLIHGHCKDGNMNKALNLFDIMTQK-----S  515 (732)
Q Consensus       445 ~~~~~~~~~~~li~~-~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~  515 (732)
                      +..||+..-|..-.. -.+..++++|+.-|.+.++....--   ..+...++..+.+.|++++-...|.+++..     .
T Consensus        21 ~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVT  100 (440)
T KOG1464|consen   21 NSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVT  100 (440)
T ss_pred             CCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHh
Confidence            344555544433221 1244578999999999887532222   334556788889999999999999888642     0


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHH----HHHHHHHHHHhcCCHHHHHHHHHHHHhCCC----
Q 004744          516 IKPDIVTYNTLIDGFCKVGEMEKANKLWADMISR-KISPNYI----SYGILINGYCSMGHVTEAFRLWYEMVGKGI----  586 (732)
Q Consensus       516 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~----~~~~li~~~~~~g~~~~A~~~~~~~~~~~~----  586 (732)
                      -..+....+++++......+.+--.++|+.-++. .-..+..    |-+-|...|...|.+.+..++++++....-    
T Consensus       101 rNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edG  180 (440)
T KOG1464|consen  101 RNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDG  180 (440)
T ss_pred             ccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccC
Confidence            1124456677888777777777777776654432 0011222    234567778888888888888888765421    


Q ss_pred             CCC-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHH----HHHHhcCCHHHHHHHHHHHH
Q 004744          587 KPT-------LVSCNTIIKGYCRSGDASKADEFLSKMVSE-GVDPDSISYNTLI----NGFVREENMDKAFALVSKME  652 (732)
Q Consensus       587 ~~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~li----~~~~~~g~~~~A~~~~~~~~  652 (732)
                      ..|       ...|..-+..|....+-.+...+|++.+.. ..-|.+.....+-    .+..+.|++++|-.-|=++.
T Consensus       181 edD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhTDFFEAF  258 (440)
T KOG1464|consen  181 EDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHTDFFEAF  258 (440)
T ss_pred             chhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHhHHHHHH
Confidence            112       234556667777788888888888877653 2234544433322    33457788888865444433

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.83  E-value=55  Score=36.22  Aligned_cols=47  Identities=13%  Similarity=0.133  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHH
Q 004744          242 TLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLE  292 (732)
Q Consensus       242 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~  292 (732)
                      .+...++.+.-.|++++|-...-.|...    +..-|.--+..+...++..
T Consensus       394 v~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~~~l~  440 (846)
T KOG2066|consen  394 VGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAELDQLT  440 (846)
T ss_pred             HHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhccccccc
Confidence            3444555555556666666555555543    4455555555555544443

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.70  E-value=56  Score=36.17  Aligned_cols=102  Identities=17%  Similarity=0.069  Sum_probs=60.0

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhc
Q 004744          247 VNALCKDHKIDSAKMFLCEMEQKGVYP---DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKK  323 (732)
Q Consensus       247 ~~~~~~~g~~~~A~~~~~~~~~~g~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~  323 (732)
                      ++-+.+.+.+++|.+..+.....  .|   -...+..+|..+.-.|++++|-...-.|...    +..-|.--+..+...
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            34456667777777766654433  23   2345777888888888888888888888765    556666666655555


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHc
Q 004744          324 GRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCR  357 (732)
Q Consensus       324 g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~  357 (732)
                      ++......++   .......+...|..++..+..
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            5544333222   111111234456666655554

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=86.52  E-value=60  Score=36.28  Aligned_cols=163  Identities=12%  Similarity=0.137  Sum_probs=68.4

Q ss_pred             HHHHHHHHH-hcCChhHHHHHHHHHHhCCCCCCHH-----HHHHHHHHHHHcCCHHHHHHHHHHHhhCC----CCCCHhh
Q 004744          243 LNIMVNALC-KDHKIDSAKMFLCEMEQKGVYPDTV-----TYNTLINAYCREGFLEEAFQLMNSMSGKG----LKPGVFT  312 (732)
Q Consensus       243 ~~~l~~~~~-~~g~~~~A~~~~~~~~~~g~~p~~~-----~~~~li~~~~~~g~~~~A~~~~~~m~~~g----~~p~~~~  312 (732)
                      +-.++..+. ...++++|+..+++.....-.++..     +...++..+.+.+... |...+++.++.-    ..+-...
T Consensus        62 ~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~  140 (608)
T PF10345_consen   62 RLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYA  140 (608)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHH
Confidence            333444444 4455666666665543322111111     1223444555554444 666666554321    0011111


Q ss_pred             HHHH-HHHHHhcCChhHHHHHHHHHHHCC---CCCCHHhHHHHHHHH--HcCCCHhHHHHHHHHHHhCC---------CC
Q 004744          313 YNSL-INGLCKKGRCDRAKEVLDEMLQMG---LSPDTATYNTLLVES--CRKENMSEAEEIFCEMSRRG---------VA  377 (732)
Q Consensus       313 ~~~l-i~~~~~~g~~~~A~~~~~~~~~~g---~~~~~~~~~~li~~~--~~~g~~~~A~~~~~~~~~~g---------~~  377 (732)
                      |.-+ +..+...++...|.+.++.+...-   ..|...++..++.+.  .+.+..+++.+.++.+....         ..
T Consensus       141 frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~  220 (608)
T PF10345_consen  141 FRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHI  220 (608)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCc
Confidence            1222 112222256666666666655321   122333333333332  23444555555555442211         12


Q ss_pred             CCHhHHHHHHHHH--HhCCCHHHHHHHHHHH
Q 004744          378 PDIVSFSTLIGIF--SRNGQLDRALMYFREM  406 (732)
Q Consensus       378 ~~~~~~~~l~~~~--~~~g~~~~A~~l~~~~  406 (732)
                      |...+|..++..+  ...|+++.+...++++
T Consensus       221 ~qL~~~~lll~l~~~l~~~~~~~~~~~L~~l  251 (608)
T PF10345_consen  221 PQLKALFLLLDLCCSLQQGDVKNSKQKLKQL  251 (608)
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            2344555555443  3456655555555444

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 [].

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.48  E-value=9.8  Score=40.28  Aligned_cols=133  Identities=16%  Similarity=0.067  Sum_probs=94.7

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004744          206 NACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAY  285 (732)
Q Consensus       206 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~  285 (732)
                      ...+.+..-+-++|..++|+++-         +|..-.   .....+.|+++.|.++..+..      +..-|..|.++.
T Consensus       615 ~~rt~va~Fle~~g~~e~AL~~s---------~D~d~r---Felal~lgrl~iA~~la~e~~------s~~Kw~~Lg~~a  676 (794)
T KOG0276|consen  615 EIRTKVAHFLESQGMKEQALELS---------TDPDQR---FELALKLGRLDIAFDLAVEAN------SEVKWRQLGDAA  676 (794)
T ss_pred             hhhhhHHhHhhhccchHhhhhcC---------CChhhh---hhhhhhcCcHHHHHHHHHhhc------chHHHHHHHHHH
Confidence            34567777777888877777642         222211   123456788999888776643      677899999999


Q ss_pred             HHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHH
Q 004744          286 CREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAE  365 (732)
Q Consensus       286 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~  365 (732)
                      .+.|++..|.+.|.....         |..|+-.+...|+.+.-..+-....+.|. -     |....+|...|+++++.
T Consensus       677 l~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~-~-----N~AF~~~~l~g~~~~C~  741 (794)
T KOG0276|consen  677 LSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGK-N-----NLAFLAYFLSGDYEECL  741 (794)
T ss_pred             hhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhcc-c-----chHHHHHHHcCCHHHHH
Confidence            999999999999987654         56777888888888777776666666652 2     23334566789999999


Q ss_pred             HHHHHH
Q 004744          366 EIFCEM  371 (732)
Q Consensus       366 ~~~~~~  371 (732)
                      +++.+-
T Consensus       742 ~lLi~t  747 (794)
T KOG0276|consen  742 ELLIST  747 (794)
T ss_pred             HHHHhc
Confidence            887654

>PRK09687 putative lyase; Provisional

Probab=86.35  E-value=35  Score=33.50  Aligned_cols=17  Identities=12%  Similarity=-0.017  Sum_probs=7.2

Q ss_pred             CHhhHHHHHHHHHhcCC
Q 004744          309 GVFTYNSLINGLCKKGR  325 (732)
Q Consensus       309 ~~~~~~~li~~~~~~g~  325 (732)
                      |...-...+.++.+.|+
T Consensus        67 d~~vR~~A~~aLg~lg~   83 (280)
T PRK09687         67 NPIERDIGADILSQLGM   83 (280)
T ss_pred             CHHHHHHHHHHHHhcCC
Confidence            33333444444444443

>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]

Probab=86.18  E-value=37  Score=33.61  Aligned_cols=150  Identities=16%  Similarity=0.098  Sum_probs=73.3

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----c
Q 004744          497 KDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCK----VGEMEKANKLWADMISRKISPNYISYGILINGYCS----M  568 (732)
Q Consensus       497 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~  568 (732)
                      ..+++..+...+......+   +......+...|..    ..+..+|.+.|....+.|   .......|...|..    .
T Consensus        53 ~~~~~~~a~~~~~~a~~~~---~~~a~~~l~~~y~~g~gv~~~~~~A~~~~~~~a~~g---~~~a~~~lg~~~~~G~gv~  126 (292)
T COG0790          53 YPPDYAKALKSYEKAAELG---DAAALALLGQMYGAGKGVSRDKTKAADWYRCAAADG---LAEALFNLGLMYANGRGVP  126 (292)
T ss_pred             ccccHHHHHHHHHHhhhcC---ChHHHHHHHHHHHhccCccccHHHHHHHHHHHhhcc---cHHHHHhHHHHHhcCCCcc
Confidence            4567777777777766532   22333334444432    335666777777666554   23333344444444    2


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC-------CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----
Q 004744          569 GHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSG-------DASKADEFLSKMVSEGVDPDSISYNTLINGFVR----  637 (732)
Q Consensus       569 g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-------~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----  637 (732)
                      .+..+|...|+...+.|..+...+...+...|...+       +...|...|.++-..+   +......+...|..    
T Consensus       127 ~d~~~A~~~~~~Aa~~g~~~a~~~~~~l~~~~~~g~~~~~~~~~~~~A~~~~~~aa~~~---~~~a~~~lg~~y~~G~Gv  203 (292)
T COG0790         127 LDLVKALKYYEKAAKLGNVEAALAMYRLGLAYLSGLQALAVAYDDKKALYLYRKAAELG---NPDAQLLLGRMYEKGLGV  203 (292)
T ss_pred             cCHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHcChhhhcccHHHHhHHHHHHHHHHhc---CHHHHHHHHHHHHcCCCC
Confidence            366667777777766663332222333333333221       1224555555555543   22233333333322    


Q ss_pred             cCCHHHHHHHHHHHHHCC
Q 004744          638 EENMDKAFALVSKMENQG  655 (732)
Q Consensus       638 ~g~~~~A~~~~~~~~~~g  655 (732)
                      ..+.++|...|++..+.|
T Consensus       204 ~~d~~~A~~wy~~Aa~~g  221 (292)
T COG0790         204 PRDLKKAFRWYKKAAEQG  221 (292)
T ss_pred             CcCHHHHHHHHHHHHHCC
Confidence            224555555555555544

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.03  E-value=1.8  Score=27.63  Aligned_cols=28  Identities=29%  Similarity=0.389  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          696 STYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       696 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      .+++.|+..|...|++++|..++++.++
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            4566777777777777777777777654

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=86.02  E-value=26  Score=31.66  Aligned_cols=88  Identities=15%  Similarity=0.005  Sum_probs=55.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHH-----HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004744          633 NGFVREENMDKAFALVSKMENQGLVPDVI-----TYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVS  707 (732)
Q Consensus       633 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~-----~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~  707 (732)
                      ..+...|++++|..-++.....   |...     +=-.|.+.....|.+|+|...+....+.+..  ......-++++..
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~--~~~~elrGDill~  171 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWA--AIVAELRGDILLA  171 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHH--HHHHHHhhhHHHH
Confidence            4456667777777777766642   2222     2223556666778888888877766553322  2334456677888


Q ss_pred             cCCHHHHHHHHHHHHHCC
Q 004744          708 QNNLKEAFRFHDEMLQRG  725 (732)
Q Consensus       708 ~g~~~~A~~~~~~m~~~g  725 (732)
                      .|+.++|+.-|++.++.+
T Consensus       172 kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         172 KGDKQEARAAYEKALESD  189 (207)
T ss_pred             cCchHHHHHHHHHHHHcc
Confidence            888888888888877664

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=85.78  E-value=35  Score=32.92  Aligned_cols=66  Identities=14%  Similarity=0.252  Sum_probs=48.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----HCCCCCCC
Q 004744          663 YNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTLINGHVSQNNLKEAFRFHDEML-----QRGFVPDD  730 (732)
Q Consensus       663 ~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~-----~~g~~pd~  730 (732)
                      ++.....|..+|.+.+|.++-++.+.  +.| +...|-.|+..|...|+--+|.+-++++.     +.|+..|+
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~lt--ldpL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vdd  353 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALT--LDPLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDD  353 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhh--cChhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcch
Confidence            34556777888888888888888887  666 66778888888888888777777776663     24655543

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=85.42  E-value=8.3  Score=35.03  Aligned_cols=78  Identities=14%  Similarity=0.112  Sum_probs=51.6

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---cCCCCCHHHHHHHHHHHHhcCCHH
Q 004744          636 VREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIE---KGLNPDRSTYTTLINGHVSQNNLK  712 (732)
Q Consensus       636 ~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~g~~p~~~~~~~l~~~~~~~g~~~  712 (732)
                      .+.|+ ++|.+.|-.+...+.--++.....|+.-|. ..+.++|..++.++++   .+-.+|+..+..|+..+.+.|+++
T Consensus       118 sr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e  195 (203)
T PF11207_consen  118 SRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYE  195 (203)
T ss_pred             hccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchh
Confidence            34444 567777777776654445555555554444 4577888888887776   222456778888888888888888


Q ss_pred             HHH
Q 004744          713 EAF  715 (732)
Q Consensus       713 ~A~  715 (732)
                      .|.
T Consensus       196 ~AY  198 (203)
T PF11207_consen  196 QAY  198 (203)
T ss_pred             hhh
Confidence            776

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=85.36  E-value=10  Score=35.41  Aligned_cols=28  Identities=14%  Similarity=0.090  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          697 TYTTLINGHVSQNNLKEAFRFHDEMLQR  724 (732)
Q Consensus       697 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~  724 (732)
                      ....++....+.|+.++|.+++.+++..
T Consensus       167 l~YLigeL~rrlg~~~eA~~~fs~vi~~  194 (214)
T PF09986_consen  167 LLYLIGELNRRLGNYDEAKRWFSRVIGS  194 (214)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHcC
Confidence            3344555556666666666666666643

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=85.31  E-value=47  Score=33.93  Aligned_cols=65  Identities=11%  Similarity=-0.000  Sum_probs=35.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          449 DVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFP---DFYTFTTLIHGHCKDGNMNKALNLFDIMTQ  513 (732)
Q Consensus       449 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  513 (732)
                      ...+|..++..+.+.|.++.|...+..+...+...   ++.....-+...-..|+..+|+..++....
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34455666666666666666666666665533111   223333344455556666666666665555

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.19  E-value=15  Score=35.72  Aligned_cols=48  Identities=10%  Similarity=0.212  Sum_probs=23.6

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 004744          570 HVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMV  617 (732)
Q Consensus       570 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  617 (732)
                      +.++++.++..=+.-|+-||..+++.+++.+.+.+++.+|..+...|+
T Consensus       115 ~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~  162 (418)
T KOG4570|consen  115 DPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVM  162 (418)
T ss_pred             ChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            344444444444444555555555555555555555555544444443

>PRK09687 putative lyase; Provisional

Probab=84.67  E-value=43  Score=32.94  Aligned_cols=232  Identities=10%  Similarity=0.004  Sum_probs=115.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH----HHHHHHHHHHHHCCCCCCHHHHH
Q 004744          449 DVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNM----NKALNLFDIMTQKSIKPDIVTYN  524 (732)
Q Consensus       449 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~----~~A~~~~~~~~~~~~~~~~~~~~  524 (732)
                      |.......+..+...|.. ++...+..+...   +|...-...+.++.+.|+.    +++...+..+...  .++...-.
T Consensus        36 d~~vR~~A~~aL~~~~~~-~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~  109 (280)
T PRK09687         36 NSLKRISSIRVLQLRGGQ-DVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRA  109 (280)
T ss_pred             CHHHHHHHHHHHHhcCcc-hHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHH
Confidence            444444455555555432 233333333322   2444455555555555552    3555666555333  23444444


Q ss_pred             HHHHHHHhcCCH-----HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004744          525 TLIDGFCKVGEM-----EKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKG  599 (732)
Q Consensus       525 ~li~~~~~~g~~-----~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  599 (732)
                      ..+.++...+..     ..+...+......   ++..+-...+.++.+.|+ ++|+..+-.+.+.   +|..+-...+.+
T Consensus       110 ~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D---~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~a  182 (280)
T PRK09687        110 SAINATGHRCKKNPLYSPKIVEQSQITAFD---KSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFA  182 (280)
T ss_pred             HHHHHHhcccccccccchHHHHHHHHHhhC---CCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHH
Confidence            444444443321     1223333332222   244555556666666665 4566666666543   344444444444


Q ss_pred             HHHcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004744          600 YCRSG-DASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHD  678 (732)
Q Consensus       600 ~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~  678 (732)
                      +.+.+ ..+.+...+..+..   .++...-...+.++.+.|+ ..|+..+-+..+.   ++  .....+.++...|. .+
T Consensus       183 Lg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~---~~--~~~~a~~ALg~ig~-~~  252 (280)
T PRK09687        183 LNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKD-KRVLSVLIKELKK---GT--VGDLIIEAAGELGD-KT  252 (280)
T ss_pred             HhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCC-hhHHHHHHHHHcC---Cc--hHHHHHHHHHhcCC-Hh
Confidence            44432 23456666666654   3455556666667777776 4566555555543   22  23356666777776 36


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 004744          679 SELILWRMIEKGLNPDRSTYTTLINGH  705 (732)
Q Consensus       679 A~~~~~~~~~~g~~p~~~~~~~l~~~~  705 (732)
                      |...+.++.+  -.||...-...+.++
T Consensus       253 a~p~L~~l~~--~~~d~~v~~~a~~a~  277 (280)
T PRK09687        253 LLPVLDTLLY--KFDDNEIITKAIDKL  277 (280)
T ss_pred             HHHHHHHHHh--hCCChhHHHHHHHHH
Confidence            7777777776  344554444444433

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.55  E-value=63  Score=36.99  Aligned_cols=39  Identities=5%  Similarity=0.024  Sum_probs=26.0

Q ss_pred             HHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh
Q 004744          284 AYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCK  322 (732)
Q Consensus       284 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~  322 (732)
                      .|++....+-+..+++.+....-.++..-.+.++..|+.
T Consensus       600 ~~l~~~~~~l~I~YLE~li~~~~~~~~~lht~ll~ly~e  638 (877)
T KOG2063|consen  600 NYLKSKEPKLLIPYLEHLISDNRLTSTLLHTVLLKLYLE  638 (877)
T ss_pred             HHhhhhCcchhHHHHHHHhHhccccchHHHHHHHHHHHH
Confidence            456667777777777777765545566666677766654

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=84.26  E-value=21  Score=36.99  Aligned_cols=106  Identities=19%  Similarity=0.133  Sum_probs=62.5

Q ss_pred             HHHcCCHHHHHHHHHHHHHC---CC--CCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHH-------CCCCCC-----
Q 004744          600 YCRSGDASKADEFLSKMVSE---GV--DPD---SISYNTLINGFVREENMDKAFALVSKMEN-------QGLVPD-----  659 (732)
Q Consensus       600 ~~~~g~~~~A~~~~~~~~~~---~~--~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~g~~p~-----  659 (732)
                      +...|++.+|.+++...--.   |.  .|.   -..||.|.-.+.+.|.+.-+..+|.++..       .|++|.     
T Consensus       250 eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~tl  329 (696)
T KOG2471|consen  250 EYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFTL  329 (696)
T ss_pred             HHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcceeh
Confidence            44567777777776543211   21  111   12245555555666666666666666653       454442     


Q ss_pred             ------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004744          660 ------VITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVS  707 (732)
Q Consensus       660 ------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~  707 (732)
                            ..+||+ +-.|.+.|+.-.|.+.|.+.... +..++..|..|..+|..
T Consensus       330 s~nks~eilYNc-G~~~Lh~grPl~AfqCf~~av~v-fh~nPrlWLRlAEcCim  381 (696)
T KOG2471|consen  330 SQNKSMEILYNC-GLLYLHSGRPLLAFQCFQKAVHV-FHRNPRLWLRLAECCIM  381 (696)
T ss_pred             hcccchhhHHhh-hHHHHhcCCcHHHHHHHHHHHHH-HhcCcHHHHHHHHHHHH
Confidence                  123433 34566788888888888888763 44467778888887764

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=84.00  E-value=7.9  Score=30.19  Aligned_cols=60  Identities=15%  Similarity=0.127  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004744          642 DKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLI  702 (732)
Q Consensus       642 ~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~  702 (732)
                      =++.+-++.+....+.|++.+..+-+.+|.+.+++..|+++|+-...+ ...+...|..++
T Consensus        24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~l   83 (103)
T cd00923          24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYIL   83 (103)
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHH
Confidence            345555666666667788888888888888888888888888876642 222344565554

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]

Probab=83.94  E-value=47  Score=32.87  Aligned_cols=152  Identities=15%  Similarity=0.055  Sum_probs=92.0

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----
Q 004744          461 CRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCK----DGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCK----  532 (732)
Q Consensus       461 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----  532 (732)
                      ...+.+..+...+......+   +......+...|..    ..+..+|..+|..+.+.|..   .....|...|..    
T Consensus        52 ~~~~~~~~a~~~~~~a~~~~---~~~a~~~l~~~y~~g~gv~~~~~~A~~~~~~~a~~g~~---~a~~~lg~~~~~G~gv  125 (292)
T COG0790          52 AYPPDYAKALKSYEKAAELG---DAAALALLGQMYGAGKGVSRDKTKAADWYRCAAADGLA---EALFNLGLMYANGRGV  125 (292)
T ss_pred             cccccHHHHHHHHHHhhhcC---ChHHHHHHHHHHHhccCccccHHHHHHHHHHHhhcccH---HHHHhHHHHHhcCCCc
Confidence            45667888888888777643   22344444444433    34578888888877766532   333345555544    


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-------CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH---
Q 004744          533 VGEMEKANKLWADMISRKISPNYISYGILINGYCSMG-------HVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCR---  602 (732)
Q Consensus       533 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-------~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~---  602 (732)
                      ..+..+|...|++..+.|..+-..+...+...|..-.       +...|...|.++-..+   +......+...|..   
T Consensus       126 ~~d~~~A~~~~~~Aa~~g~~~a~~~~~~l~~~~~~g~~~~~~~~~~~~A~~~~~~aa~~~---~~~a~~~lg~~y~~G~G  202 (292)
T COG0790         126 PLDLVKALKYYEKAAKLGNVEAALAMYRLGLAYLSGLQALAVAYDDKKALYLYRKAAELG---NPDAQLLLGRMYEKGLG  202 (292)
T ss_pred             ccCHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHcChhhhcccHHHHhHHHHHHHHHHhc---CHHHHHHHHHHHHcCCC
Confidence            3378888888888888875543223444444444421       2336888888877776   44444445544433   


Q ss_pred             -cCCHHHHHHHHHHHHHCCC
Q 004744          603 -SGDASKADEFLSKMVSEGV  621 (732)
Q Consensus       603 -~g~~~~A~~~~~~~~~~~~  621 (732)
                       ..+.++|...|.+..+.|.
T Consensus       203 v~~d~~~A~~wy~~Aa~~g~  222 (292)
T COG0790         203 VPRDLKKAFRWYKKAAEQGD  222 (292)
T ss_pred             CCcCHHHHHHHHHHHHHCCC
Confidence             2367788888888877653

>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=83.65  E-value=2.9  Score=25.16  Aligned_cols=28  Identities=18%  Similarity=0.282  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          696 STYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       696 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      .+|..++..|...|++++|.+.+++.++
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4688899999999999999999999884

...

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.56  E-value=38  Score=31.56  Aligned_cols=24  Identities=8%  Similarity=0.196  Sum_probs=15.3

Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCC
Q 004744          319 GLCKKGRCDRAKEVLDEMLQMGLS  342 (732)
Q Consensus       319 ~~~~~g~~~~A~~~~~~~~~~g~~  342 (732)
                      .-...+++.+|+.+|+++....+.
T Consensus       163 yaa~leqY~~Ai~iyeqva~~s~~  186 (288)
T KOG1586|consen  163 YAAQLEQYSKAIDIYEQVARSSLD  186 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcc
Confidence            344566777777777777665443

>PRK11619 lytic murein transglycosylase; Provisional

Probab=83.17  E-value=84  Score=35.18  Aligned_cols=95  Identities=9%  Similarity=-0.029  Sum_probs=60.2

Q ss_pred             hhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCC
Q 004744          158 SFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIE  237 (732)
Q Consensus       158 ~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  237 (732)
                      .++..+...+.....-..-+..+.+.+++.+-+.++..     +..+...--....++...|+.++|......+-..| .
T Consensus        87 ~Fl~~~~~~P~~~~Lr~~~l~~La~~~~w~~~~~~~~~-----~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g-~  160 (644)
T PRK11619         87 NFIRANPTLPPARSLQSRFVNELARREDWRGLLAFSPE-----KPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTG-K  160 (644)
T ss_pred             HHHHHCCCCchHHHHHHHHHHHHHHccCHHHHHHhcCC-----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-C
Confidence            33443444554455555556666777788776663311     12355555666778888899888887777776666 4


Q ss_pred             CCHHHHHHHHHHHHhcCChhH
Q 004744          238 LNVYTLNIMVNALCKDHKIDS  258 (732)
Q Consensus       238 ~~~~~~~~l~~~~~~~g~~~~  258 (732)
                      ..+..++.+...+.+.|.+..
T Consensus       161 ~~p~~cd~l~~~~~~~g~lt~  181 (644)
T PRK11619        161 SLPNACDKLFSVWQQSGKQDP  181 (644)
T ss_pred             CCChHHHHHHHHHHHcCCCCH
Confidence            556677777777776666544

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=83.02  E-value=3  Score=26.52  Aligned_cols=28  Identities=21%  Similarity=0.315  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          661 ITYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       661 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      .+++.|...|...|++++|..+++++.+
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            4677788888888888888888887765

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=83.00  E-value=7.5  Score=30.68  Aligned_cols=60  Identities=15%  Similarity=0.148  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          643 KAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLIN  703 (732)
Q Consensus       643 ~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~  703 (732)
                      +..+-++.+....+.|++.+..+.+.+|.+.+++..|+++|+-...+ ..+....|..++.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHH
Confidence            44555666666677888888888888888888888888888887763 2223336666653

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=82.99  E-value=29  Score=29.81  Aligned_cols=53  Identities=15%  Similarity=0.038  Sum_probs=34.3

Q ss_pred             hCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCC
Q 004744          130 RGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKG  200 (732)
Q Consensus       130 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  200 (732)
                      +.+.++++..+++.+.--                  .|..+..-..-+..+...|++++|+++|+.+.+.+
T Consensus        22 ~~~d~~D~e~lLdALrvL------------------rP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVL------------------RPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHHHh------------------CCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            477888888888766421                  11222222233445678899999999999888765

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=82.63  E-value=13  Score=33.81  Aligned_cols=21  Identities=0%  Similarity=0.014  Sum_probs=8.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHH
Q 004744          659 DVITYNVILTGFCRQGRMHDS  679 (732)
Q Consensus       659 ~~~~~~~l~~~~~~~g~~~~A  679 (732)
                      |+..+..|+..+.+.|+++.|
T Consensus       177 n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  177 NPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             CHHHHHHHHHHHHHhcchhhh
Confidence            334444444444444444433

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=82.27  E-value=11  Score=34.60  Aligned_cols=74  Identities=15%  Similarity=0.155  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHH
Q 004744          592 SCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPD----VITYNVIL  667 (732)
Q Consensus       592 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~l~  667 (732)
                      |.+..++.+.+.+.+.+|+...+.-++.. +.|..+-..++..+|-.|++++|..-++-.-+  +.|+    ..+|..++
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~--l~p~~t~~a~lyr~li   79 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAAT--LSPQDTVGASLYRHLI   79 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhh--cCcccchHHHHHHHHH
Confidence            34556777888999999999998888754 33566667789999999999999988887776  4554    34555555


Q ss_pred             H
Q 004744          668 T  668 (732)
Q Consensus       668 ~  668 (732)
                      .
T Consensus        80 r   80 (273)
T COG4455          80 R   80 (273)
T ss_pred             H
Confidence            4

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=81.99  E-value=51  Score=31.87  Aligned_cols=56  Identities=14%  Similarity=0.169  Sum_probs=30.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 004744          560 ILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKM  616 (732)
Q Consensus       560 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  616 (732)
                      .....|..+|.+.+|.++.+..+..+ +.+...+-.++..+...|+--.|.+-++++
T Consensus       284 kva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyery  339 (361)
T COG3947         284 KVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERY  339 (361)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHH
Confidence            34445555666666666665555543 444555555555555556554444444444

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=81.97  E-value=7.9  Score=40.76  Aligned_cols=74  Identities=8%  Similarity=-0.034  Sum_probs=37.3

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 004744          176 VIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALC  251 (732)
Q Consensus       176 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  251 (732)
                      |.+...+.|.+.+|..++.+.+.... ..+-++..+.+++.-..+++.|++.|..+.+.. +.+...-+.|...-|
T Consensus       648 la~~~~~~~~~~da~~~l~q~l~~~~-sepl~~~~~g~~~l~l~~i~~a~~~~~~a~~~~-~~~~~~~~~l~~i~c  721 (886)
T KOG4507|consen  648 LANLLIHYGLHLDATKLLLQALAINS-SEPLTFLSLGNAYLALKNISGALEAFRQALKLT-TKCPECENSLKLIRC  721 (886)
T ss_pred             HHHHHHHhhhhccHHHHHHHHHhhcc-cCchHHHhcchhHHHHhhhHHHHHHHHHHHhcC-CCChhhHHHHHHHHH
Confidence            34444445555555555555554432 234445555555555556666666666555543 334444444444333

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.62  E-value=16  Score=35.38  Aligned_cols=96  Identities=20%  Similarity=0.238  Sum_probs=52.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCC---CCCC--HhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhH
Q 004744          274 DTVTYNTLINAYCREGFLEEAFQLMNSMSGKG---LKPG--VFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATY  348 (732)
Q Consensus       274 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g---~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~  348 (732)
                      .+.+...++..--...+++.+...+-+++..-   ..|+  ..+|..    ++-.-++++++.++..=++.|+.||..++
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~ir----lllky~pq~~i~~l~npIqYGiF~dqf~~  138 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIR----LLLKYDPQKAIYTLVNPIQYGIFPDQFTF  138 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHH----HHHccChHHHHHHHhCcchhccccchhhH
Confidence            44444555554444566666666666554420   1111  122221    22233555666666666666777777777


Q ss_pred             HHHHHHHHcCCCHhHHHHHHHHHHh
Q 004744          349 NTLLVESCRKENMSEAEEIFCEMSR  373 (732)
Q Consensus       349 ~~li~~~~~~g~~~~A~~~~~~~~~  373 (732)
                      +.+++.+.+.+++.+|.++...|..
T Consensus       139 c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  139 CLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHH
Confidence            7777777777777666666655543

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=81.33  E-value=0.81  Score=44.53  Aligned_cols=119  Identities=14%  Similarity=0.099  Sum_probs=85.0

Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHH
Q 004744          601 CRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVI-TYNVILTGFCRQGRMHDS  679 (732)
Q Consensus       601 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~l~~~~~~~g~~~~A  679 (732)
                      ...|.+++|++.|...++.. ++....|..-.+.+.+.++...|++-+....+  +.||.. -|-.-..+-...|+|++|
T Consensus       125 ln~G~~~~ai~~~t~ai~ln-p~~a~l~~kr~sv~lkl~kp~~airD~d~A~e--in~Dsa~~ykfrg~A~rllg~~e~a  201 (377)
T KOG1308|consen  125 LNDGEFDTAIELFTSAIELN-PPLAILYAKRASVFLKLKKPNAAIRDCDFAIE--INPDSAKGYKFRGYAERLLGNWEEA  201 (377)
T ss_pred             hcCcchhhhhcccccccccC-CchhhhcccccceeeeccCCchhhhhhhhhhc--cCcccccccchhhHHHHHhhchHHH
Confidence            35688999999998888754 34566677777888889999999998888888  667653 444444445567999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          680 ELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQR  724 (732)
Q Consensus       680 ~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  724 (732)
                      ...++...+.++.+....|  +-...-+.+..++-.+.+++..+.
T Consensus       202 a~dl~~a~kld~dE~~~a~--lKeV~p~a~ki~e~~~k~er~~~e  244 (377)
T KOG1308|consen  202 AHDLALACKLDYDEANSAT--LKEVFPNAGKIEEHRRKYERAREE  244 (377)
T ss_pred             HHHHHHHHhccccHHHHHH--HHHhccchhhhhhchhHHHHHHHH
Confidence            9999999996666554433  444455666666666666666553

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=80.45  E-value=10  Score=33.64  Aligned_cols=117  Identities=10%  Similarity=0.023  Sum_probs=60.7

Q ss_pred             HHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHH
Q 004744          100 GQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRT  179 (732)
Q Consensus       100 a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~  179 (732)
                      |++-.+......|....+..-|...+.-++......++..++++++.+.           -.....+|....++-.++.+
T Consensus        10 ark~aea~y~~nP~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~-----------eeAL~I~P~~hdAlw~lGnA   78 (186)
T PF06552_consen   10 ARKKAEAAYAKNPLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKF-----------EEALKINPNKHDALWCLGNA   78 (186)
T ss_dssp             HHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHH-----------HHHHHH-TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHH-----------HHHHhcCCchHHHHHHHHHH
Confidence            4444433334455533344556666666666666667766766665431           11112244445566666666


Q ss_pred             HHHcCC-----------hHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 004744          180 YVQARK-----------LREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSG  235 (732)
Q Consensus       180 ~~~~g~-----------~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  235 (732)
                      |...+.           +++|.+.|+++...  +|+...|+.-+...      ..|-+++.++.+.+
T Consensus        79 ~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~------~kap~lh~e~~~~~  137 (186)
T PF06552_consen   79 YTSLAFLTPDTAEAEEYFEKATEYFQKAVDE--DPNNELYRKSLEMA------AKAPELHMEIHKQG  137 (186)
T ss_dssp             HHHHHHH---HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHH------HTHHHHHHHHHHSS
T ss_pred             HHHHHhhcCChHHHHHHHHHHHHHHHHHHhc--CCCcHHHHHHHHHH------HhhHHHHHHHHHHH
Confidence            665543           55666666666654  46667776666654      24666666666554

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	732
4g24_A	501	Crystal Structure Of Proteinaceous Rnase P 1 (Prorp		1e-06
4g24_A	501	Crystal Structure Of Proteinaceous Rnase P 1 (Prorp		2e-04
4g23_A	501	Crystal Structure Of Proteinaceous Rnase P 1 (Prorp		4e-05

>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From A. Thaliana With Mn Length = 501

Iteration: 1
 Score = 52.4 bits (124), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 36/129 (27%), Positives = 59/129 (45%), Gaps = 9/129 (6%)
Query: 427 RNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEAD---------DLFNEML 477
           + G VLEAL++ DE    G  +    YN +L     A+  TE+          D+F +M+
Sbjct: 38  KKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMI 97
Query: 478 ERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEME 537
              V P+  TFT          +   A ++   M    I+P + +Y   + GFC+ G+ +
Sbjct: 98  VDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDAD 157
Query: 538 KANKLWADM 546
           KA ++ A M
Sbjct: 158 KAYEVDAHM 166

>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From A. Thaliana With Mn Length = 501

Iteration: 1
 Score = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 41/167 (24%), Positives = 73/167 (43%), Gaps = 11/167 (6%)
Query: 497 KDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGE----------MEKANKLWADM 546
           K G++ +AL L+D   +  ++     YN L+   C + E          + +   ++  M
Sbjct: 38  KKGDVLEALRLYDEARRNGVQLSQYHYNVLL-YVCSLAEAATESSPNPGLSRGFDIFKQM 96
Query: 547 ISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDA 606
           I  K+ PN  ++        +      AF +  +M   GI+P L S    + G+CR GDA
Sbjct: 97  IVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDA 156
Query: 607 SKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMEN 653
            KA E  + MV   V P+      L+   +  +N DK +  + ++ +
Sbjct: 157 DKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRD 203

>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From A. Thaliana With Mn Length = 501

Iteration: 1
 Score = 47.0 bits (110), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 32/122 (26%), Positives = 52/122 (42%), Gaps = 9/122 (7%)
Query: 427 RNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEAD---------DLFNEML 477
           + G VLEAL++ DE    G  +    YN +L     A+  TE+          D+F + +
Sbjct: 38  KKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQXI 97
Query: 478 ERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEME 537
              V P+  TFT          +   A +         I+P + +Y   + GFC+ G+ +
Sbjct: 98  VDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDAD 157
Query: 538 KA 539
           KA
Sbjct: 158 KA 159

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	732
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-23
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-23
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-22
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-20
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-18
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-16
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-15
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-06
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	3e-04
4g1t_A	472	Interferon-induced protein with tetratricopeptide	6e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score =  104 bits (260), Expect = 3e-23
 Identities = 30/199 (15%), Positives = 62/199 (31%), Gaps = 4/199 (2%)

Query: 255 KIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQL---MNSMSGKGLKPGVF 311
            +D  +    +  Q  +                   L  A  L    +    K     + 
Sbjct: 107 SLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLD 166

Query: 312 TYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEA-EEIFCE 370
            YN+++ G  ++G       VL  +   GL+PD  +Y   L    R++  +   E    +
Sbjct: 167 MYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQ 226

Query: 371 MSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGF 430
           MS+ G+    +  + L+    R   L               +P  V  + ++        
Sbjct: 227 MSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDG 286

Query: 431 VLEALKMRDEMLEKGCVMD 449
            +   K+   +    C+ +
Sbjct: 287 RVSYPKLHLPLKTLQCLFE 305

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score =  104 bits (260), Expect = 3e-23
 Identities = 32/222 (14%), Positives = 68/222 (30%), Gaps = 4/222 (1%)

Query: 329 AKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIG 388
           A  + D   Q   SP       LL E+  K ++   +    + S+  ++           
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 389 IFSRNGQLDRA---LMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKG 445
                 QL  A   L+     +    +    +Y  ++ G+ R G   E + +   + + G
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG 195

Query: 446 CVMDVVTYNTILNGLCRAKMLTEA-DDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKA 504
              D+++Y   L  + R        +    +M + G+         L+    +   +   
Sbjct: 196 LTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV 255

Query: 505 LNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADM 546
             +    +     P  V  + L+             KL   +
Sbjct: 256 HKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPL 297

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score =  100 bits (249), Expect = 7e-22
 Identities = 24/224 (10%), Positives = 64/224 (28%), Gaps = 4/224 (1%)

Query: 469 ADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLID 528
           A  L +   +    P       L+       +++         +Q  +            
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 529 GFCKVGEMEKANKL---WADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKG 585
                 ++  A+ L         ++       Y  ++ G+   G   E   + + +   G
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG 195

Query: 586 IKPTLVSCNTIIKGYCRSGDASKA-DEFLSKMVSEGVDPDSISYNTLINGFVREENMDKA 644
           + P L+S    ++   R    +   +  L +M  EG+   ++    L++   R   +   
Sbjct: 196 LTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV 255

Query: 645 FALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIE 688
             +         +P  +  + +L     +        +   +  
Sbjct: 256 HKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKT 299

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 94.9 bits (234), Expect = 3e-20
 Identities = 20/197 (10%), Positives = 56/197 (28%), Gaps = 4/197 (2%)

Query: 462 RAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDI---MTQKSIKP 518
               L        +  +  +                   +  A +L  +     QK    
Sbjct: 104 GKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLL 163

Query: 519 DIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAF-RL 577
            +  YN ++ G+ + G  ++   +   +    ++P+ +SY   +              R 
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERC 223

Query: 578 WYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVR 637
             +M  +G+K   +    ++    R+       +           P  ++ + L+     
Sbjct: 224 LEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYA 283

Query: 638 EENMDKAFALVSKMENQ 654
           ++       L   ++  
Sbjct: 284 KDGRVSYPKLHLPLKTL 300

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 89.9 bits (221), Expect = 1e-18
 Identities = 14/215 (6%), Positives = 54/215 (25%), Gaps = 4/215 (1%)

Query: 406 MKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKM 465
            + A   P       ++        +        +  +                      
Sbjct: 83  TRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQ 142

Query: 466 LTEADDLFN---EMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVT 522
           L  A  L        ++        +  ++ G  + G   + + +  ++    + PD+++
Sbjct: 143 LPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS 202

Query: 523 YNTLIDGFCKVG-EMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEM 581
           Y   +    +   +     +    M    +    +   +L++       +    ++    
Sbjct: 203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF 262

Query: 582 VGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKM 616
                 P  V+ + +++            +    +
Sbjct: 263 SLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPL 297

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 82.9 bits (203), Expect = 2e-16
 Identities = 29/197 (14%), Positives = 56/197 (28%), Gaps = 4/197 (2%)

Query: 539 ANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIK 598
           A  L         SP       L+        +        +     +           K
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 599 GYCRSGDASKADEFL---SKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQG 655
               +     A   L        +        YN ++ G+ R+    +   ++  +++ G
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG 195

Query: 656 LVPDVITYNVILTGFCRQGR-MHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEA 714
           L PD+++Y   L    RQ +     E  L +M ++GL         L++       LK  
Sbjct: 196 LTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV 255

Query: 715 FRFHDEMLQRGFVPDDA 731
            +          +P   
Sbjct: 256 HKVKPTFSLPPQLPPPV 272

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 80.2 bits (196), Expect = 1e-15
 Identities = 22/203 (10%), Positives = 56/203 (27%), Gaps = 4/203 (1%)

Query: 176 VIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREV---YAEVV 232
           +++       L              +        +     +    + LA  +   +    
Sbjct: 98  LLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQR 157

Query: 233 RSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLE 292
           +    L +   N ++    +          L  ++  G+ PD ++Y   +    R+    
Sbjct: 158 QKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDA 217

Query: 293 EAFQ-LMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTL 351
              +  +  MS +GLK        L++   +        +V          P     + L
Sbjct: 218 GTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKL 277

Query: 352 LVESCRKENMSEAEEIFCEMSRR 374
           L +   K+      ++   +   
Sbjct: 278 LRDVYAKDGRVSYPKLHLPLKTL 300

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 51.0 bits (120), Expect = 1e-06
 Identities = 25/260 (9%), Positives = 75/260 (28%), Gaps = 54/260 (20%)

Query: 113 NVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLI 172
            +      L A     +   ++  A  L++    +    +L  +D +         N+++
Sbjct: 122 QLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMY---------NAVM 172

Query: 173 FDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVV 232
                  + +    +E   V  ++++                                  
Sbjct: 173 -----LGWARQGAFKELVYVLFMVKDA--------------------------------- 194

Query: 233 RSGIELNVYTLNIMVNALCK-DHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFL 291
             G+  ++ +    +  + + D    + +  L +M Q+G+    +    L++   R   L
Sbjct: 195 --GLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVL 252

Query: 292 EEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTL 351
           +   ++  + S     P     + L+  +  K      +    ++     +        L
Sbjct: 253 KAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAK----DGRVSYPKLHLPLKTLQCLFEKQL 308

Query: 352 LVESCRKENMSEAEEIFCEM 371
            +E   +  +   E+     
Sbjct: 309 HMELASRVCVVSVEKPTLPS 328

>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 = 48.7 bits (115), Expect = 7e-06
 Identities = 99/690 (14%), Positives = 207/690 (30%), Gaps = 212/690 (30%)

Query: 88  EVLYRLRDNLQVG-QRFI-DFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMV 145
           E  Y+ +D L V    F+ +F   +  ++  S +S   + H ++    +S    L   ++
Sbjct: 13  EHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLL 72

Query: 146 RKSGVSRLEIVDSFVST---------YSPCGSNSLIFDLVIRTYVQAR-KLREGSEVFRL 195
            K      E+V  FV            SP  +      ++ R Y++ R +L   ++VF  
Sbjct: 73  SKQE----EMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA- 127

Query: 196 LRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHK 255
              K                      +++R      +R               AL +   
Sbjct: 128 ---KY---------------------NVSRLQPYLKLR--------------QALLELR- 148

Query: 256 IDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNS 315
             +  + +  +   G    T     +    C    ++                 +F + +
Sbjct: 149 -PAKNVLIDGVLGSG---KTW----VALDVCLSYKVQCKMDF-----------KIF-WLN 188

Query: 316 LINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRG 375
           L         C+  + VL EMLQ            LL          + +  +   S   
Sbjct: 189 L-------KNCNSPETVL-EMLQ-----------KLL---------YQIDPNWTSRSDH- 219

Query: 376 VAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGY---CRNGFVL 432
                 S +  + I S   +L R L+  +  ++  LV  NV      N +   C+   +L
Sbjct: 220 ------SSNIKLRIHSIQAELRR-LLKSKPYENCLLVLLNVQNAKAWNAFNLSCK---IL 269

Query: 433 EALKMRDEMLEKGCVMDVV----TYNTILNGLCRAKMLT--EADDLFNEMLERGVFPDFY 486
             L  R +      V D +    T +  L+    +  LT  E   L  + L+        
Sbjct: 270 --LTTRFK-----QVTDFLSAATTTHISLDHH--SMTLTPDEVKSLLLKYLDCRPQ---- 316

Query: 487 TFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADM 546
               L             L++      +SI+  + T     D +  V   +    +  + 
Sbjct: 317 ---DLPREVLTTNPR--RLSII----AESIRDGLAT----WDNWKHVNCDKLTTII--ES 361

Query: 547 ISRKISPN-----YISYGILINGYCSMGHVTEAF--RLWYEMVGKGIKPTLVSCNTIIKG 599
               + P      +    +         H+       +W++++                 
Sbjct: 362 SLNVLEPAEYRKMFDRLSVFPPSA----HIPTILLSLIWFDVI----------------- 400

Query: 600 YCRSGDASKADEFLSK-MVSEGVDPDSISYNTLINGFVREENMDKA--------FALVSK 650
             +S      ++     +V +     +IS  ++      +   + A        + +   
Sbjct: 401 --KSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT 458

Query: 651 MENQGLVPDVIT---YNVILTGF----CRQGRMHD--SELIL-WRMIEKGLNPDRSTYTT 700
            ++  L+P  +    Y+ I  G                 + L +R +E+ +  D    +T
Sbjct: 459 FDSDDLIPPYLDQYFYSHI--GHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHD----ST 512

Query: 701 LINGHVSQNNLKEAFRFHDEMLQRGFVPDD 730
             N   S  N  +  +F+     + ++ D+
Sbjct: 513 AWNASGSILNTLQQLKFY-----KPYICDN 537

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1 Length = 388

 Score = 42.5 bits (101), Expect = 3e-04
 Identities = 33/177 (18%), Positives = 58/177 (32%), Gaps = 26/177 (14%)

Query: 272 YPD-TVTYNTLINAYCREGFLEEAFQLMNSMSGKGLK--PGVF-TYNSLINGLCKKGRCD 327
            PD T     L + + +   L+ +           +K  P +   Y++L N   ++G+  
Sbjct: 29  EPDNTGVLLLLSSIHFQCRRLDRSAHFST----LAIKQNPLLAEAYSNLGNVYKERGQLQ 84

Query: 328 RAKEVLDEMLQMGLSPDTA-TYNTLLVESCRKENMSEAEEIFCEMSRRGVA--PDIV-SF 383
            A E     L+  L PD    Y  L        +M  A + +       +   PD+    
Sbjct: 85  EAIEHYRHALR--LKPDFIDGYINLAAALVAAGDMEGAVQAY----VSALQYNPDLYCVR 138

Query: 384 STLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDE 440
           S L  +    G+L+ A   +   K+    P+          +   G V  A      
Sbjct: 139 SDLGNLLKALGRLEEAKACYL--KAIETQPNFA------VAWSNLGCVFNAQGEIWL 187

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens} Length = 472

 Score = 41.8 bits (98), Expect = 6e-04
 Identities = 66/457 (14%), Positives = 130/457 (28%), Gaps = 90/457 (19%)

Query: 248 NALCKDHKIDSAKMFLCE-MEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMN------- 299
           N +  ++ +D  +  +    E +         N L      +G  E A + +        
Sbjct: 23  NLMEGENSLDDFEDKVFYRTEFQNREFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQ 82

Query: 300 -SMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTAT-YNTLLVE--- 354
              + +     + T+ +        GR    +  +D++    +    ++ Y     E   
Sbjct: 83  QEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKH--VCEKFSSPYRIESPELDC 140

Query: 355 -------SCRKENMSEAEEIFCEMSRRGVA--PDIVSFSTLIGI----FSRNGQLDRALM 401
                   C       A+  F     + +   P    F++ + I             A+ 
Sbjct: 141 EEGWTRLKCGGNQNERAKVCF----EKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAID 196

Query: 402 YFREMKSAGLVPDNV-----LYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTI 456
             R  ++  L PDN      L   +           E  K+ +E LEK          + 
Sbjct: 197 PLR--QAIRLNPDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEK-APGVTDVLRSA 253

Query: 457 LNGLCRAKMLTEADDLFNEMLERGVFPDFYT-------------FTTLIHGHCKDGNMNK 503
                R     +A +L  + LE    P+                F  +           K
Sbjct: 254 AKFYRRKDEPDKAIELLKKALE--YIPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRK 311

Query: 504 ALNLFD--IMTQK---SIKPD-IVTYNTLIDGFCKVGEMEKANKLWADMISRKISPN--- 554
            L L    +   K       +     + L        + E+A   +    S++++P    
Sbjct: 312 LLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQ 371

Query: 555 --YISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEF 612
             ++ YG        M    +A    +    K I               +S +  K  + 
Sbjct: 372 LLHLRYGNF--QLYQMKCEDKAIH-HFIEGVK-INQ-------------KSREKEKMKDK 414

Query: 613 LSKMVSEGVD---PDSISYNTLINGFVREE--NMDKA 644
           L K+    +     DS + + L   F++E    M +A
Sbjct: 415 LQKIAKMRLSKNGADSEALHVL--AFLQELNEKMQQA 449

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	732
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.98
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.98
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.94
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.93
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.89
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.88
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.88
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.88
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.88
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.88
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.86
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.84
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.81
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.81
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.8
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.8
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.8
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.79
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.78
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.78
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.78
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.76
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.75
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.72
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.72
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.68
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.68
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.68
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.67
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.66
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.66
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.66
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.66
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.63
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.63
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.62
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.62
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.62
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.61
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.61
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.6
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.6
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.6
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.59
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.59
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.59
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.57
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.57
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.54
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.53
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.52
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.52
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.51
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.5
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.5
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.48
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.48
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.47
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.47
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.44
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.43
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.42
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.42
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.41
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.38
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.35
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.34
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.34
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.33
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.32
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.31
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.3
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.27
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.21
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.17
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.16
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.14
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.13
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.13
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.12
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.12
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.1
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.1
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.1
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.09
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.09
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.08
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.07
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.06
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.05
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.03
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.03
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.03
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.03
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.02
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.0
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.99
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.97
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.96
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.95
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.95
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.91
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.91
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.9
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.89
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.86
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.86
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.84
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.82
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.8
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.79
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.76
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.75
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.74
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.72
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.72
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.72
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.71
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.71
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.69
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.68
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.66
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.66
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.65
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.65
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.64
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.64
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.63
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.61
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.61
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.59
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.59
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.58
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.58
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.58
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.57
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.57
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.56
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.55
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.53
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.52
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.51
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.5
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.5
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.47
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.43
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.43
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.41
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.41
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.41
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.4
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.39
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.39
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.37
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.36
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.36
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.34
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.34
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.34
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.34
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.32
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.3
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.29
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.29
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.25
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.24
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.2
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.2
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.19
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.18
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.15
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.13
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.11
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.11
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.09
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.09
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.09
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.08
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.08
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.07
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.03
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.02
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.0
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.9
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.87
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.87
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.87
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.77
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.74
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.74
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.73
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.7
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.68
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.67
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.64
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.5
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.49
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.22
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.16
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.93
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.93
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.9
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.86
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.84
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.79
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.75
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.75
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.65
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.63
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.57
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.33
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.3
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.2
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.12
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.92
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.83
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.78
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.41
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.29
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.16
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.1
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	95.07
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.86
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.86
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.8
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.74
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	93.7
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.55
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	92.42
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.24
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	92.16
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.77
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	91.39
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	91.08
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	91.03
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	90.6
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	90.32
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	89.27
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	88.73
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	88.73
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	88.5
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	87.29
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	87.17
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	86.78
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	86.28
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	85.03
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	84.19
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	83.17
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	82.99
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	81.42
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	81.08

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2.1e-42  Score=384.95  Aligned_cols=488  Identities=12%  Similarity=0.029  Sum_probs=322.9

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004744          204 SINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLIN  283 (732)
Q Consensus       204 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~  283 (732)
                      +...|+.++..+.+.|++++|..+|+++...  .|+..++..++.+|.+.|++++|..+|+++...  .++..+++.++.
T Consensus        83 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~  158 (597)
T 2xpi_A           83 REDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAAF  158 (597)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHHH
Confidence            4455555555555555555555555555532  344455555555555555555555555554332  335555555555


Q ss_pred             HHHHcCCHHHHHHHHHHHhh---------------CCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhH
Q 004744          284 AYCREGFLEEAFQLMNSMSG---------------KGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATY  348 (732)
Q Consensus       284 ~~~~~g~~~~A~~~~~~m~~---------------~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~  348 (732)
                      +|.+.|++++|+++|+++..               .+.+++..+|+.++.+|.+.|++++|.++|++|.+.+ +.+...+
T Consensus       159 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~  237 (597)
T 2xpi_A          159 CLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD-AKCYEAF  237 (597)
T ss_dssp             HHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-chhhHHH
Confidence            55555555555555553211               1234456777777777777777777777777777653 2244455


Q ss_pred             HHHHHHHHcCCCHhHHHH--H-HHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004744          349 NTLLVESCRKENMSEAEE--I-FCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGY  425 (732)
Q Consensus       349 ~~li~~~~~~g~~~~A~~--~-~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~  425 (732)
                      ..+...+...+..+.+..  + +..+...+..+...+|+.++..|.+.|++++|.++|+++.+.  +++..++..++.+|
T Consensus       238 ~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~  315 (597)
T 2xpi_A          238 DQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTL  315 (597)
T ss_dssp             HHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHH
T ss_pred             HHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHH
Confidence            555544433322222111  1 344444433334455666677777777777777777777654  46777777777777


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 004744          426 CRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKAL  505 (732)
Q Consensus       426 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  505 (732)
                      .+.|++++|+++|+++.+.++. +..+++.++.++.+.|++++|.++++++.+..+ .+..++..++..|.+.|++++|.
T Consensus       316 ~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~  393 (597)
T 2xpi_A          316 FVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRHP-EKAVTWLAVGIYYLCVNKISEAR  393 (597)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TSHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHhccHHHHH
Confidence            7777777777777777765544 666777777777777788888777777776543 36777777777777788888888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 004744          506 NLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKG  585 (732)
Q Consensus       506 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  585 (732)
                      ++|+++.+.. +.+..+|..++.+|.+.|++++|.++|+++.+.+ +.+..+|..++.+|.+.|++++|.++|+++.+..
T Consensus       394 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  471 (597)
T 2xpi_A          394 RYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF  471 (597)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            8877777643 2356677777788888888888888887777663 3367777778888888888888888888877653


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 004744          586 IKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSE----GVDPD--SISYNTLINGFVREENMDKAFALVSKMENQGLVPD  659 (732)
Q Consensus       586 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~  659 (732)
                       +.+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.+.++++.+.+ +.+
T Consensus       472 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~  549 (597)
T 2xpi_A          472 -QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TND  549 (597)
T ss_dssp             -CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCC
T ss_pred             -CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCC
Confidence             556777888888888888888888888877764    45666  6778888888888888888888888877742 336


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHH
Q 004744          660 VITYNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTLINGHV  706 (732)
Q Consensus       660 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~  706 (732)
                      ..+|..++.+|.+.|++++|...|+++.+  +.| +...|..+..+|.
T Consensus       550 ~~~~~~l~~~~~~~g~~~~A~~~~~~~l~--~~p~~~~~~~~l~~~~~  595 (597)
T 2xpi_A          550 ANVHTAIALVYLHKKIPGLAITHLHESLA--ISPNEIMASDLLKRALE  595 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHhCCHHHHHHHHHHHHh--cCCCChHHHHHHHHHHh
Confidence            67788888888888888888888888887  666 3566666666553

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.4e-41  Score=378.36  Aligned_cols=491  Identities=12%  Similarity=0.027  Sum_probs=414.4

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 004744          219 GWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLM  298 (732)
Q Consensus       219 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  298 (732)
                      |....+...+..+.    .+++..|+.++..|.+.|++++|..+|++|...  .|+..++..++.+|.+.|++++|..+|
T Consensus        67 ~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~  140 (597)
T 2xpi_A           67 GSFLKERNAQNTDS----LSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLL  140 (597)
T ss_dssp             -------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccCCCCCccccch----HHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHH
Confidence            33344444444332    367889999999999999999999999999865  578899999999999999999999999


Q ss_pred             HHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHC---------------CCCCCHHhHHHHHHHHHcCCCHhH
Q 004744          299 NSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQM---------------GLSPDTATYNTLLVESCRKENMSE  363 (732)
Q Consensus       299 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---------------g~~~~~~~~~~li~~~~~~g~~~~  363 (732)
                      +.+...  +++..+++.++.+|.+.|++++|.++|+++...               |.+++..+|+.++.+|.+.|++++
T Consensus       141 ~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  218 (597)
T 2xpi_A          141 TKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDR  218 (597)
T ss_dssp             HHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHH
Confidence            998653  568999999999999999999999999953321               223457899999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHH--H-HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 004744          364 AEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALM--Y-FREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDE  440 (732)
Q Consensus       364 A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~--l-~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  440 (732)
                      |.++|++|.+.+.. +...+..+...+...+..+.+..  + +..+...+..+...+|+.++..|.+.|++++|.++|++
T Consensus       219 A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~  297 (597)
T 2xpi_A          219 AKECYKEALMVDAK-CYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSS  297 (597)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCch-hhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHH
Confidence            99999999886533 56667777665554443333221  1 45555544445556778888999999999999999999


Q ss_pred             HHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 004744          441 MLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDI  520 (732)
Q Consensus       441 ~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~  520 (732)
                      +.+.  +++..+|+.++.+|.+.|++++|.++|+++.+.++. +..++..++.++.+.|++++|..+++.+.+.. +.+.
T Consensus       298 ~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~  373 (597)
T 2xpi_A          298 INGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKA  373 (597)
T ss_dssp             STTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSH
T ss_pred             hhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccH
Confidence            9875  579999999999999999999999999999987654 77889999999999999999999999998653 4578


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 004744          521 VTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGY  600 (732)
Q Consensus       521 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~  600 (732)
                      .++..++.+|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..+|+.++.+|
T Consensus       374 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  451 (597)
T 2xpi_A          374 VTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQH  451 (597)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            899999999999999999999999998863 3478899999999999999999999999999874 66889999999999


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHhcC
Q 004744          601 CRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQ----GLVPD--VITYNVILTGFCRQG  674 (732)
Q Consensus       601 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----g~~p~--~~~~~~l~~~~~~~g  674 (732)
                      .+.|++++|.++|+++.+.. +.+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|
T Consensus       452 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g  530 (597)
T 2xpi_A          452 MQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLK  530 (597)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTT
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhc
Confidence            99999999999999999854 347889999999999999999999999999884    56787  789999999999999


Q ss_pred             CHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 004744          675 RMHDSELILWRMIEKGLNP-DRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGFVPD  729 (732)
Q Consensus       675 ~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd  729 (732)
                      ++++|...++++.+  ..| +..+|..++.+|.+.|++++|.+.++++++  +.|+
T Consensus       531 ~~~~A~~~~~~~~~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~--~~p~  582 (597)
T 2xpi_A          531 MYDAAIDALNQGLL--LSTNDANVHTAIALVYLHKKIPGLAITHLHESLA--ISPN  582 (597)
T ss_dssp             CHHHHHHHHHHHHH--HSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTT
T ss_pred             CHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHh--cCCC
Confidence            99999999999998  456 689999999999999999999999999985  3454

>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=99.98  E-value=5.1e-28  Score=253.24  Aligned_cols=380  Identities=14%  Similarity=0.056  Sum_probs=244.9

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 004744          176 VIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHK  255 (732)
Q Consensus       176 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  255 (732)
                      +...+.+.|++++|++.|.++.+..+. +...+..+...+.+.|++++|...++.+++.. +.+..+|..++..|.+.|+
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQEPD-NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCC
Confidence            355677788888888888888777655 56677777777888888888888888777654 6677778888888888888


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHH
Q 004744          256 IDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDE  335 (732)
Q Consensus       256 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  335 (732)
                      +++|...|+++.+..+. +..+|..++..+.+.|++++|.+.|+++.+.++. +...+..+...+...|++++|.+.|++
T Consensus        83 ~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~  160 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCcc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            88888888887765322 4556777777888888888888888777765322 445566677777777777777777777


Q ss_pred             HHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCH
Q 004744          336 MLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDN  415 (732)
Q Consensus       336 ~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~  415 (732)
                      +.+.. +.+..+|..+...+...|++++|.+.|+++.+.+.. +...|..+...+...|++++|...|++..+... .+.
T Consensus       161 al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~  237 (388)
T 1w3b_A          161 AIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHA  237 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCH
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-CCH
Confidence            77653 334566777777777777777777777777665322 456666666777777777777777766655421 245


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 004744          416 VLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGH  495 (732)
Q Consensus       416 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  495 (732)
                      .++..+...|.+.|++++|++.++++.+.++. +..+|..+...+.+.|++++|.+.|+++.+..+ .+..++..+...+
T Consensus       238 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~  315 (388)
T 1w3b_A          238 VVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLCP-THADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHH
Confidence            56666666666666666666666666665433 455566666666666666666666666655432 2455555555555


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004744          496 CKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYC  566 (732)
Q Consensus       496 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  566 (732)
                      .+.|++++|...++++.+.. +.+..++..+...|.+.|++++|...|+++.+.. +.+...|..+...+.
T Consensus       316 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~a~~~lg~~~~  384 (388)
T 1w3b_A          316 REQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNTLK  384 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC-TTCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHhHHHHHH
Confidence            56666666666665555432 2234455555555555555555555555555432 123344444444433

>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=99.98  E-value=7e-28  Score=252.19  Aligned_cols=383  Identities=15%  Similarity=0.053  Sum_probs=335.4

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCcc
Q 004744          124 MIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICF  203 (732)
Q Consensus       124 l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  203 (732)
                      +...+.+.|++++|...+.++++.                  .|.++..+..+...+.+.|++++|...++.+.+..+. 
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~------------------~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~-   65 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQ------------------EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-   65 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH------------------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh------------------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-
Confidence            456678899999999999998754                  4556778889999999999999999999999987655 


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004744          204 SINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLIN  283 (732)
Q Consensus       204 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~  283 (732)
                      +..+|..+..++.+.|++++|.+.|+++++.. |.+..++..++.++.+.|++++|...|+++.+..+. +...+..+..
T Consensus        66 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~  143 (388)
T 1w3b_A           66 LAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGN  143 (388)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHH
Confidence            88999999999999999999999999999875 667778999999999999999999999999987533 4567888889


Q ss_pred             HHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhH
Q 004744          284 AYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSE  363 (732)
Q Consensus       284 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  363 (732)
                      .+...|++++|.+.|+++.+.... +..+|..+...+.+.|++++|...|+++++.+ +.+...|..+...+...|++++
T Consensus       144 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~  221 (388)
T 1w3b_A          144 LLKALGRLEEAKACYLKAIETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDR  221 (388)
T ss_dssp             HHHTTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999999886433 67899999999999999999999999999865 4467789999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 004744          364 AEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLE  443 (732)
Q Consensus       364 A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  443 (732)
                      |.+.+.+..+.... +..++..+...+.+.|++++|.+.|+++.+.+. .+..+|..+...+.+.|++++|+..++++.+
T Consensus       222 A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  299 (388)
T 1w3b_A          222 AVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEKGSVAEAEDCYNTALR  299 (388)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            99999999876432 688999999999999999999999999998743 3577899999999999999999999999998


Q ss_pred             CCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 004744          444 KGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTY  523 (732)
Q Consensus       444 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  523 (732)
                      ..+ .+..+++.+...+.+.|++++|...++++.+..+ .+..++..+...+.+.|++++|...|+++.+... .+...|
T Consensus       300 ~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p-~~~~a~  376 (388)
T 1w3b_A          300 LCP-THADSLNNLANIKREQGNIEEAVRLYRKALEVFP-EFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP-TFADAY  376 (388)
T ss_dssp             HCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCT-TCHHHH
T ss_pred             hCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHH
Confidence            754 4889999999999999999999999999988643 3678999999999999999999999999998643 356677


Q ss_pred             HHHHHHHHhcC
Q 004744          524 NTLIDGFCKVG  534 (732)
Q Consensus       524 ~~li~~~~~~g  534 (732)
                      ..+...+.+.|
T Consensus       377 ~~lg~~~~~~~  387 (388)
T 1w3b_A          377 SNMGNTLKEMQ  387 (388)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HhHHHHHHHcc
Confidence            77777666554

>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=3.2e-29  Score=266.21  Aligned_cols=203  Identities=21%  Similarity=0.278  Sum_probs=107.7

Q ss_pred             HHHHHHHHHCCCccCH-HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC---------hhHH
Q 004744          190 SEVFRLLRNKGICFSI-NACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHK---------IDSA  259 (732)
Q Consensus       190 ~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---------~~~A  259 (732)
                      ..+++++.+.+....+ ..++.+|.+|++.|++++|.++|++|.+.|+.||..+||+||.+|++.+.         +++|
T Consensus        10 e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A   89 (501)
T 4g26_A           10 ENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRG   89 (501)
T ss_dssp             --------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHH
T ss_pred             HHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHH
Confidence            3344444444443332 23555566666666666666666666666666666666666666655443         3445


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 004744          260 KMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQM  339 (732)
Q Consensus       260 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  339 (732)
                      .++|++|.+.|+.||..+|++||.+|++.|++++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+.
T Consensus        90 ~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~  169 (501)
T 4g26_A           90 FDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVES  169 (501)
T ss_dssp             HHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            55555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             CCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHh
Q 004744          340 GLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSR  392 (732)
Q Consensus       340 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~  392 (732)
                      |+.||..+|++||.+|++.|++++|.++|++|.+.|..|+..||+.++..|+.
T Consensus       170 G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          170 EVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             TCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             CCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            55555555555555555555555555555555555555555555555555543

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=3.8e-29  Score=265.65  Aligned_cols=202  Identities=16%  Similarity=0.229  Sum_probs=115.7

Q ss_pred             HHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC---------HHHHH
Q 004744          226 EVYAEVVRSGIELNV-YTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGF---------LEEAF  295 (732)
Q Consensus       226 ~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~---------~~~A~  295 (732)
                      .+.+++.+.+....+ ..++.+|++|++.|++++|.++|++|.+.|+.||..+||+||.+|++.+.         +++|.
T Consensus        11 ~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~   90 (501)
T 4g26_A           11 NLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGF   90 (501)
T ss_dssp             -------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHH
T ss_pred             HHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHH
Confidence            333444444433332 24555666666666666666666666666666666666666666665443         45566


Q ss_pred             HHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCC
Q 004744          296 QLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRG  375 (732)
Q Consensus       296 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  375 (732)
                      ++|++|...|+.||..||++||.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|
T Consensus        91 ~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G  170 (501)
T 4g26_A           91 DIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESE  170 (501)
T ss_dssp             HHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            66666666666666666666666666666666666666666666666666666666666666666666666666666666


Q ss_pred             CCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 004744          376 VAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCR  427 (732)
Q Consensus       376 ~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~  427 (732)
                      +.||..+|++|+.+|++.|+.++|.++|++|.+.|..|+..||+.++..|+.
T Consensus       171 ~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          171 VVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             CCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            6666666666666666666666666666666666666666666665555544

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.95  E-value=1.5e-24  Score=236.21  Aligned_cols=453  Identities=10%  Similarity=-0.045  Sum_probs=289.4

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004744          205 INACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINA  284 (732)
Q Consensus       205 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~  284 (732)
                      ...+......+.+.|++++|...|+++++.+  |+..++..++.++.+.|++++|...++++.+.++. +..+|..++.+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPD-YSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChH-HHHHHHHHHHH
Confidence            4556666677777777777777777777654  56667777777777777777777777777665432 45566677777


Q ss_pred             HHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHH
Q 004744          285 YCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEA  364 (732)
Q Consensus       285 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A  364 (732)
                      |.+.|++++|.+.|+++...+. ++......++..+........+.+.+..+...+..|+...+..-.........    
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~----  157 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQEN----  157 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------C----
T ss_pred             HHHHhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccC----
Confidence            7777777777777777766543 23344444444443333333333333333322222222211111000000011    


Q ss_pred             HHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH---cCCHHHHHHHHHHH
Q 004744          365 EEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCR---NGFVLEALKMRDEM  441 (732)
Q Consensus       365 ~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~~  441 (732)
                                  .|+.......+..+......          .....+.+...+......+..   .|++++|+..++++
T Consensus       158 ------------~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  215 (514)
T 2gw1_A          158 ------------LPSVTSMASFFGIFKPELTF----------ANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKA  215 (514)
T ss_dssp             ------------CCCHHHHHHHHTTSCCCCCC----------SSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHH
T ss_pred             ------------CchhHHHHHHHhhcCHHHHH----------HHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHH
Confidence                        11111111100000000000          000001113333333333333   67777777777777


Q ss_pred             HH-----C--CC------CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 004744          442 LE-----K--GC------VMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLF  508 (732)
Q Consensus       442 ~~-----~--~~------~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  508 (732)
                      .+     .  .+      +.+..++..+...+...|++++|...|+++.+.++.  ..++..+...+...|++++|...+
T Consensus       216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~  293 (514)
T 2gw1_A          216 ARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYF  293 (514)
T ss_dssp             HHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHH
T ss_pred             HHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHH
Confidence            66     2  11      123556777788888888888888888888877544  777888888888888888888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 004744          509 DIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKP  588 (732)
Q Consensus       509 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  588 (732)
                      +.+..... .+...+..+...+...|++++|...++++.+.... +...+..+...|...|++++|+..++++.+.. +.
T Consensus       294 ~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~  370 (514)
T 2gw1_A          294 DKALKLDS-NNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PE  370 (514)
T ss_dssp             HHHHTTCT-TCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TT
T ss_pred             HHHhhcCc-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-cc
Confidence            88887643 36677888888888899999999999888876433 66788888888889999999999999888763 55


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHh---cCCHHHHHHHHHHHHHCCCCCCH
Q 004744          589 TLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVD-PD----SISYNTLINGFVR---EENMDKAFALVSKMENQGLVPDV  660 (732)
Q Consensus       589 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~li~~~~~---~g~~~~A~~~~~~~~~~g~~p~~  660 (732)
                      +..++..+...+.+.|++++|.+.++++.+.... ++    ...+..++..+..   .|++++|...++++.+.. +.+.
T Consensus       371 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~  449 (514)
T 2gw1_A          371 APEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSE  449 (514)
T ss_dssp             CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccH
Confidence            6778888888999999999999999888764211 11    3478888888988   899999999999988842 3356


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          661 ITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDR  695 (732)
Q Consensus       661 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  695 (732)
                      .++..++..|.+.|++++|...|+++.+  +.|+.
T Consensus       450 ~~~~~la~~~~~~g~~~~A~~~~~~a~~--~~~~~  482 (514)
T 2gw1_A          450 QAKIGLAQMKLQQEDIDEAITLFEESAD--LARTM  482 (514)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHH--hcccc
Confidence            7888888999999999999999999998  67754

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.95  E-value=3.4e-24  Score=233.26  Aligned_cols=454  Identities=10%  Similarity=-0.015  Sum_probs=285.3

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      +..+..++..|.+.|++++|+..|+++.+.+  |+..+|..+..++.+.|++++|.+.|+++++.+ |.+..++..++.+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHH
Confidence            4567778999999999999999999999986  589999999999999999999999999999876 7778899999999


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHH
Q 004744          250 LCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRA  329 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  329 (732)
                      |.+.|++++|...|+++.+.+. ++......++..+.+......+.+.+..+...+..|+...+..-.........    
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~----  157 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQEN----  157 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------C----
T ss_pred             HHHHhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccC----
Confidence            9999999999999999999864 34555555566555554445555544444333322332222211111111111    


Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHh---CCCHHHHHHHHHHH
Q 004744          330 KEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSR---NGQLDRALMYFREM  406 (732)
Q Consensus       330 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~---~g~~~~A~~l~~~~  406 (732)
                                  .|+.......+..+......    .      ....+.+...+......+..   .|++++|..+|+++
T Consensus       158 ------------~~~~~~~~~~~~~~~~~~~~----~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  215 (514)
T 2gw1_A          158 ------------LPSVTSMASFFGIFKPELTF----A------NYDESNEADKELMNGLSNLYKRSPESYDKADESFTKA  215 (514)
T ss_dssp             ------------CCCHHHHHHHHTTSCCCCCC----S------SCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHH
T ss_pred             ------------CchhHHHHHHHhhcCHHHHH----H------HhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHH
Confidence                        12211111111000000000    0      00001123333333333333   55555555555555


Q ss_pred             HH-----CCC--------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 004744          407 KS-----AGL--------VPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLF  473 (732)
Q Consensus       407 ~~-----~~~--------~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  473 (732)
                      .+     ...        +.+..++..+...+...|++++|...++++.+..+.  ...+..+...+...|++++|...+
T Consensus       216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~  293 (514)
T 2gw1_A          216 ARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYF  293 (514)
T ss_dssp             HHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHH
T ss_pred             HHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHH
Confidence            54     210        112345566666666677777777777766665433  666666677777777777777777


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 004744          474 NEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISP  553 (732)
Q Consensus       474 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  553 (732)
                      +.+.+.... +..++..+...+...|++++|...++.+.+.... +...+..+...+...|++++|...++++.+.. +.
T Consensus       294 ~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~  370 (514)
T 2gw1_A          294 DKALKLDSN-NSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PE  370 (514)
T ss_dssp             HHHHTTCTT-CTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TT
T ss_pred             HHHhhcCcC-CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-cc
Confidence            777665433 4556667777777777777777777777665332 45666677777777777777777777777653 23


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHH---cCCHHHHHHHHHHHHHCCCCCCH
Q 004744          554 NYISYGILINGYCSMGHVTEAFRLWYEMVGKGI-KPT----LVSCNTIIKGYCR---SGDASKADEFLSKMVSEGVDPDS  625 (732)
Q Consensus       554 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~  625 (732)
                      +...+..+...|...|++++|...++++.+... .++    ...+..+...+..   .|++++|.+.++++.+.. +.+.
T Consensus       371 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~  449 (514)
T 2gw1_A          371 APEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSE  449 (514)
T ss_dssp             CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccH
Confidence            556677777777777888888887777765421 111    3367777777777   788888888888877643 2356


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 004744          626 ISYNTLINGFVREENMDKAFALVSKMENQGLVPDVI  661 (732)
Q Consensus       626 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  661 (732)
                      ..+..++..|.+.|++++|...++++.+  +.|+..
T Consensus       450 ~~~~~la~~~~~~g~~~~A~~~~~~a~~--~~~~~~  483 (514)
T 2gw1_A          450 QAKIGLAQMKLQQEDIDEAITLFEESAD--LARTME  483 (514)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHH--hccccH
Confidence            6777778888888888888888888877  456543

>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=99.94  E-value=2.6e-23  Score=222.11  Aligned_cols=309  Identities=12%  Similarity=0.046  Sum_probs=212.9

Q ss_pred             hcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH
Q 004744          162 TYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVY  241 (732)
Q Consensus       162 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  241 (732)
                      .+...+.++..+..++..|.+.|++++|+..|+++.+..+. +..+|..++.++.+.|++++|.+.|+++++.+ +.+..
T Consensus        18 ~~~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~   95 (450)
T 2y4t_A           18 LYFQSMADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPD-NYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTA   95 (450)
T ss_dssp             -----CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             cccccHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHH
Confidence            33556778899999999999999999999999999987655 78999999999999999999999999999876 66788


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH---HHHHHHHH------------HHHHcCCHHHHHHHHHHHhhCCC
Q 004744          242 TLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDT---VTYNTLIN------------AYCREGFLEEAFQLMNSMSGKGL  306 (732)
Q Consensus       242 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~---~~~~~li~------------~~~~~g~~~~A~~~~~~m~~~g~  306 (732)
                      ++..++.+|.+.|++++|...|+++.+.... +.   .++..++.            .+.+.|++++|++.|+++.+...
T Consensus        96 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~  174 (450)
T 2y4t_A           96 ARLQRGHLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCV  174 (450)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            9999999999999999999999999987432 33   55655544            37777788888888877776533


Q ss_pred             CCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHH
Q 004744          307 KPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTL  386 (732)
Q Consensus       307 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l  386 (732)
                       .+..++..++..|.+.|++++|...|+++.+.. +.+..++..++..|...|++++|.+.|+++.+.... +...+..+
T Consensus       175 -~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~  251 (450)
T 2y4t_A          175 -WDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHY  251 (450)
T ss_dssp             -TCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             -CChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-hHHHHHHH
Confidence             266777777777777777777777777777643 345667777777777777777777777777654322 33334333


Q ss_pred             ------------HHHHHhCCCHHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcC
Q 004744          387 ------------IGIFSRNGQLDRALMYFREMKSAGLVPD-----NVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMD  449 (732)
Q Consensus       387 ------------~~~~~~~g~~~~A~~l~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~  449 (732)
                                  +..+...|++++|...|+++.+..  |+     ...+..+...+.+.|++++|+..++++.+..+. +
T Consensus       252 ~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~-~  328 (450)
T 2y4t_A          252 KQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPD-N  328 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-C
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-c
Confidence                        455555555555555555555432  22     224444555555555555555555555443222 4


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 004744          450 VVTYNTILNGLCRAKMLTEADDLFNEMLER  479 (732)
Q Consensus       450 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  479 (732)
                      ...|..+..+|...|++++|...|+++.+.
T Consensus       329 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  358 (450)
T 2y4t_A          329 VNALKDRAEAYLIEEMYDEAIQDYETAQEH  358 (450)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            455555555555555555555555555543

>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=99.93  E-value=6.7e-23  Score=224.40  Aligned_cols=433  Identities=10%  Similarity=0.013  Sum_probs=237.3

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      ...|..++..|.+.|++++|+..|+++.+..+. +..+|..+..++.+.|++++|.+.|+++++.+ +.+..++..+..+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPN-EPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHH
Confidence            566788889999999999999999999988765 78899999999999999999999999998875 6678888888999


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCC--CCCHhhHHHHHHHHHhcCChh
Q 004744          250 LCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGL--KPGVFTYNSLINGLCKKGRCD  327 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~  327 (732)
                      +...|++++|...|+ ....  .|+.  ....+..+...+..++|.+.++.+.....  .+........+..+....+.+
T Consensus       103 ~~~~g~~~~A~~~~~-~~~~--~~~~--~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  177 (537)
T 3fp2_A          103 NESLGNFTDAMFDLS-VLSL--NGDF--DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSH  177 (537)
T ss_dssp             HHHHTCHHHHHHHHH-HHC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHH
T ss_pred             HHHcCCHHHHHHHHH-HHhc--CCCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChH
Confidence            999999999999996 4433  2222  22334455666677888888888865411  001111123334444555555


Q ss_pred             HHHHHHHHHHHCCCCCCHH-hHHHHHHHHHcC--------CCHhHHHHHHHHHHhCCCCCCH-------hHHHHHHHHHH
Q 004744          328 RAKEVLDEMLQMGLSPDTA-TYNTLLVESCRK--------ENMSEAEEIFCEMSRRGVAPDI-------VSFSTLIGIFS  391 (732)
Q Consensus       328 ~A~~~~~~~~~~g~~~~~~-~~~~li~~~~~~--------g~~~~A~~~~~~~~~~g~~~~~-------~~~~~l~~~~~  391 (732)
                      .+...+......  .+... ....+...+...        |++++|.++++++.+.... +.       .++..+...+.
T Consensus       178 ~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~g~~~~  254 (537)
T 3fp2_A          178 LEVSSVNTSSNY--DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTV-DDPLRENAALALCYTGIFHF  254 (537)
T ss_dssp             HHHHTSCCCCSS--CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CC-CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccc--ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCC-cchhhHHHHHHHHHHHHHHH
Confidence            555444332221  12211 222222222211        3556666666666554322 21       12334444444


Q ss_pred             hCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 004744          392 RNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADD  471 (732)
Q Consensus       392 ~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  471 (732)
                      ..|++++|...|+++.+.  .|+...                                   +..+...+...|++++|..
T Consensus       255 ~~~~~~~A~~~~~~~~~~--~~~~~~-----------------------------------~~~l~~~~~~~~~~~~A~~  297 (537)
T 3fp2_A          255 LKNNLLDAQVLLQESINL--HPTPNS-----------------------------------YIFLALTLADKENSQEFFK  297 (537)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CCCHHH-----------------------------------HHHHHHHTCCSSCCHHHHH
T ss_pred             hcccHHHHHHHHHHHHhc--CCCchH-----------------------------------HHHHHHHHHHhcCHHHHHH
Confidence            455555555555554443  222344                                   4444444444455555555


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004744          472 LFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKI  551 (732)
Q Consensus       472 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  551 (732)
                      .|+++.+..+. +..++..+...+...|++++|...++++.+.... +...+..+...+...|++++|...++++.+.. 
T Consensus       298 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-  374 (537)
T 3fp2_A          298 FFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETKLKF-  374 (537)
T ss_dssp             HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            55544443322 3444445555555555555555555554443221 33444455555555555555555555555442 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHHc----------CCHHHHHHHHHHH
Q 004744          552 SPNYISYGILINGYCSMGHVTEAFRLWYEMVGKG-----IKPTLVSCNTIIKGYCRS----------GDASKADEFLSKM  616 (732)
Q Consensus       552 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~  616 (732)
                      +.+...+..+...|...|++++|...|+++.+..     .......+......+.+.          |++++|...++++
T Consensus       375 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  454 (537)
T 3fp2_A          375 PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKA  454 (537)
T ss_dssp             TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHH
Confidence            2234455555555555555555555555554321     111222233444455555          6666666666666


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          617 VSEGVDPDSISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       617 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      .+.. +.+...+..+...|.+.|++++|.+.++++.+
T Consensus       455 ~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  490 (537)
T 3fp2_A          455 CELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAI  490 (537)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            6532 22455566666666666666666666666666

>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=99.93  E-value=3.3e-23  Score=226.87  Aligned_cols=445  Identities=12%  Similarity=-0.002  Sum_probs=305.4

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004744          205 INACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINA  284 (732)
Q Consensus       205 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~  284 (732)
                      ...|..+...+.+.|++++|.+.|+++++.. |.+..++..+..+|.+.|++++|...|+++.+.++. +..++..++..
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPD-HSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-hHHHHHHHHHH
Confidence            4556777777788888888888888877764 566777777777788888888888888877776433 56677777777


Q ss_pred             HHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC--CCCHHhHHHHHHHHHcCCCHh
Q 004744          285 YCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGL--SPDTATYNTLLVESCRKENMS  362 (732)
Q Consensus       285 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~--~~~~~~~~~li~~~~~~g~~~  362 (732)
                      +.+.|++++|.+.|+. ...  .|+  .....+..+...+...+|...++++.....  .+........+..+....+.+
T Consensus       103 ~~~~g~~~~A~~~~~~-~~~--~~~--~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  177 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSV-LSL--NGD--FDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSH  177 (537)
T ss_dssp             HHHHTCHHHHHHHHHH-HC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHH
T ss_pred             HHHcCCHHHHHHHHHH-Hhc--CCC--CChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChH
Confidence            7777888888877753 322  111  112223344455555667777766654310  000011122233333444444


Q ss_pred             HHHHHHHHHHhCCCCCCH-hHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 004744          363 EAEEIFCEMSRRGVAPDI-VSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEM  441 (732)
Q Consensus       363 ~A~~~~~~~~~~g~~~~~-~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  441 (732)
                      .+...+......  .+.. .....+...+...+                           -......|++++|+.+++++
T Consensus       178 ~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~---------------------------~~~~~a~~~~~~A~~~~~~~  228 (537)
T 3fp2_A          178 LEVSSVNTSSNY--DTAYALLSDALQRLYSATD---------------------------EGYLVANDLLTKSTDMYHSL  228 (537)
T ss_dssp             HHHHTSCCCCSS--CSSHHHHHHHHHHHHTCSH---------------------------HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccc--ccHHHHHHHHHHHHHHhhh---------------------------hhhHHHHHHHHHHHHHHHHH
Confidence            444333222211  1111 11111111111110                           00011124556666666666


Q ss_pred             HHCCCCcC-------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          442 LEKGCVMD-------VVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQK  514 (732)
Q Consensus       442 ~~~~~~~~-------~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  514 (732)
                      .+..+. +       ..++..+...+...|++++|...|+.+.+..  |+..++..+...+...|++++|...++.+.+.
T Consensus       229 l~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  305 (537)
T 3fp2_A          229 LSANTV-DDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDL  305 (537)
T ss_dssp             HC--CC-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHH
T ss_pred             HHHCCC-cchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhcc
Confidence            654333 2       2345666778889999999999999999874  45788899999999999999999999999886


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 004744          515 SIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCN  594 (732)
Q Consensus       515 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  594 (732)
                      .. .+..++..+...+...|++++|...|+++.+... .+...+..+...|...|++++|...++++.+.. +.+...+.
T Consensus       306 ~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~  382 (537)
T 3fp2_A          306 NP-EYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNP-ENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPT  382 (537)
T ss_dssp             CT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHH
T ss_pred             CC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHH
Confidence            43 3778899999999999999999999999998743 367889999999999999999999999999874 66778899


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHCCCCCC
Q 004744          595 TIIKGYCRSGDASKADEFLSKMVSEG-----VDPDSISYNTLINGFVRE----------ENMDKAFALVSKMENQGLVPD  659 (732)
Q Consensus       595 ~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~~~~~li~~~~~~----------g~~~~A~~~~~~~~~~g~~p~  659 (732)
                      .+...+...|++++|.+.++++.+..     .......+..+...+.+.          |++++|...++++.+.. +.+
T Consensus       383 ~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~  461 (537)
T 3fp2_A          383 FFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRS  461 (537)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCC
Confidence            99999999999999999999987642     122334456667778888          99999999999999842 335


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 004744          660 VITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD  694 (732)
Q Consensus       660 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  694 (732)
                      ...|..++..|.+.|++++|...|+++.+  +.|+
T Consensus       462 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~~~  494 (537)
T 3fp2_A          462 EQAKIGLAQLKLQMEKIDEAIELFEDSAI--LART  494 (537)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HC--
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCC
Confidence            67899999999999999999999999999  5664

>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=99.93  E-value=2e-22  Score=215.35  Aligned_cols=319  Identities=13%  Similarity=0.034  Sum_probs=234.0

Q ss_pred             HHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 004744          187 REGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEM  266 (732)
Q Consensus       187 ~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  266 (732)
                      ..+...|..+....+. +...+..++..+.+.|++++|..+|+++++.. +.+..++..++.++.+.|++++|...|+++
T Consensus         9 ~~~~~~~~~~~~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a   86 (450)
T 2y4t_A            9 SGVDLGTENLYFQSMA-DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKV   86 (450)
T ss_dssp             --------------CH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ccccccccccccccHH-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            3444556666655544 78889999999999999999999999999864 678899999999999999999999999999


Q ss_pred             HhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCH---hhHHHHH------------HHHHhcCChhHHHH
Q 004744          267 EQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGV---FTYNSLI------------NGLCKKGRCDRAKE  331 (732)
Q Consensus       267 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~li------------~~~~~~g~~~~A~~  331 (732)
                      .+.+.. +..++..++..|.+.|++++|.+.|+++.+.+.. +.   .++..++            ..+.+.|++++|..
T Consensus        87 l~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~  164 (450)
T 2y4t_A           87 IQLKMD-FTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIA  164 (450)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            988543 6788999999999999999999999999886432 34   5665553            44888999999999


Q ss_pred             HHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCC
Q 004744          332 VLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGL  411 (732)
Q Consensus       332 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~  411 (732)
                      .|+++.+.. +.+..++..++..|.+.|++++|.+.|+++.+... .+..+|..++..+...|++++|...|+++.+...
T Consensus       165 ~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  242 (450)
T 2y4t_A          165 FLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKN-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ  242 (450)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            999988764 45677888889999999999999999998877532 3678888899999999999999999998876532


Q ss_pred             CCCHHHHHHH------------HHHHHHcCCHHHHHHHHHHHHHCCCCcC----HHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004744          412 VPDNVLYTII------------INGYCRNGFVLEALKMRDEMLEKGCVMD----VVTYNTILNGLCRAKMLTEADDLFNE  475 (732)
Q Consensus       412 ~~~~~~~~~l------------i~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~A~~~~~~  475 (732)
                       .+...+..+            ...+.+.|++++|+..++++.+..+. +    ...+..+...+.+.|++++|...+++
T Consensus       243 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  320 (450)
T 2y4t_A          243 -DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-IAEYTVRSKERICHCFSKDEKPVEAIRVCSE  320 (450)
T ss_dssp             -TCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             -ChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence             233344333            56666677777777777776664322 2    23556666666677777777777776


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 004744          476 MLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQK  514 (732)
Q Consensus       476 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  514 (732)
                      +.+..+. +..+|..+..+|...|++++|...++++.+.
T Consensus       321 a~~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  358 (450)
T 2y4t_A          321 VLQMEPD-NVNALKDRAEAYLIEEMYDEAIQDYETAQEH  358 (450)
T ss_dssp             HHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhCcc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            6655322 5566666666666777777777777666654

>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=99.89  E-value=2.7e-17  Score=184.11  Aligned_cols=420  Identities=12%  Similarity=0.135  Sum_probs=234.8

Q ss_pred             cCCChHHHHHHHHhhccChhHHHHHHHhHHhhC-CCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHH
Q 004744           79 FRLNSVIIVEVLYRLRDNLQVGQRFIDFIALNF-PNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVD  157 (732)
Q Consensus        79 ~~l~~~~~~~~l~~~~~~~~~a~~~f~~~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  157 (732)
                      .+-++.....||..   +-+.-+.+.+|..... |. ..++.--...+..|...|.+.+|+++|++++..+.        
T Consensus       949 ~r~d~~lW~~vl~~---~n~~RR~Lidqv~a~aL~e-~~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s-------- 1016 (1630)
T 1xi4_A          949 RRKDPELWGSVLLE---SNPYRRPLIDQVVQTALSE-TQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNS-------- 1016 (1630)
T ss_pred             HhcCHHHHHHHhcC---CcHHHHHHHHHHHHhhccc-ccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCC--------
Confidence            34455555555532   1123345666654332 33 55666778888999999999999999999973311        


Q ss_pred             hhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCC
Q 004744          158 SFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIE  237 (732)
Q Consensus       158 ~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  237 (732)
                             ....+...-+.|+.+..+. +..+..+...+.-..    +   ..-+...+...|.+++|..+|++..     
T Consensus      1017 -------~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----d---~~eIA~Iai~lglyEEAf~IYkKa~----- 1076 (1630)
T 1xi4_A         1017 -------VFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----D---APDIANIAISNELFEEAFAIFRKFD----- 1076 (1630)
T ss_pred             -------cccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc----c---HHHHHHHHHhCCCHHHHHHHHHHcC-----
Confidence                   1122344444455555554 334444433333211    1   2335566666666777766666541     


Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHH
Q 004744          238 LNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLI  317 (732)
Q Consensus       238 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li  317 (732)
                      -.....+.++.   ..+++++|.++.++..      +..+|..+..++.+.|++++|++.|.+.      .|...|..++
T Consensus      1077 ~~~~A~~VLie---~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa 1141 (1630)
T 1xi4_A         1077 VNTSAVQVLIE---HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVV 1141 (1630)
T ss_pred             CHHHHHHHHHH---HHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHH
Confidence            11122222222   4466666666666442      4556666666666667777776666553      1556666666


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHH
Q 004744          318 NGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLD  397 (732)
Q Consensus       318 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~  397 (732)
                      ..+.+.|++++|.+.+....+..  ++....+.++.+|++.+++++...+.    .   .++...|..+...|...|+++
T Consensus      1142 ~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~Ye 1212 (1630)
T 1xi4_A         1142 QAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYD 1212 (1630)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHH
Confidence            66666677777766666655542  33333334666666666666433322    1   234455556666666666777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          398 RALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEML  477 (732)
Q Consensus       398 ~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  477 (732)
                      +|..+|...         ..|..+...|++.|++++|.+.+++.      .+..+|..+..+|...|++..|......+.
T Consensus      1213 eA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~Ii 1277 (1630)
T 1xi4_A         1213 AAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV 1277 (1630)
T ss_pred             HHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHhhh
Confidence            776666653         25666666666666666666666655      255666666666666666666666554321


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHCC----C
Q 004744          478 ERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKV--GEMEKANKLWADMISRK----I  551 (732)
Q Consensus       478 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~--g~~~~A~~~~~~~~~~~----~  551 (732)
                           .++..+..++..|.+.|.+++|+.+++..+... +-....|+-+...|++.  +++.++.+.|..-....    .
T Consensus      1278 -----v~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~peklmEhlk~f~~rini~k~~r~ 1351 (1630)
T 1xi4_A         1278 -----VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRA 1351 (1630)
T ss_pred             -----cCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccchHhHH
Confidence                 244455566666666666666666666655443 22334454455555443  34444444444322210    0


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHH
Q 004744          552 SPNYISYGILINGYCSMGHVTEAF  575 (732)
Q Consensus       552 ~~~~~~~~~li~~~~~~g~~~~A~  575 (732)
                      -.+...|..++-.|.+.|+++.|.
T Consensus      1352 ~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1352 AEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             HHHHHHHHHHHHHHHhcccHHHHH
Confidence            013445666666666666666666

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.88  E-value=6e-18  Score=182.24  Aligned_cols=363  Identities=14%  Similarity=0.058  Sum_probs=198.7

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh----cCChhHH
Q 004744          258 SAKMFLCEMEQKGVYPDTVTYNTLINAYCR----EGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCK----KGRCDRA  329 (732)
Q Consensus       258 ~A~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A  329 (732)
                      .+...+....+.|   +..++..+...|..    .+++++|++.|++..+.|   +..++..|...|..    .+++++|
T Consensus        25 ~~~~~~~~~a~~g---~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A   98 (490)
T 2xm6_A           25 VNLEQLKQKAESG---EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQA   98 (490)
T ss_dssp             CCHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             HHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHH
Confidence            3455555555543   66677777777776    677777777777777653   55667777777776    6777777


Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHHHHHHc----CCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHh----CCCHHHHHH
Q 004744          330 KEVLDEMLQMGLSPDTATYNTLLVESCR----KENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSR----NGQLDRALM  401 (732)
Q Consensus       330 ~~~~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~----~g~~~~A~~  401 (732)
                      ...|++..+.|   +...+..|...|..    .+++++|.+.|++..+.|   +...+..+...|..    .++.++|.+
T Consensus        99 ~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~  172 (490)
T 2xm6_A           99 VIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMARE  172 (490)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHH
T ss_pred             HHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            77777776654   45555666666666    666777777777666654   45556666666665    566666666


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh----cCCHHHHHHHH
Q 004744          402 YFREMKSAGLVPDNVLYTIIINGYCR----NGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCR----AKMLTEADDLF  473 (732)
Q Consensus       402 l~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~  473 (732)
                      +|++..+.|   +...+..+...|..    .++.++|++.+++..+.+   +...+..+...|..    .+++++|...|
T Consensus       173 ~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~  246 (490)
T 2xm6_A          173 WYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLF  246 (490)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            666666543   45555556666655    566666666666665543   34455555555554    45555666655


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-----CCHHHHHHHHH
Q 004744          474 NEMLERGVFPDFYTFTTLIHGHCK----DGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKV-----GEMEKANKLWA  544 (732)
Q Consensus       474 ~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~  544 (732)
                      ++..+.+   +...+..+...|..    .++.++|+..|+...+.+   +...+..+...|...     +++++|...|+
T Consensus       247 ~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~  320 (490)
T 2xm6_A          247 SQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYT  320 (490)
T ss_dssp             HHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHH
Confidence            5555442   33444444444444    455555555555554432   233344444444443     45555555555


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHH
Q 004744          545 DMISRKISPNYISYGILINGYCSMG---HVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCR----SGDASKADEFLSKMV  617 (732)
Q Consensus       545 ~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~  617 (732)
                      +..+.+   +...+..+...|...|   ++++|++.|++..+.|   +...+..+...|..    .++.++|.+.|++..
T Consensus       321 ~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~  394 (490)
T 2xm6_A          321 KSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAA  394 (490)
T ss_dssp             HHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH
T ss_pred             HHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            544432   2333444444444433   4444444444444432   33444444444444    444444444444444


Q ss_pred             HCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHH
Q 004744          618 SEGVDPDSISYNTLINGFVR----EENMDKAFALVSKMEN  653 (732)
Q Consensus       618 ~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~  653 (732)
                      +.+   +...+..|...|.+    .+++++|...|++..+
T Consensus       395 ~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~  431 (490)
T 2xm6_A          395 EQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTAST  431 (490)
T ss_dssp             HTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             hCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            432   23344444444444    4444444444444444

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.88  E-value=2.1e-19  Score=185.19  Aligned_cols=332  Identities=10%  Similarity=-0.010  Sum_probs=204.0

Q ss_pred             chHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          169 NSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVN  248 (732)
Q Consensus       169 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  248 (732)
                      ++..+..++..|.+.|++++|+..|+++.+..+. +..++..+...+...|++++|...|+++++.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPD-NYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            3567788889999999999999999999887665 78889999999999999999999999998864 567788888899


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCC--CCHHHHHHH------------HHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHH
Q 004744          249 ALCKDHKIDSAKMFLCEMEQKGVY--PDTVTYNTL------------INAYCREGFLEEAFQLMNSMSGKGLKPGVFTYN  314 (732)
Q Consensus       249 ~~~~~g~~~~A~~~~~~~~~~g~~--p~~~~~~~l------------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  314 (732)
                      .+.+.|++++|...|+++.+....  .+...+..+            ...+...|++++|.+.++++.+... .+...+.
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~  158 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCV-WDAELRE  158 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CchHHHH
Confidence            999999999999999998877320  133444444            3455555555555555555554422 2445555


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCC
Q 004744          315 SLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNG  394 (732)
Q Consensus       315 ~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g  394 (732)
                      .+...+...|++++|...++++.+.. +.+..++..+...+...|++++|.+.+++..+.... +...+..+...     
T Consensus       159 ~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~-----  231 (359)
T 3ieg_A          159 LRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQV-----  231 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH-----
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHHH-----
Confidence            55555555555555555555555442 334445555555555555555555555555443211 22211111000     


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCH----HHHHHHHHHHHhcCCHHHHH
Q 004744          395 QLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDV----VTYNTILNGLCRAKMLTEAD  470 (732)
Q Consensus       395 ~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~A~  470 (732)
                                  .      .......+...+.+.|++++|...++++.+..+. +.    ..+..+...+.+.|++++|.
T Consensus       232 ------------~------~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~  292 (359)
T 3ieg_A          232 ------------K------KLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAI  292 (359)
T ss_dssp             ------------H------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ------------H------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHH
Confidence                        0      0001112244566666666666666666654333 22    22334556666677777777


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004744          471 DLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFC  531 (732)
Q Consensus       471 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  531 (732)
                      ..++++.+..+. +..++..+...+...|++++|...|+++.+... .+...+..+..+..
T Consensus       293 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p-~~~~~~~~l~~~~~  351 (359)
T 3ieg_A          293 RICSEVLQMEPD-NVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNE-NDQQIREGLEKAQR  351 (359)
T ss_dssp             HHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CChHHHHHHHHHHH
Confidence            777766665332 556666666777777777777777777666532 23444555544443

>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=99.88  E-value=6.3e-17  Score=181.23  Aligned_cols=413  Identities=15%  Similarity=0.111  Sum_probs=293.8

Q ss_pred             ccCCChHHHHHHHHh--hccChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHH
Q 004744           78 QFRLNSVIIVEVLYR--LRDNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEI  155 (732)
Q Consensus        78 ~~~l~~~~~~~~l~~--~~~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~  155 (732)
                      +...+|..|.-+...  ..+.+..++..++.+......|+.+...-+.++..-.+. +..+..+...+.-          
T Consensus       980 ~e~~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd---------- 1048 (1630)
T 1xi4_A          980 SETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLD---------- 1048 (1630)
T ss_pred             ccccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhh----------
Confidence            456677655444433  347899999999988744333666666666666655555 2233333333221          


Q ss_pred             HHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 004744          156 VDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSG  235 (732)
Q Consensus       156 ~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  235 (732)
                                    ......++..+...|.+++|..+|++...     .....+.++.   ..|++++|.++++++    
T Consensus      1049 --------------~~d~~eIA~Iai~lglyEEAf~IYkKa~~-----~~~A~~VLie---~i~nldrAiE~Aerv---- 1102 (1630)
T 1xi4_A         1049 --------------NYDAPDIANIAISNELFEEAFAIFRKFDV-----NTSAVQVLIE---HIGNLDRAYEFAERC---- 1102 (1630)
T ss_pred             --------------hccHHHHHHHHHhCCCHHHHHHHHHHcCC-----HHHHHHHHHH---HHhhHHHHHHHHHhc----
Confidence                          11133467788889999999999998631     2333344433   678899999988865    


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHH
Q 004744          236 IELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNS  315 (732)
Q Consensus       236 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  315 (732)
                        .+..+|..+..++.+.|++++|...|.+.      -|...|..++..+.+.|++++|.+.+....+..  +++...+.
T Consensus      1103 --n~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~ 1172 (1630)
T 1xi4_A         1103 --NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETE 1172 (1630)
T ss_pred             --CCHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHH
Confidence              35778889999999999999999999664      277788889999999999999999998877764  33333445


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCC
Q 004744          316 LINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQ  395 (732)
Q Consensus       316 li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~  395 (732)
                      ++.+|++.+++++...+    ++   .++...|..+...|...|++++|..+|..+         ..|..++..+++.|+
T Consensus      1173 LafaYAKl~rleele~f----I~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge 1236 (1630)
T 1xi4_A         1173 LIFALAKTNRLAELEEF----IN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGE 1236 (1630)
T ss_pred             HHHHHHhhcCHHHHHHH----Hh---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCC
Confidence            88899999888854433    22   456677778899999999999999999874         378899999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004744          396 LDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNE  475 (732)
Q Consensus       396 ~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  475 (732)
                      +++|.+.+++..      +..+|..+..+|...|++..|......+.     .++..+..++..|.+.|.+++|+.+++.
T Consensus      1237 ~q~AIEaarKA~------n~~aWkev~~acve~~Ef~LA~~cgl~Ii-----v~~deLeeli~yYe~~G~feEAI~LlE~ 1305 (1630)
T 1xi4_A         1237 YQAAVDGARKAN------STRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEA 1305 (1630)
T ss_pred             HHHHHHHHHHhC------CHHHHHHHHHHHhhhhHHHHHHHHHHhhh-----cCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999998762      66888888889999999998888765432     3677777888999999999999999988


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHCCCCC------CHHHHHHHHHHHHhcCCHHHHHHHH----
Q 004744          476 MLERGVFPDFYTFTTLIHGHCK--DGNMNKALNLFDIMTQKSIKP------DIVTYNTLIDGFCKVGEMEKANKLW----  543 (732)
Q Consensus       476 ~~~~~~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~----  543 (732)
                      .+... ......|+-+...|++  .++..++++.|..-..  +++      +...|..++-.|.+.|+++.|....    
T Consensus      1306 aL~Le-raH~gmftELaiLyaKy~peklmEhlk~f~~rin--i~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~ 1382 (1630)
T 1xi4_A         1306 ALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRVN--IPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHP 1382 (1630)
T ss_pred             HhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc--cchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhcc
Confidence            77654 2244566666666655  4566677777664332  222      5667888888999999999887322    


Q ss_pred             ---------HHHHHCCCCCCHHHHHHHHHHHHhcC
Q 004744          544 ---------ADMISRKISPNYISYGILINGYCSMG  569 (732)
Q Consensus       544 ---------~~~~~~~~~~~~~~~~~li~~~~~~g  569 (732)
                               .+.+.  ...++..|...+..|...+
T Consensus      1383 ~~a~~~~~Fk~~i~--kv~n~elyykai~Fyl~~~ 1415 (1630)
T 1xi4_A         1383 TDAWKEGQFKDIIT--KVANVELYYRAIQFYLEFK 1415 (1630)
T ss_pred             HhhhhhHHHHHHhc--ccccHHHHHHHHHHHHhhC
Confidence                     22221  2346777777777777554

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.88  E-value=3e-19  Score=184.12  Aligned_cols=303  Identities=13%  Similarity=0.064  Sum_probs=222.1

Q ss_pred             ChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHH
Q 004744          117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLL  196 (732)
Q Consensus       117 ~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  196 (732)
                      ++..+..++..+.+.|++++|...|.+++..                  .+.++.++..++..|...|++++|+..|+++
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~------------------~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~   63 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDG------------------DPDNYIAYYRRATVFLAMGKSKAALPDLTKV   63 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh------------------CcccHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            3567888999999999999999999999853                  3456789999999999999999999999999


Q ss_pred             HHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCC---CCHHHHHHH------------HHHHHhcCChhHHHH
Q 004744          197 RNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIE---LNVYTLNIM------------VNALCKDHKIDSAKM  261 (732)
Q Consensus       197 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~l------------~~~~~~~g~~~~A~~  261 (732)
                      .+..+. +..++..+...+.+.|++++|...|+++.+.. +   .+...+..+            ...+...|++++|..
T Consensus        64 ~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~  141 (359)
T 3ieg_A           64 IALKMD-FTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAIT  141 (359)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHhCCC-cchHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHH
Confidence            988665 78899999999999999999999999998864 3   355555555            588999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 004744          262 FLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGL  341 (732)
Q Consensus       262 ~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~  341 (732)
                      .++++.+.... +..++..+...+...|++++|.+.++++.+... .+..++..+...+...|++++|...+++..+.. 
T Consensus       142 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-  218 (359)
T 3ieg_A          142 FLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLKS-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-  218 (359)
T ss_dssp             HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCS-CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHhCCC-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-
Confidence            99999987543 778899999999999999999999999998753 378899999999999999999999999998763 


Q ss_pred             CCCHHhHHHH------------HHHHHcCCCHhHHHHHHHHHHhCCCCCCH----hHHHHHHHHHHhCCCHHHHHHHHHH
Q 004744          342 SPDTATYNTL------------LVESCRKENMSEAEEIFCEMSRRGVAPDI----VSFSTLIGIFSRNGQLDRALMYFRE  405 (732)
Q Consensus       342 ~~~~~~~~~l------------i~~~~~~g~~~~A~~~~~~~~~~g~~~~~----~~~~~l~~~~~~~g~~~~A~~l~~~  405 (732)
                      +.+...+..+            ...+.+.|++++|.+.++++.+.... +.    ..+..+...+.+.|++++|...+++
T Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  297 (359)
T 3ieg_A          219 QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSE  297 (359)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            2233333222            33455555555555555555443211 11    1123344445555555555555555


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 004744          406 MKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEK  444 (732)
Q Consensus       406 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  444 (732)
                      ..+.. +.+..++..+...+...|++++|...+++..+.
T Consensus       298 ~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          298 VLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            44431 113444444444445555555555555544443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.88  E-value=1.7e-17  Score=178.67  Aligned_cols=351  Identities=13%  Similarity=0.066  Sum_probs=190.2

Q ss_pred             CHhhHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHc----CCCHhHHHHHHHHHHhCCCCCCH
Q 004744          309 GVFTYNSLINGLCK----KGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCR----KENMSEAEEIFCEMSRRGVAPDI  380 (732)
Q Consensus       309 ~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~  380 (732)
                      +..++..+...|..    .+++++|...|++..+.|   +...+..|...|..    .++.++|.+.|++..+.|   +.
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            44555555555555    555666666666555543   34455555555555    555666666666555543   44


Q ss_pred             hHHHHHHHHHHh----CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCcCHHH
Q 004744          381 VSFSTLIGIFSR----NGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCR----NGFVLEALKMRDEMLEKGCVMDVVT  452 (732)
Q Consensus       381 ~~~~~l~~~~~~----~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~  452 (732)
                      ..+..|...|..    .+++++|..+|++..+.|   +...+..+...|..    .++.++|++.|++..+.+   +...
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    555666666666555543   34455555555554    455666666666555542   4455


Q ss_pred             HHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004744          453 YNTILNGLCR----AKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCK----DGNMNKALNLFDIMTQKSIKPDIVTYN  524 (732)
Q Consensus       453 ~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~  524 (732)
                      +..+...|..    .++.++|.+.|++..+.|   +...+..+...|..    .+++++|...|+...+.+   +...+.
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    555666666666555543   34445555555544    555666666666555442   334444


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 004744          525 TLIDGFCK----VGEMEKANKLWADMISRKISPNYISYGILINGYCSM-----GHVTEAFRLWYEMVGKGIKPTLVSCNT  595 (732)
Q Consensus       525 ~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~~~~~~~~~~~~~~~~  595 (732)
                      .+...|..    .++.++|...|++..+.+   +...+..+...|...     +++++|+..|++..+.|   +...+..
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            44444544    555666666666555443   344445555555554     55666666666555543   3344455


Q ss_pred             HHHHHHHcC---CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004744          596 IIKGYCRSG---DASKADEFLSKMVSEGVDPDSISYNTLINGFVR----EENMDKAFALVSKMENQGLVPDVITYNVILT  668 (732)
Q Consensus       596 l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~  668 (732)
                      +...|...|   +.++|++.|++..+.|   +...+..|...|..    .+++++|.+.+++..+.|   ++..+..|..
T Consensus       334 lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~  407 (490)
T 2xm6_A          334 LGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGE  407 (490)
T ss_dssp             HHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHH
Confidence            555555444   4555666666555532   44555555555555    556666666666655533   3445555555


Q ss_pred             HHHh----cCCHHHHHHHHHHHHHc
Q 004744          669 GFCR----QGRMHDSELILWRMIEK  689 (732)
Q Consensus       669 ~~~~----~g~~~~A~~~~~~~~~~  689 (732)
                      .|..    .++.++|...|+++.+.
T Consensus       408 ~y~~g~g~~~d~~~A~~~~~~A~~~  432 (490)
T 2xm6_A          408 IYYYGLGVERDYVQAWAWFDTASTN  432 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHC
Confidence            5554    55666666666666553

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.86  E-value=1.5e-17  Score=180.96  Aligned_cols=431  Identities=9%  Similarity=0.014  Sum_probs=239.4

Q ss_pred             CCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 004744          166 CGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNI  245 (732)
Q Consensus       166 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  245 (732)
                      .|.+..+|..++. +.+.|++++|..+|+++++..|. +...|..++..+.+.|++++|..+|+++++..  |++..|..
T Consensus         9 ~P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~P~-~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~   84 (530)
T 2ooe_A            9 NPYDLDAWSILIR-EAQNQPIDKARKTYERLVAQFPS-SGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKC   84 (530)
T ss_dssp             CTTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHH
T ss_pred             CCCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHH
Confidence            4556667777776 46667777777777777766544 56667777777777777777777777776642  46666665


Q ss_pred             HHHHH-HhcCChhHHHH----HHHHHHhC-CCCC-CHHHHHHHHHHHHH---------cCCHHHHHHHHHHHhhCCCCCC
Q 004744          246 MVNAL-CKDHKIDSAKM----FLCEMEQK-GVYP-DTVTYNTLINAYCR---------EGFLEEAFQLMNSMSGKGLKPG  309 (732)
Q Consensus       246 l~~~~-~~~g~~~~A~~----~~~~~~~~-g~~p-~~~~~~~li~~~~~---------~g~~~~A~~~~~~m~~~g~~p~  309 (732)
                      .+... ...|++++|.+    +|++.... |..| +...|...+....+         .|+++.|.++|++.+.....+.
T Consensus        85 ~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~  164 (530)
T 2ooe_A           85 YLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINI  164 (530)
T ss_dssp             HHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTH
T ss_pred             HHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhH
Confidence            55422 24466665554    55554432 3332 34556555554443         4555666666666555200000


Q ss_pred             HhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHH------HhCC---CCCCH
Q 004744          310 VFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEM------SRRG---VAPDI  380 (732)
Q Consensus       310 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~------~~~g---~~~~~  380 (732)
                      ...|..........|.                    .+...++.  ...++++.|..++.++      .+..   ++|+.
T Consensus       165 ~~~~~~~~~~e~~~~~--------------------~~~~~~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~  222 (530)
T 2ooe_A          165 EQLWRDYNKYEEGINI--------------------HLAKKMIE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQN  222 (530)
T ss_dssp             HHHHHHHHHHHHHHCH--------------------HHHHHHHH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC-
T ss_pred             HHHHHHHHHHHHhhch--------------------hHHHHHHH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCC
Confidence            1112111110000000                    00000000  0122334444443331      1110   11110


Q ss_pred             hHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc----CCH----HHHHHHHHHHHHCCCCcCHHH
Q 004744          381 VSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRN----GFV----LEALKMRDEMLEKGCVMDVVT  452 (732)
Q Consensus       381 ~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~----g~~----~~A~~~~~~~~~~~~~~~~~~  452 (732)
                      .            ......               ...|...+......    ++.    .++..+|++.+...+. ++..
T Consensus       223 ~------------~~~~~~---------------~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~p~-~~~~  274 (530)
T 2ooe_A          223 T------------PQEAQQ---------------VDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLGH-HPDI  274 (530)
T ss_dssp             -------------CCHHHH---------------HHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHHTT-CHHH
T ss_pred             C------------hhHHHH---------------HHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhCCC-CHHH
Confidence            0            000000               12232222221111    121    3555666666654322 5666


Q ss_pred             HHHHHHHHHh-------cCCHH-------HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 004744          453 YNTILNGLCR-------AKMLT-------EADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKP  518 (732)
Q Consensus       453 ~~~li~~~~~-------~~~~~-------~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  518 (732)
                      |..++..+.+       .|+++       +|..+|++..+.-.+-+...|..++..+.+.|++++|..+|+.+++.... 
T Consensus       275 w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-  353 (530)
T 2ooe_A          275 WYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI-  353 (530)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSS-
T ss_pred             HHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCcccc-
Confidence            6666666654       56665       77777777765212225667777777777778888888888877775221 


Q ss_pred             CH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 004744          519 DI-VTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILING-YCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTI  596 (732)
Q Consensus       519 ~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  596 (732)
                      +. ..|..++..+.+.|++++|.++|++..+... .+...|...+.. +...|+.++|..+|+..++.. +.+...|..+
T Consensus       354 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~  431 (530)
T 2ooe_A          354 DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAY  431 (530)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHH
T ss_pred             CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHH
Confidence            22 4677777777777888888888888776522 223333222222 335788888888888887763 4567788888


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCC-CCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          597 IKGYCRSGDASKADEFLSKMVSEGV-DPD--SISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       597 ~~~~~~~g~~~~A~~~~~~~~~~~~-~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      +..+.+.|+.++|..+|++.+..+. .|+  ...|...+......|+.+.+..+.+++.+
T Consensus       432 ~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~  491 (530)
T 2ooe_A          432 IDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  491 (530)
T ss_dssp             HHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            8888888888888888888887532 222  44677777777788888888888888877

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.85  E-value=5.4e-17  Score=176.66  Aligned_cols=430  Identities=12%  Similarity=0.093  Sum_probs=261.5

Q ss_pred             HhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcC
Q 004744          105 DFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQAR  184 (732)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g  184 (732)
                      +......|.   +..+|..++. +.+.|++++|..+|++++                  ...|.+...|..++..+.+.|
T Consensus         3 e~al~~~P~---~~~~w~~l~~-~~~~~~~~~a~~~~e~al------------------~~~P~~~~~w~~~~~~~~~~~   60 (530)
T 2ooe_A            3 EKKLEENPY---DLDAWSILIR-EAQNQPIDKARKTYERLV------------------AQFPSSGRFWKLYIEAEIKAK   60 (530)
T ss_dssp             HHHHHHCTT---CHHHHHHHHH-HHHSSCHHHHHHHHHHHH------------------TTCTTCHHHHHHHHHHHHHTT
T ss_pred             hhHhhhCCC---CHHHHHHHHH-HHHhCCHHHHHHHHHHHH------------------HHCCCCHHHHHHHHHHHHhcC
Confidence            334455554   7889999998 478999999999999998                  446778899999999999999


Q ss_pred             ChHHHHHHHHHHHHCCCccCHHHHHHHHHHH-HHcCChHHHHH----HHHHHHHc-CCC-CCHHHHHHHHHHHHh-----
Q 004744          185 KLREGSEVFRLLRNKGICFSINACNSLLGGL-VKIGWVDLARE----VYAEVVRS-GIE-LNVYTLNIMVNALCK-----  252 (732)
Q Consensus       185 ~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~-~~~g~~~~a~~----~~~~~~~~-~~~-~~~~~~~~l~~~~~~-----  252 (732)
                      ++++|..+|++++...  |+...|..++... ...|+++.|.+    +|++++.. |.. ++...|...+....+     
T Consensus        61 ~~~~a~~~~~ral~~~--p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~  138 (530)
T 2ooe_A           61 NYDKVEKLFQRCLMKV--LHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVG  138 (530)
T ss_dssp             CHHHHHHHHHHHTTTC--CCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCS
T ss_pred             CHHHHHHHHHHHHhcC--CChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcc
Confidence            9999999999999875  5777888888643 45678777765    77777653 433 456788888877655     


Q ss_pred             ----cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhH
Q 004744          253 ----DHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDR  328 (732)
Q Consensus       253 ----~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  328 (732)
                          .|+++.|+.+|++..+....+....|.......-..|. ..+..++.                     .+.+++++
T Consensus       139 ~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~-~~~~~~l~---------------------~~~~~~~~  196 (530)
T 2ooe_A          139 SYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINI-HLAKKMIE---------------------DRSRDYMN  196 (530)
T ss_dssp             STTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCH-HHHHHHHH---------------------TTHHHHHH
T ss_pred             cHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhch-hHHHHHHH---------------------HhhHHHHH
Confidence                68999999999999984111112334332221111110 00000000                     01222333


Q ss_pred             HHHHHHHH------HHCC---CCCC--------HHhHHHHHHHHHcC----CCH----hHHHHHHHHHHhCCCCCCHhHH
Q 004744          329 AKEVLDEM------LQMG---LSPD--------TATYNTLLVESCRK----ENM----SEAEEIFCEMSRRGVAPDIVSF  383 (732)
Q Consensus       329 A~~~~~~~------~~~g---~~~~--------~~~~~~li~~~~~~----g~~----~~A~~~~~~~~~~g~~~~~~~~  383 (732)
                      |..++.+.      .+..   ++|+        ...|...+......    ++.    ..+..+|++..... +.+...|
T Consensus       197 A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w  275 (530)
T 2ooe_A          197 ARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIW  275 (530)
T ss_dssp             HHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHH
T ss_pred             HHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHH
Confidence            43333331      1110   1222        12333333222111    121    24555666665542 2255666


Q ss_pred             HHHHHHHHh-------CCCHH-------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcC
Q 004744          384 STLIGIFSR-------NGQLD-------RALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMD  449 (732)
Q Consensus       384 ~~l~~~~~~-------~g~~~-------~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~  449 (732)
                      ..++..+.+       .|+++       +|..+|++..+.-.+.+...|..++..+.+.|++++|..+|+++++..+. +
T Consensus       276 ~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~  354 (530)
T 2ooe_A          276 YEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI-D  354 (530)
T ss_dssp             HHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSS-C
T ss_pred             HHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCcccc-C
Confidence            666666554       56655       66777776664212234566666666677777777777777777664322 2


Q ss_pred             H-HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004744          450 V-VTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHG-HCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLI  527 (732)
Q Consensus       450 ~-~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  527 (732)
                      . ..|..++..+.+.|++++|.++|++..+.... +...+...+.. +...|+.++|..+|+..++.. +.+...|..++
T Consensus       355 ~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~-~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~  432 (530)
T 2ooe_A          355 PTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYI  432 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTC-CTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCC-chHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHH
Confidence            2 46666666666777777777777777665322 22222222211 234677777777777776653 23566777777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCC-CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 004744          528 DGFCKVGEMEKANKLWADMISRKI-SP--NYISYGILINGYCSMGHVTEAFRLWYEMVGK  584 (732)
Q Consensus       528 ~~~~~~g~~~~A~~~~~~~~~~~~-~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  584 (732)
                      ..+.+.|+.++|..+|++.+.... .|  ....|...+......|+.+.+..++.++.+.
T Consensus       433 ~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          433 DYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            777777777777777777776532 22  2336666677667777777777777777654

>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=99.85  E-value=9.1e-19  Score=178.20  Aligned_cols=291  Identities=11%  Similarity=-0.018  Sum_probs=215.2

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          414 DNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIH  493 (732)
Q Consensus       414 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~  493 (732)
                      +...+..++..+...|++++|+++++++.+..+. +...+..++..+...|++++|..+++++.+..+. +...+..+..
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~   98 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPF-HASCLPVHIGTLVELNKANELFYLSHKLVDLYPS-NPVSWFAVGC   98 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-ChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHH
Confidence            4445556666666777777777777777665433 4455555666677777777777777777766443 5566777777


Q ss_pred             HHHhcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 004744          494 GHCKDG-NMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVT  572 (732)
Q Consensus       494 ~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  572 (732)
                      .+...| ++++|...++.+.+... .+...+..+...+...|++++|...++++.+.... +...+..+...|...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLEK-TYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTCT-TCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHH
Confidence            777777 78888888887776543 25666777788888888888888888888776432 4566666888888888888


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC--------CCCCHHHHHHHHHHHHhcCCHHHH
Q 004744          573 EAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEG--------VDPDSISYNTLINGFVREENMDKA  644 (732)
Q Consensus       573 ~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--------~~~~~~~~~~li~~~~~~g~~~~A  644 (732)
                      +|...++++.+.. +.+...+..+...+...|++++|...++++.+..        .+.....+..++..+.+.|++++|
T Consensus       177 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          177 LAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            8888888888764 5567788888888888888888888888887631        133457888888999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHH-HhcCCHH
Q 004744          645 FALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTLINGH-VSQNNLK  712 (732)
Q Consensus       645 ~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~-~~~g~~~  712 (732)
                      ...++++.+.. +.+...|..++..+.+.|++++|...++++.+  +.| +...+..+..++ ...|+.+
T Consensus       256 ~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          256 LDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALG--LRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT--TCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHc--cCCCchHHHHHHHHHHHHHhCchh
Confidence            99999988742 23567888889999999999999999999988  677 567888888888 4556643

>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=99.84  E-value=1.8e-18  Score=175.95  Aligned_cols=288  Identities=11%  Similarity=-0.014  Sum_probs=197.9

Q ss_pred             CCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 004744          166 CGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNI  245 (732)
Q Consensus       166 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  245 (732)
                      .+.++.++..++..+...|++++|+++|+++.+..+. +...+..++..+.+.|++++|..+++++++.. +.+..++..
T Consensus        18 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~   95 (330)
T 3hym_B           18 LQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPF-HASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFA   95 (330)
T ss_dssp             --CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHH
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-ChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHH
Confidence            4456677788888888889999999999998887655 56667777788888888888888888888764 566777888


Q ss_pred             HHHHHHhcC-ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcC
Q 004744          246 MVNALCKDH-KIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKG  324 (732)
Q Consensus       246 l~~~~~~~g-~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  324 (732)
                      +...+...| ++++|...|+++.+.... +..+|..+...+...|++++|.+.++++.+.... +...+..+...|...|
T Consensus        96 l~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~  173 (330)
T 3hym_B           96 VGCYYLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTN  173 (330)
T ss_dssp             HHHHHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHh
Confidence            888888888 888888888888876433 5667788888888888888888888888765332 4566666777777888


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCC--------CCCCHhHHHHHHHHHHhCCCH
Q 004744          325 RCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRG--------VAPDIVSFSTLIGIFSRNGQL  396 (732)
Q Consensus       325 ~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g--------~~~~~~~~~~l~~~~~~~g~~  396 (732)
                      ++++|...++++.+.. +.+..++..+...+...|++++|.+.++++.+..        .+.+..++..+...+...|++
T Consensus       174 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  252 (330)
T 3hym_B          174 NSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKY  252 (330)
T ss_dssp             CHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCH
Confidence            8888888887777653 3455667777777777777777777777665421        012334566666666666666


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 004744          397 DRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGL  460 (732)
Q Consensus       397 ~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  460 (732)
                      ++|...+++..+... .+...+..+...+.+.|++++|.+.+++..+..+. +...+..+..++
T Consensus       253 ~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~  314 (330)
T 3hym_B          253 AEALDYHRQALVLIP-QNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRD-DTFSVTMLGHCI  314 (330)
T ss_dssp             HHHHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSC-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCc-cchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCC-chHHHHHHHHHH
Confidence            666666666655422 24445555555555666666666665555554322 444444444444

>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=99.82  E-value=9.1e-19  Score=181.32  Aligned_cols=262  Identities=11%  Similarity=-0.006  Sum_probs=179.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004744          452 TYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFC  531 (732)
Q Consensus       452 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  531 (732)
                      .+..+...+.+.|++++|...|+++.+..+. +..++..+...+...|++++|+..++++.+... .+..++..+...|.
T Consensus        66 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~  143 (368)
T 1fch_A           66 QPFEEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELKP-DNQTALMALAVSFT  143 (368)
T ss_dssp             SHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHH
Confidence            3444444455555555555555555544322 444444555555555555555555555544321 24444455555555


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHH----------------HHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHH
Q 004744          532 KVGEMEKANKLWADMISRKISPNYISY----------------GILINGYCSMGHVTEAFRLWYEMVGKGIKP--TLVSC  593 (732)
Q Consensus       532 ~~g~~~~A~~~~~~~~~~~~~~~~~~~----------------~~li~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~  593 (732)
                      ..|++++|...++++.+.... +...+                ..+.. +...|++++|+..|+++.+.. +.  +..++
T Consensus       144 ~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~  220 (368)
T 1fch_A          144 NESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGS-LLSDSLFLEVKELFLAAVRLD-PTSIDPDVQ  220 (368)
T ss_dssp             HTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHH-HHHHHHHHHHHHHHHHHHHHS-TTSCCHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHH-HhhcccHHHHHHHHHHHHHhC-cCcccHHHH
Confidence            555555555555555543221 11111                12333 338899999999999998864 33  57889


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 004744          594 NTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQ  673 (732)
Q Consensus       594 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~  673 (732)
                      ..+...|.+.|++++|++.++++++.. +.+...+..++..+.+.|++++|+..++++.+.. +.+...|..++.+|.+.
T Consensus       221 ~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~  298 (368)
T 1fch_A          221 CGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINL  298 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHC
Confidence            999999999999999999999998753 3357889999999999999999999999998842 33577899999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCC------------HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          674 GRMHDSELILWRMIEKGLNPD------------RSTYTTLINGHVSQNNLKEAFRFHDEML  722 (732)
Q Consensus       674 g~~~~A~~~~~~~~~~g~~p~------------~~~~~~l~~~~~~~g~~~~A~~~~~~m~  722 (732)
                      |++++|...|+++.+  +.|+            ..+|..++.+|...|++++|..++++.+
T Consensus       299 g~~~~A~~~~~~al~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          299 GAHREAVEHFLEALN--MQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARDL  357 (368)
T ss_dssp             TCHHHHHHHHHHHHH--HHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTCH
T ss_pred             CCHHHHHHHHHHHHH--hCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHHH
Confidence            999999999999987  3332            5889999999999999999999887544

>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=99.81  E-value=1.3e-17  Score=168.33  Aligned_cols=281  Identities=14%  Similarity=0.087  Sum_probs=117.0

Q ss_pred             HcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHH
Q 004744          182 QARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKM  261 (732)
Q Consensus       182 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  261 (732)
                      +.|++++|.++++++.      +..+|..|+.++.+.|++++|++.|.+      .+|..+|..++.++...|++++|+.
T Consensus        15 ~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHH
Confidence            5677899999999883      335899999999999999999999964      3567788888899999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 004744          262 FLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGL  341 (732)
Q Consensus       262 ~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~  341 (732)
                      .++..++.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..++..|...|++++|...|..+     
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            88777764  4567788889999999999999888775       257778999999999999999999999866     


Q ss_pred             CCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004744          342 SPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTII  421 (732)
Q Consensus       342 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~l  421 (732)
                          ..|..++.++.+.|++++|.+.+.++      .++.+|..++.+|+..|+++.|......+     ...+.-...+
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------NSTRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEEL  213 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTT-----TTCHHHHHHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHH-----HhCHhhHHHH
Confidence                36888888889999999998888887      17788888888888888888886555432     2233345567


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHcCCCC------CHHHHHHHHH
Q 004744          422 INGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRA--KMLTEADDLFNEMLERGVFP------DFYTFTTLIH  493 (732)
Q Consensus       422 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~--~~~~~A~~~~~~~~~~~~~~------~~~~~~~li~  493 (732)
                      +..|.+.|++++|+.+++..+... +.-...|+-+...|++-  ++..+.++.|..-  .+++|      +...|..++.
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            788888888888888888877654 33566677776666654  2333444443311  11111      2345666666


Q ss_pred             HHHhcCCHHHHHH
Q 004744          494 GHCKDGNMNKALN  506 (732)
Q Consensus       494 ~~~~~g~~~~A~~  506 (732)
                      .|...++++.|..
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            6666666666654

>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=99.81  E-value=4e-18  Score=176.49  Aligned_cols=307  Identities=9%  Similarity=-0.040  Sum_probs=191.2

Q ss_pred             HHHcCCCHhHHHH-HHHHHHhCCCC-C--CHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 004744          354 ESCRKENMSEAEE-IFCEMSRRGVA-P--DIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNG  429 (732)
Q Consensus       354 ~~~~~g~~~~A~~-~~~~~~~~g~~-~--~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g  429 (732)
                      ++...|++++|.+ .+.+....... |  +...+..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  112 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENE  112 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCc
Confidence            3444556666665 55544332111 1  23345555566666666666666666665542 224455555555556666


Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          430 FVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFD  509 (732)
Q Consensus       430 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  509 (732)
                      ++++|+..++++.+..+. +..++..+...+...|++++|...++++.+..+. +...+..+...       ..      
T Consensus       113 ~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~-------~~------  177 (368)
T 1fch_A          113 QELLAISALRRCLELKPD-NQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEG-------AG------  177 (368)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC--------------------
T ss_pred             CHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHH-------hh------
Confidence            666666666555554332 4555555555555555555555555555554322 11111110000       00      


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 004744          510 IMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISP-NYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKP  588 (732)
Q Consensus       510 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  588 (732)
                       .    ..+. ..+.. +..+...|++++|...|+++.+..... +..++..+...|...|++++|+..|+++.+.. +.
T Consensus       178 -~----~~~~-~~~~~-~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~  249 (368)
T 1fch_A          178 -G----AGLG-PSKRI-LGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PN  249 (368)
T ss_dssp             --------------CT-THHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             -h----hccc-HHHHH-HHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cC
Confidence             0    0000 01112 223337889999999999988764332 57888889999999999999999999988763 55


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---------
Q 004744          589 TLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPD---------  659 (732)
Q Consensus       589 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~---------  659 (732)
                      +..++..+...+.+.|++++|++.++++++.. +.+...+..++..|.+.|++++|...++++.+.  .|+         
T Consensus       250 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~~~  326 (368)
T 1fch_A          250 DYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNM--QRKSRGPRGEGG  326 (368)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HHTC------CC
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCCCcccccc
Confidence            67889999999999999999999999988753 345778889999999999999999999998873  222         


Q ss_pred             ---HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          660 ---VITYNVILTGFCRQGRMHDSELILWRMI  687 (732)
Q Consensus       660 ---~~~~~~l~~~~~~~g~~~~A~~~~~~~~  687 (732)
                         ..+|..++.+|...|+.++|..++++.+
T Consensus       327 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          327 AMSENIWSTLRLALSMLGQSDAYGAADARDL  357 (368)
T ss_dssp             CCCHHHHHHHHHHHHHHTCGGGHHHHHTTCH
T ss_pred             chhhHHHHHHHHHHHHhCChHhHHHhHHHHH
Confidence               5789999999999999999998877554

>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=99.80  E-value=8.7e-19  Score=176.73  Aligned_cols=283  Identities=11%  Similarity=0.086  Sum_probs=135.8

Q ss_pred             HhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHH
Q 004744          129 VRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINAC  208 (732)
Q Consensus       129 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  208 (732)
                      -+.|++++|.++++++-                       .+.+|..|+.++.+.|++++|++.|.+.      +|...|
T Consensus        14 ~~~~~ld~A~~fae~~~-----------------------~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y   64 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCN-----------------------EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSY   64 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCC-----------------------ChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHH
Confidence            46677888888887662                       2469999999999999999999999764      377799


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 004744          209 NSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCRE  288 (732)
Q Consensus       209 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~  288 (732)
                      ..++.++...|++++|+.++..+++.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|+.++..|...
T Consensus        65 ~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~  135 (449)
T 1b89_A           65 MEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDE  135 (449)
T ss_dssp             ----------------------------------------------CHHHHTTTTT-------CC---------------
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHc
Confidence            99999999999999999988877764  5568889999999999999999998884       36778999999999999


Q ss_pred             CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHH
Q 004744          289 GFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIF  368 (732)
Q Consensus       289 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~  368 (732)
                      |.+++|...|..+         ..|..++.++.+.|++++|.+.++++      .+..+|..++.+|+..|+++.|....
T Consensus       136 g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~  200 (449)
T 1b89_A          136 KMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCG  200 (449)
T ss_dssp             -CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTT
T ss_pred             CCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHH
Confidence            9999999999977         36999999999999999999999998      27899999999999999999996655


Q ss_pred             HHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc--CCHHHHHHHHHHHHHCCC
Q 004744          369 CEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRN--GFVLEALKMRDEMLEKGC  446 (732)
Q Consensus       369 ~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~--g~~~~A~~~~~~~~~~~~  446 (732)
                      ..+.     .++.....++..|.+.|++++|..+++...... +.....|+.+..+|++-  +++.+.++.|..-+  ++
T Consensus       201 l~L~-----~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~i--ni  272 (449)
T 1b89_A          201 LHIV-----VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRV--NI  272 (449)
T ss_dssp             TTTT-----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTS--CH
T ss_pred             HHHH-----hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh--cC
Confidence            5432     244445679999999999999999999988654 44567788887777764  44555555554211  12


Q ss_pred             Cc------CHHHHHHHHHHHHhcCCHHHHHHH
Q 004744          447 VM------DVVTYNTILNGLCRAKMLTEADDL  472 (732)
Q Consensus       447 ~~------~~~~~~~li~~~~~~~~~~~A~~~  472 (732)
                      ++      +...|..+...|.+.++++.|...
T Consensus       273 ~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t  304 (449)
T 1b89_A          273 PKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT  304 (449)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH
Confidence            21      456788899999999999988763

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.80  E-value=9.3e-17  Score=172.37  Aligned_cols=388  Identities=10%  Similarity=-0.025  Sum_probs=227.3

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHC--------CCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhC-----C
Q 004744          309 GVFTYNSLINGLCKKGRCDRAKEVLDEMLQM--------GLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRR-----G  375 (732)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--------g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----g  375 (732)
                      ....|+.|...+...|++++|++.|++.++.        .-+....+|+.+...|...|++++|...++++.+.     +
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            4556888888888888888888888877542        11223457777888888888888888887776531     1


Q ss_pred             -C-CCCHhHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH---HHHcCCHHHHHHHHHHHHHCCCCc
Q 004744          376 -V-APDIVSFSTLIGIFSR--NGQLDRALMYFREMKSAGLVPDNVLYTIIING---YCRNGFVLEALKMRDEMLEKGCVM  448 (732)
Q Consensus       376 -~-~~~~~~~~~l~~~~~~--~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~---~~~~g~~~~A~~~~~~~~~~~~~~  448 (732)
                       . .....++..+..++..  .+++++|...|++..+.... +...+..+...   +...++.++|++.+++.++..+. 
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~-  207 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD-  207 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS-
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc-
Confidence             0 1124455555544443  34577777777777665322 34444444433   33456666777777776665433 


Q ss_pred             CHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004744          449 DVVTYNTILNGLCR----AKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYN  524 (732)
Q Consensus       449 ~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  524 (732)
                      +...+..+...+..    .+++++|.+++++.....+. +..++..+...|...|++++|+..++++.+..+. +..++.
T Consensus       208 ~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~  285 (472)
T 4g1t_A          208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYLHC  285 (472)
T ss_dssp             CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHH
T ss_pred             chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHHHH
Confidence            45555555444433    35566777777777665443 5666777777777777777777777777665322 445555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC
Q 004744          525 TLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSG  604 (732)
Q Consensus       525 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  604 (732)
                      .+...|...+....         ...       ...........+..++|...+++..+.. +.+..++..+...|...|
T Consensus       286 ~lg~~y~~~~~~~~---------~~~-------~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~  348 (472)
T 4g1t_A          286 QIGCCYRAKVFQVM---------NLR-------ENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALAD  348 (472)
T ss_dssp             HHHHHHHHHHHHHH---------HC-------------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhh---------hHH-------HHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhc
Confidence            55544432211100         000       0000011112234678888888887764 556677888889999999


Q ss_pred             CHHHHHHHHHHHHHCCCCCCH--HHHHHHHH-HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004744          605 DASKADEFLSKMVSEGVDPDS--ISYNTLIN-GFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSEL  681 (732)
Q Consensus       605 ~~~~A~~~~~~~~~~~~~~~~--~~~~~li~-~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~  681 (732)
                      ++++|++.|++.++....+..  ..+..+.. .+...|++++|+..+++..+  +.|+......         ..+.+..
T Consensus       349 ~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~--i~~~~~~~~~---------~~~~l~~  417 (472)
T 4g1t_A          349 QYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK--INQKSREKEK---------MKDKLQK  417 (472)
T ss_dssp             CHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH--SCCCCHHHHH---------HHHHHHH
T ss_pred             cHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCcccHHHHH---------HHHHHHH
Confidence            999999999999875433222  12223332 24577899999999999988  5676543322         2344556


Q ss_pred             HHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCC
Q 004744          682 ILWRMIEKGLNP-DRSTYTTLINGHVSQNNLKEAFRFHDEMLQR-GFVPDD  730 (732)
Q Consensus       682 ~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~-g~~pd~  730 (732)
                      ++++.++  ..| +..+|..|+.+|...|++++|.+.+++.++. ...|+.
T Consensus       418 ~~~~~l~--~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a  466 (472)
T 4g1t_A          418 IAKMRLS--KNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSA  466 (472)
T ss_dssp             HHHHHHH--HCC-CTTHHHHHHHHHHHHHHCC-------------------
T ss_pred             HHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcH
Confidence            6777776  455 5688999999999999999999999999874 344544

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.80  E-value=5.5e-18  Score=175.25  Aligned_cols=261  Identities=8%  Similarity=-0.034  Sum_probs=179.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004744          453 YNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCK  532 (732)
Q Consensus       453 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  532 (732)
                      +..+...+.+.|++++|...|+++.+..+. +..++..+...+...|++++|+..|+++.+... .+...+..+...|..
T Consensus        68 ~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~  145 (365)
T 4eqf_A           68 AFEEGLKRLKEGDLPVTILFMEAAILQDPG-DAEAWQFLGITQAENENEQAAIVALQRCLELQP-NNLKALMALAVSYTN  145 (365)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHc
Confidence            444555555555555555555555554332 445555555555555555555555555554422 244555555555556


Q ss_pred             cCCHHHHHHHHHHHHHCCCC---------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHH
Q 004744          533 VGEMEKANKLWADMISRKIS---------PNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKP--TLVSCNTIIKGYC  601 (732)
Q Consensus       533 ~g~~~~A~~~~~~~~~~~~~---------~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~l~~~~~  601 (732)
                      .|++++|...|+++.+....         .....+..+...+...|++++|+..++++.+.. +.  +..++..+...|.
T Consensus       146 ~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~~~~  224 (365)
T 4eqf_A          146 TSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGLGVLFH  224 (365)
T ss_dssp             TTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHHHHHHH
Confidence            66666666666555543110         012334456778888999999999999998874 33  6888999999999


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHH
Q 004744          602 RSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSE  680 (732)
Q Consensus       602 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~  680 (732)
                      ..|++++|++.++++++.. +.+..+|..++..|.+.|++++|+..++++.+.  .| +..+|..++.+|.+.|++++|.
T Consensus       225 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~  301 (365)
T 4eqf_A          225 LSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEI--QPGFIRSRYNLGISCINLGAYREAV  301 (365)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHCCCHHHHH
Confidence            9999999999999998853 346788999999999999999999999999984  45 4778999999999999999999


Q ss_pred             HHHHHHHHcCCCCC-------------HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          681 LILWRMIEKGLNPD-------------RSTYTTLINGHVSQNNLKEAFRFHDEM  721 (732)
Q Consensus       681 ~~~~~~~~~g~~p~-------------~~~~~~l~~~~~~~g~~~~A~~~~~~m  721 (732)
                      ..|+++++  +.|+             ...|..+..++...|+.+.|.+..++-
T Consensus       302 ~~~~~al~--~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  353 (365)
T 4eqf_A          302 SNFLTALS--LQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLGD  353 (365)
T ss_dssp             HHHHHHHH--HHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTTC
T ss_pred             HHHHHHHH--hCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHhh
Confidence            99999987  3332             578999999999999999998877653

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.79  E-value=1.4e-17  Score=172.15  Aligned_cols=235  Identities=12%  Similarity=-0.073  Sum_probs=171.8

Q ss_pred             chHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          169 NSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVN  248 (732)
Q Consensus       169 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  248 (732)
                      +...|..++..|.+.|++++|+..|+++++..+. +..+|..+...+.+.|++++|.+.|+++++.. +.+..++..++.
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPG-DAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            3455888999999999999999999999988765 78899999999999999999999999998875 667888999999


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCH----------HHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCC-CCHhhHHHHH
Q 004744          249 ALCKDHKIDSAKMFLCEMEQKGVYPDT----------VTYNTLINAYCREGFLEEAFQLMNSMSGKGLK-PGVFTYNSLI  317 (732)
Q Consensus       249 ~~~~~g~~~~A~~~~~~~~~~g~~p~~----------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~~~~~li  317 (732)
                      +|.+.|++++|...|+++.+.... +.          ..+..+...+.+.|++++|.+.++++...... ++..++..+.
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPK-YKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHH-HHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCcc-chHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            999999999999999998876321 11          12233466777778888888888877765322 1466777777


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHH
Q 004744          318 NGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLD  397 (732)
Q Consensus       318 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~  397 (732)
                      ..|...|++++|...|+++++.. +.+..+|..+...|...|++++|.+.|+++.+... .+..++..+...|.+.|+++
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQP-GFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CchHHHHHHHHHHHHCCCHH
Confidence            77777777777777777777653 34566777777777777777777777777766532 24666677777777777777


Q ss_pred             HHHHHHHHHHH
Q 004744          398 RALMYFREMKS  408 (732)
Q Consensus       398 ~A~~l~~~~~~  408 (732)
                      +|...|+++.+
T Consensus       299 ~A~~~~~~al~  309 (365)
T 4eqf_A          299 EAVSNFLTALS  309 (365)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77777776654

>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=99.78  E-value=3.5e-17  Score=166.17  Aligned_cols=234  Identities=12%  Similarity=-0.052  Sum_probs=154.6

Q ss_pred             chHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          169 NSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVN  248 (732)
Q Consensus       169 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  248 (732)
                      +...+..++..+...|++++|+..|+++.+..+. +..++..+...+.+.|++++|.+.|+++++.. +.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            3455778888999999999999999999987665 78889999999999999999999999998875 667888888899


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH--------------HH-HHHHcCCHHHHHHHHHHHhhCCCCCCHhhH
Q 004744          249 ALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTL--------------IN-AYCREGFLEEAFQLMNSMSGKGLKPGVFTY  313 (732)
Q Consensus       249 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l--------------i~-~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  313 (732)
                      .+...|++++|...++++.+.... +...+..+              .. .+...|++++|.+.++++.+.... +..++
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~  175 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPN-DAQLH  175 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTT-CHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCC-CHHHH
Confidence            999999999999999998887432 23333333              11 244556666666666666554322 45555


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhC
Q 004744          314 NSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRN  393 (732)
Q Consensus       314 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~  393 (732)
                      ..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|.+.++++.+... .+...+..+...+...
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~  253 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDINP-GYVRVMYNMAVSYSNM  253 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHh
Confidence            566666666666666666666655442 23344555555555555555555555555544321 1344555555555555


Q ss_pred             CCHHHHHHHHHHHHH
Q 004744          394 GQLDRALMYFREMKS  408 (732)
Q Consensus       394 g~~~~A~~l~~~~~~  408 (732)
                      |++++|.+.++++.+
T Consensus       254 g~~~~A~~~~~~a~~  268 (327)
T 3cv0_A          254 SQYDLAAKQLVRAIY  268 (327)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHH
Confidence            555555555555444

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.78  E-value=2.5e-16  Score=169.07  Aligned_cols=394  Identities=10%  Similarity=-0.107  Sum_probs=245.0

Q ss_pred             CCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHH
Q 004744          115 KHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFR  194 (732)
Q Consensus       115 ~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  194 (732)
                      .+....|+.|..++...|++++|++.|.+++.-..        .... -...+....+|..++.+|...|++++|...|+
T Consensus        48 ~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~--------~~~~-~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~  118 (472)
T 4g1t_A           48 EFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQ--------QEHA-DQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVD  118 (472)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH--------HHSG-GGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH--------hcCc-cccchHHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            34567899999999999999999999999874210        0000 01234457789999999999999999999999


Q ss_pred             HHHHCC-----C--ccCHHHHHHHHHHHHHc--CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH---HhcCChhHHHHH
Q 004744          195 LLRNKG-----I--CFSINACNSLLGGLVKI--GWVDLAREVYAEVVRSGIELNVYTLNIMVNAL---CKDHKIDSAKMF  262 (732)
Q Consensus       195 ~~~~~~-----~--~~~~~~~~~ll~~~~~~--g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~g~~~~A~~~  262 (732)
                      ++.+..     .  .....++..+..++.+.  +++++|.+.|+++++.. |.++..+..+..++   ...++.++|.+.
T Consensus       119 ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~  197 (472)
T 4g1t_A          119 KVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDP  197 (472)
T ss_dssp             HHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHH
T ss_pred             HHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHH
Confidence            887531     1  11356677776666654  46999999999999875 55666666665553   456788899999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 004744          263 LCEMEQKGVYPDTVTYNTLINAYCR----EGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQ  338 (732)
Q Consensus       263 ~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  338 (732)
                      +++..+..+. +..++..+...+..    .|++++|.+.+++....... +..++..+...|...|++++|...+++..+
T Consensus       198 ~~~al~l~p~-~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  275 (472)
T 4g1t_A          198 LRQAIRLNPD-NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALE  275 (472)
T ss_dssp             HHHHHHHCSS-CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhcCCc-chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Confidence            9998887533 56666666655554    46788999999998876433 678899999999999999999999999988


Q ss_pred             CCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHH
Q 004744          339 MGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLY  418 (732)
Q Consensus       339 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~  418 (732)
                      .. +.+..++..+...|...+...         ....       ...........+..++|...+++..+... .+..++
T Consensus       276 ~~-p~~~~~~~~lg~~y~~~~~~~---------~~~~-------~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~  337 (472)
T 4g1t_A          276 YI-PNNAYLHCQIGCCYRAKVFQV---------MNLR-------ENGMYGKRKLLELIGHAVAHLKKADEAND-NLFRVC  337 (472)
T ss_dssp             HS-TTCHHHHHHHHHHHHHHHHHH---------HHC-------------CHHHHHHHHHHHHHHHHHHHHHCT-TTCCCH
T ss_pred             hC-CChHHHHHHHHHHHHHHHHHh---------hhHH-------HHHHHHHHHHHhhHHHHHHHHHHHhhcCC-chhhhh
Confidence            64 345567777766653221110         0000       00001111112235667777777665432 234456


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHH--HHHHHHH-HHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 004744          419 TIIINGYCRNGFVLEALKMRDEMLEKGCVMDVV--TYNTILN-GLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGH  495 (732)
Q Consensus       419 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~li~-~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  495 (732)
                      ..+...|...|++++|+..|++.++....+...  .+..+.. .+.+.|+.++|+..|++.++...  +.....      
T Consensus       338 ~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~--~~~~~~------  409 (472)
T 4g1t_A          338 SILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQ--KSREKE------  409 (472)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCC--CCHHHH------
T ss_pred             hhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc--ccHHHH------
Confidence            667777777777777777777777654332211  1222222 23466778888888887776533  222111      


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 004744          496 CKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRK  550 (732)
Q Consensus       496 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  550 (732)
                         +..+.+..+++..+..+ +.+..+|..+...|...|++++|++.|++.++.+
T Consensus       410 ---~~~~~l~~~~~~~l~~~-p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~  460 (472)
T 4g1t_A          410 ---KMKDKLQKIAKMRLSKN-GADSEALHVLAFLQELNEKMQQADEDSERGLESG  460 (472)
T ss_dssp             ---HHHHHHHHHHHHHHHHC-C-CTTHHHHHHHHHHHHHHCC-------------
T ss_pred             ---HHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence               12233445555555443 3366777888888888888888888888887754

>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=99.78  E-value=2.4e-17  Score=167.36  Aligned_cols=267  Identities=9%  Similarity=-0.041  Sum_probs=224.2

Q ss_pred             ChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHH
Q 004744          117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLL  196 (732)
Q Consensus       117 ~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  196 (732)
                      +...|..++..+.+.|++++|..+|.+++..                  .+.+..+|..++..|.+.|++++|+..|+++
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~------------------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a   81 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQA------------------APEREEAWRSLGLTQAENEKDGLAIIALNHA   81 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHh------------------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3456778889999999999999999999853                  3456788999999999999999999999999


Q ss_pred             HHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH--------------HH-HHHhcCChhHHHH
Q 004744          197 RNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIM--------------VN-ALCKDHKIDSAKM  261 (732)
Q Consensus       197 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~g~~~~A~~  261 (732)
                      .+..+. +..++..+...+...|++++|.+.|+++.+.. +.+...+..+              .. .+...|++++|..
T Consensus        82 ~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  159 (327)
T 3cv0_A           82 RMLDPK-DIAVHAALAVSHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRT  159 (327)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHH
T ss_pred             HhcCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHH
Confidence            988655 78899999999999999999999999999864 3344444433              33 4778899999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 004744          262 FLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGL  341 (732)
Q Consensus       262 ~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~  341 (732)
                      .++++.+.... +..++..++..|.+.|++++|.+.++++.+... .+..+|..+...+...|++++|...++++.+.. 
T Consensus       160 ~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-  236 (327)
T 3cv0_A          160 LLHAALEMNPN-DAQLHASLGVLYNLSNNYDSAAANLRRAVELRP-DDAQLWNKLGATLANGNRPQEALDAYNRALDIN-  236 (327)
T ss_dssp             HHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHhhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-
Confidence            99999987543 788899999999999999999999999987643 368889999999999999999999999998864 


Q ss_pred             CCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCC-----------CHhHHHHHHHHHHhCCCHHHHHHHHHHH
Q 004744          342 SPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAP-----------DIVSFSTLIGIFSRNGQLDRALMYFREM  406 (732)
Q Consensus       342 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~-----------~~~~~~~l~~~~~~~g~~~~A~~l~~~~  406 (732)
                      +.+..++..+...+...|++++|.+.++++.+.....           +...|..+...+.+.|+.++|..++++.
T Consensus       237 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          237 PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            4567889999999999999999999999987753321           4678888889999999999998887654

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.76  E-value=1.1e-16  Score=158.63  Aligned_cols=275  Identities=7%  Similarity=0.013  Sum_probs=202.9

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 004744          422 INGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNM  501 (732)
Q Consensus       422 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  501 (732)
                      ++-....|++..|+...+......+.........+..+|...|+++.|+..++.    ...|+..++..+...+...|+.
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcH
Confidence            345567889999998887765543222233556677888999999998876654    2345677888888888888999


Q ss_pred             HHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004744          502 NKALNLFDIMTQKSIKP-DIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYE  580 (732)
Q Consensus       502 ~~A~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  580 (732)
                      ++|++.++++...+..| +...+..+...+...|++++|++.+++      +.+...+..++..|.+.|++++|.+.|++
T Consensus        82 ~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~  155 (291)
T 3mkr_A           82 DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKK  155 (291)
T ss_dssp             HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999888766434 556666777888899999999998876      45778888888899999999999999999


Q ss_pred             HHhCCCCCCHHHH---HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 004744          581 MVGKGIKPTLVSC---NTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLV  657 (732)
Q Consensus       581 ~~~~~~~~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~  657 (732)
                      +.+..  |+....   ...+..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|...++++.+.  .
T Consensus       156 ~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~--~  230 (291)
T 3mkr_A          156 MQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK--D  230 (291)
T ss_dssp             HHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--C
T ss_pred             HHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--C
Confidence            88763  443211   12233344458899999999998886 3457788888999999999999999999998883  4


Q ss_pred             C-CHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004744          658 P-DVITYNVILTGFCRQGRMHD-SELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFR  716 (732)
Q Consensus       658 p-~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~  716 (732)
                      | +..++..++..+...|+.++ +..+++++.+  +.|+...   +.+...+.+.++++..
T Consensus       231 p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~--~~P~~~~---~~d~~~~~~~fd~~~~  286 (291)
T 3mkr_A          231 SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD--AHRSHPF---IKEYRAKENDFDRLVL  286 (291)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTCHH---HHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH--hCCCChH---HHHHHHHHHHHHHHHH
Confidence            5 56788888888888888876 5688888888  7776432   2233445555555543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.75  E-value=4.3e-16  Score=154.37  Aligned_cols=256  Identities=11%  Similarity=0.044  Sum_probs=175.8

Q ss_pred             HHHHhCCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 004744          388 GIFSRNGQLDRALMYFREMKSAGLVPDN--VLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKM  465 (732)
Q Consensus       388 ~~~~~~g~~~~A~~l~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  465 (732)
                      .-....|++..|+..++.....  .|+.  .....+.++|...|++++|+..++.    ...|+..++..+...+...++
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~   80 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSR   80 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTT
T ss_pred             HHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCc
Confidence            4455678888888877765433  2332  3445567778888888888765543    134466677777777888888


Q ss_pred             HHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          466 LTEADDLFNEMLERGVFP-DFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWA  544 (732)
Q Consensus       466 ~~~A~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  544 (732)
                      .++|++.++++...+..| +...+..+...+...|++++|+..++.      +.+...+..++..|.+.|++++|.+.|+
T Consensus        81 ~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~  154 (291)
T 3mkr_A           81 RDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELK  154 (291)
T ss_dssp             HHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            888888888877765433 455666667777888888888887776      3466777777788888888888888888


Q ss_pred             HHHHCCCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 004744          545 DMISRKISPNYISY---GILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGV  621 (732)
Q Consensus       545 ~~~~~~~~~~~~~~---~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  621 (732)
                      ++.+..  |+....   ..++..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|.+.++++++.. 
T Consensus       155 ~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-  230 (291)
T 3mkr_A          155 KMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-  230 (291)
T ss_dssp             HHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            887763  332211   22334444557788888888888776 36677778888888888888888888888877643 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHCCCCCCHH
Q 004744          622 DPDSISYNTLINGFVREENMDK-AFALVSKMENQGLVPDVI  661 (732)
Q Consensus       622 ~~~~~~~~~li~~~~~~g~~~~-A~~~~~~~~~~g~~p~~~  661 (732)
                      +.+..++..++..+...|+.++ +.++++++.+  +.|+..
T Consensus       231 p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~--~~P~~~  269 (291)
T 3mkr_A          231 SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD--AHRSHP  269 (291)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTCH
T ss_pred             CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH--hCCCCh
Confidence            2356677777777777887765 5677777777  456543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.72  E-value=5.2e-18  Score=184.29  Aligned_cols=117  Identities=14%  Similarity=0.138  Sum_probs=69.8

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHH---HcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 004744          205 INACNSLLGGLVKIGWVDLAREVYAEVV---RSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTL  281 (732)
Q Consensus       205 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l  281 (732)
                      ..+||+||++|++.|++++|.++|.+|.   +.|+.||+.|||+||++||+.|++++|.++|++|.+.|+.||++|||+|
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            4456666666666666666666665543   2355566666666666666666666666666666666666666666666


Q ss_pred             HHHHHHcCC-HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHH
Q 004744          282 INAYCREGF-LEEAFQLMNSMSGKGLKPGVFTYNSLINGLC  321 (732)
Q Consensus       282 i~~~~~~g~-~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  321 (732)
                      |.++|+.|+ .++|.++|++|.+.|+.||..+|++++.+..
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~e  247 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEED  247 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhh
Confidence            666666655 3555566666666666666666665554443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.72  E-value=1.8e-17  Score=180.16  Aligned_cols=153  Identities=12%  Similarity=0.130  Sum_probs=127.5

Q ss_pred             CCCchHHHHHHHHHHHHcCChHHHHHHHHHHHH---CCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH
Q 004744          166 CGSNSLIFDLVIRTYVQARKLREGSEVFRLLRN---KGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYT  242 (732)
Q Consensus       166 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  242 (732)
                      +.....+|++||++|++.|++++|.++|++|.+   .|+.||+.+||+||.+|++.|++++|.++|++|.+.|+.||+.|
T Consensus       123 ~~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvT  202 (1134)
T 3spa_A          123 LSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS  202 (1134)
T ss_dssp             CCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HHhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHH
Confidence            445577899999999999999999999988764   58999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCh-hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCC------HhhHHH
Q 004744          243 LNIMVNALCKDHKI-DSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPG------VFTYNS  315 (732)
Q Consensus       243 ~~~l~~~~~~~g~~-~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~------~~~~~~  315 (732)
                      ||++|+++|+.|+. ++|.++|++|.+.|+.||.++|++++.++.+.    .+++..+++ ..++.|+      +.+...
T Consensus       203 YntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~L  277 (1134)
T 3spa_A          203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKL  277 (1134)
T ss_dssp             HHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTT
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHH
Confidence            99999999999985 78999999999999999999999999877665    344444444 3344443      344444


Q ss_pred             HHHHHHhc
Q 004744          316 LINGLCKK  323 (732)
Q Consensus       316 li~~~~~~  323 (732)
                      |.+.|.+.
T Consensus       278 L~dl~s~d  285 (1134)
T 3spa_A          278 LRDVYAKD  285 (1134)
T ss_dssp             THHHHCCC
T ss_pred             HHHHHccC
Confidence            55555443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.68  E-value=3.2e-15  Score=141.42  Aligned_cols=200  Identities=13%  Similarity=-0.045  Sum_probs=153.4

Q ss_pred             CCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 004744          167 GSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIM  246 (732)
Q Consensus       167 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  246 (732)
                      |.++..+..++..+.+.|++++|+..|+++++..+. +...+..+..++.+.|++++|...|+++++.. |.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            345678888999999999999999999999988776 88899999999999999999999999998875 6677888888


Q ss_pred             HHHHHhc-----------CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHH
Q 004744          247 VNALCKD-----------HKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNS  315 (732)
Q Consensus       247 ~~~~~~~-----------g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  315 (732)
                      ..++.+.           |++++|+..|++..+..+. +...|..+...|...|++++|++.|++..+.+  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            9999888           8888888888888876433 56778888888888888888888888888776  57788888


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHH
Q 004744          316 LINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMS  372 (732)
Q Consensus       316 li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  372 (732)
                      +...|...|++++|...|++.++.. +.+...+..+...+...|++++|.+.+++..
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            8888888888888888888887754 4456677777888888888888888776653

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.68  E-value=3.9e-15  Score=140.81  Aligned_cols=199  Identities=15%  Similarity=0.028  Sum_probs=168.2

Q ss_pred             CChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHH
Q 004744          116 HSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRL  195 (732)
Q Consensus       116 ~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  195 (732)
                      .++..+..+..++.+.|++++|...|.+++                  ...|.++..|..++..|.+.|++++|+..|++
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al------------------~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~   64 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERAL------------------KENPQDPEALYWLARTQLKLGLVNPALENGKT   64 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHH------------------TTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHH------------------HhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            367789999999999999999999999998                  44667889999999999999999999999999


Q ss_pred             HHHCCCccCHHHHHHHHHHHHHc-----------CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHH
Q 004744          196 LRNKGICFSINACNSLLGGLVKI-----------GWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLC  264 (732)
Q Consensus       196 ~~~~~~~~~~~~~~~ll~~~~~~-----------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  264 (732)
                      +++..+. +...+..+..++.+.           |++++|...|+++++.. |.+..++..+..++...|++++|+..|+
T Consensus        65 al~~~P~-~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~  142 (217)
T 2pl2_A           65 LVARTPR-YLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLK  142 (217)
T ss_dssp             HHHHCTT-CHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHhCCC-cHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            9998876 888999999999999           99999999999999875 6678899999999999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 004744          265 EMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEML  337 (732)
Q Consensus       265 ~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  337 (732)
                      +..+..  .+...+..+...|...|++++|+..|++..+..+. +...+..+...+.+.|++++|...|++..
T Consensus       143 ~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          143 QALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQAPK-DLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTC---------------
T ss_pred             HHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            999987  58899999999999999999999999999887443 77889999999999999999999998764

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.68  E-value=4.7e-15  Score=157.02  Aligned_cols=188  Identities=13%  Similarity=0.080  Sum_probs=95.7

Q ss_pred             HHHHHHHHHHhcC---CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc----CCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004744          452 TYNTILNGLCRAK---MLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKD----GNMNKALNLFDIMTQKSIKPDIVTYN  524 (732)
Q Consensus       452 ~~~~li~~~~~~~---~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~~~~  524 (732)
                      .+..+...|.+.|   +.++|++.|++..+.|.. +...+..+...|...    +++++|+..|+... .   -+...+.
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~~  252 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPASWV  252 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHHH
Confidence            4445555555555   555555555555555432 333334444444332    45556666655554 2   2333444


Q ss_pred             HHHHH-H--HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 004744          525 TLIDG-F--CKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMG-----HVTEAFRLWYEMVGKGIKPTLVSCNTI  596 (732)
Q Consensus       525 ~li~~-~--~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-----~~~~A~~~~~~~~~~~~~~~~~~~~~l  596 (732)
                      .+... |  ...+++++|.+.|++..+.|   +...+..|...|. .|     ++++|+..|++.. .|   +...+..+
T Consensus       253 ~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~L  324 (452)
T 3e4b_A          253 SLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAADYYL  324 (452)
T ss_dssp             HHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHH
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHH
Confidence            44444 2  23556666666666655554   4445555555554 33     6666666666555 22   44555555


Q ss_pred             HHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCC
Q 004744          597 IKGYCR----SGDASKADEFLSKMVSEGVDPDSISYNTLINGFVR----EENMDKAFALVSKMENQG  655 (732)
Q Consensus       597 ~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g  655 (732)
                      ...|..    ..+.++|.+.|++..+.|.   ......|..+|..    ..+.++|...++...+.|
T Consensus       325 g~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g  388 (452)
T 3e4b_A          325 GQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQD  388 (452)
T ss_dssp             HHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCC
Confidence            555544    2256666666666655442   2233344444442    345666666666666554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.67  E-value=8.7e-15  Score=154.93  Aligned_cols=188  Identities=8%  Similarity=-0.050  Sum_probs=78.2

Q ss_pred             HHHHHHHHHHhCC---CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc----CCHHHHHHHHHHHHHCCCCcCHHHHH
Q 004744          382 SFSTLIGIFSRNG---QLDRALMYFREMKSAGLVPDNVLYTIIINGYCRN----GFVLEALKMRDEMLEKGCVMDVVTYN  454 (732)
Q Consensus       382 ~~~~l~~~~~~~g---~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~~~~  454 (732)
                      .+..+...|...|   +.++|++.|++..+.|.. +...+..+...|...    +++++|+..|++.. .   -++..+.
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~~  252 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPASWV  252 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHHH
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHHH
Confidence            4444444444444   444555555544444322 222223333333222    34444444444444 1   1333333


Q ss_pred             HHHHH-H--HhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004744          455 TILNG-L--CRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDG-----NMNKALNLFDIMTQKSIKPDIVTYNTL  526 (732)
Q Consensus       455 ~li~~-~--~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-----~~~~A~~~~~~~~~~~~~~~~~~~~~l  526 (732)
                      .+... +  ...+++++|.+.|++..+.|   +...+..|...|. .|     ++++|+..|++.. .   -+...+..|
T Consensus       253 ~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~~~L  324 (452)
T 3e4b_A          253 SLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---REVAADYYL  324 (452)
T ss_dssp             HHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHHHHHHH
T ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHHHHHHH
Confidence            33333 2  23445555555555544443   3334444444443 22     4555555554444 1   133333334


Q ss_pred             HHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCC
Q 004744          527 IDGFCK----VGEMEKANKLWADMISRKISPNYISYGILINGYCS----MGHVTEAFRLWYEMVGKG  585 (732)
Q Consensus       527 i~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~  585 (732)
                      ...|..    ..++++|...|++..+.|   +......|..+|..    ..+.++|...|+...+.|
T Consensus       325 g~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g  388 (452)
T 3e4b_A          325 GQIYRRGYLGKVYPQKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQD  388 (452)
T ss_dssp             HHHHHTTTTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHCCCCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCC
Confidence            433333    124445555555444443   22223333333332    234444555554444443

>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=99.66  E-value=2.3e-14  Score=146.82  Aligned_cols=251  Identities=9%  Similarity=0.033  Sum_probs=207.1

Q ss_pred             CCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCC-hHHHHHHHHHHHHcCCCCCHHHHH
Q 004744          166 CGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGW-VDLAREVYAEVVRSGIELNVYTLN  244 (732)
Q Consensus       166 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~  244 (732)
                      .+.+..+|..+...|.+.|++++|+..|+++++.++. +..+|+.+..++.+.|+ +++|+..|+++++.. +.+..+|.
T Consensus        93 ~p~~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~  170 (382)
T 2h6f_A           93 SDKFRDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWH  170 (382)
T ss_dssp             CHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             ChhhHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHH
Confidence            3455778899999999999999999999999998877 89999999999999997 999999999999976 67888999


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHh-c
Q 004744          245 IMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCK-K  323 (732)
Q Consensus       245 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~-~  323 (732)
                      .+..++.+.|++++|+..|+++++.... +..+|..+..++.+.|++++|++.++++++.+.. +..+|+.+..++.+ .
T Consensus       171 ~~g~~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~  248 (382)
T 2h6f_A          171 HRRVLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTT  248 (382)
T ss_dssp             HHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhc
Confidence            9999999999999999999999998654 7889999999999999999999999999987654 78899999999999 6


Q ss_pred             CChhHH-----HHHHHHHHHCCCCCCHHhHHHHHHHHHcCC--CHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCC--
Q 004744          324 GRCDRA-----KEVLDEMLQMGLSPDTATYNTLLVESCRKE--NMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNG--  394 (732)
Q Consensus       324 g~~~~A-----~~~~~~~~~~g~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g--  394 (732)
                      |..++|     +..|++.++.. +-+...|+.+...+...|  ++++|.+.+.++ +.. +.+...+..++.+|.+.|  
T Consensus       249 ~~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~  325 (382)
T 2h6f_A          249 GYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLEN  325 (382)
T ss_dssp             CSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHT
T ss_pred             CcchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcc
Confidence            665888     48888888764 446678888888888887  588888888887 432 336777888888888764  


Q ss_pred             -------CHHHHHHHHHHH-HHCCCCCC-HHHHHHHHHHH
Q 004744          395 -------QLDRALMYFREM-KSAGLVPD-NVLYTIIINGY  425 (732)
Q Consensus       395 -------~~~~A~~l~~~~-~~~~~~~~-~~~~~~li~~~  425 (732)
                             ..++|.++|+++ .+.  .|. ...|..+...+
T Consensus       326 ~~~~~~~~~~~A~~~~~~l~~~~--DP~r~~~w~~~~~~l  363 (382)
T 2h6f_A          326 QCDNKEDILNKALELCEILAKEK--DTIRKEYWRYIGRSL  363 (382)
T ss_dssp             TCSSHHHHHHHHHHHHHHHHHTT--CGGGHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHHHHHHh--CchhHHHHHHHHHHH
Confidence                   258888888887 554  333 34455444443

>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=99.66  E-value=2.3e-14  Score=146.69  Aligned_cols=249  Identities=11%  Similarity=0.010  Sum_probs=212.7

Q ss_pred             hHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCC-hHHHHHHHHHH
Q 004744          118 SMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARK-LREGSEVFRLL  196 (732)
Q Consensus       118 ~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~  196 (732)
                      ..+|..+..++.+.|++++|+..+.+++..                  .+.+..+|..++..|.+.|+ +++|+..|+++
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l------------------~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~a  158 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIEL------------------NAANYTVWHFRRVLLKSLQKDLHEEMNYITAI  158 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHH------------------CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHh------------------CccCHHHHHHHHHHHHHcccCHHHHHHHHHHH
Confidence            577888999999999999999999999854                  45678899999999999997 99999999999


Q ss_pred             HHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH
Q 004744          197 RNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTV  276 (732)
Q Consensus       197 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  276 (732)
                      ++.++. +..+|+.+..++.+.|++++|+..|+++++.. +.+..+|..+..++.+.|++++|+..|+++++..+. +..
T Consensus       159 l~l~P~-~~~a~~~~g~~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~  235 (382)
T 2h6f_A          159 IEEQPK-NYQVWHHRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNS  235 (382)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHH
T ss_pred             HHHCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHH
Confidence            999877 89999999999999999999999999999986 778899999999999999999999999999998654 788


Q ss_pred             HHHHHHHHHHH-cCCHHHH-----HHHHHHHhhCCCCCCHhhHHHHHHHHHhcC--ChhHHHHHHHHHHHCCCCCCHHhH
Q 004744          277 TYNTLINAYCR-EGFLEEA-----FQLMNSMSGKGLKPGVFTYNSLINGLCKKG--RCDRAKEVLDEMLQMGLSPDTATY  348 (732)
Q Consensus       277 ~~~~li~~~~~-~g~~~~A-----~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~g~~~~~~~~  348 (732)
                      +|+.+...+.+ .|..++|     ++.|++.+..... +...|+.+...+.+.|  ++++|.+.+.++ +.. +.+...+
T Consensus       236 a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al  312 (382)
T 2h6f_A          236 VWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLI  312 (382)
T ss_dssp             HHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHH
T ss_pred             HHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHH
Confidence            99999999999 6665888     5889998886544 7789999999999988  689999999988 432 4567788


Q ss_pred             HHHHHHHHcCC---------CHhHHHHHHHHH-HhCCCCCCHhHHHHHHHHHH
Q 004744          349 NTLLVESCRKE---------NMSEAEEIFCEM-SRRGVAPDIVSFSTLIGIFS  391 (732)
Q Consensus       349 ~~li~~~~~~g---------~~~~A~~~~~~~-~~~g~~~~~~~~~~l~~~~~  391 (732)
                      ..++..|.+.|         ..++|.++++++ .+.+. .....|..+...+.
T Consensus       313 ~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~DP-~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          313 AFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKDT-IRKEYWRYIGRSLQ  364 (382)
T ss_dssp             HHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHTTCG-GGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHhCc-hhHHHHHHHHHHHH
Confidence            89999998874         358999999999 66532 24556666665543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.66  E-value=2e-14  Score=140.09  Aligned_cols=225  Identities=12%  Similarity=0.101  Sum_probs=150.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--CC----HHHH
Q 004744          450 VVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIK--PD----IVTY  523 (732)
Q Consensus       450 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~----~~~~  523 (732)
                      ...+..+...+...|++++|...|+++.+..  .+..++..+...+...|++++|+..++.+.+....  ++    ...+
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            4566777777777888888888888777766  46677777777777788888888777777654211  11    4566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 004744          524 NTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRS  603 (732)
Q Consensus       524 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  603 (732)
                      ..+...+...|++++|...|+++.+.  .|+.       ..+...|++++|...++++.... +.+...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHh
Confidence            66777777777777777777777764  2332       34555566777777777776652 33455666666677777


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 004744          604 GDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELIL  683 (732)
Q Consensus       604 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~  683 (732)
                      |++++|.+.++++++.. +.+...+..++..+.+.|++++|...++++.+.. +.+...|..++.++.+.|++++|...+
T Consensus       153 ~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  230 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETL  230 (258)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            77777777777776643 2345666667777777777777777777776631 223556666777777777777777777


Q ss_pred             HHHHH
Q 004744          684 WRMIE  688 (732)
Q Consensus       684 ~~~~~  688 (732)
                      +++.+
T Consensus       231 ~~a~~  235 (258)
T 3uq3_A          231 DAART  235 (258)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77665

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.66  E-value=3.2e-14  Score=138.67  Aligned_cols=223  Identities=12%  Similarity=0.095  Sum_probs=121.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--CC----HHHHH
Q 004744          486 YTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKIS--PN----YISYG  559 (732)
Q Consensus       486 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~----~~~~~  559 (732)
                      ..+..+...+...|++++|+..|+++.+..  .+...+..+...+...|++++|...++++.+....  ++    ...+.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            344555555556666666666666655554  45555555566666666666666666655543211  01    34555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 004744          560 ILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREE  639 (732)
Q Consensus       560 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  639 (732)
                      .+...|...|++++|+..|+++.+.  .|+.       ..+.+.|++++|.+.++++.... +.+...+..++..+...|
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  153 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKS  153 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhc
Confidence            5555666666666666666665553  2332       23444455566666666655532 112344555555566666


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHH
Q 004744          640 NMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTLINGHVSQNNLKEAFRFH  718 (732)
Q Consensus       640 ~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~  718 (732)
                      ++++|...++++.+.. +.+..+|..++..+...|++++|...++++++  ..| +...|..++.+|...|++++|.+.+
T Consensus       154 ~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  230 (258)
T 3uq3_A          154 DWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIE--KDPNFVRAYIRKATAQIAVKEYASALETL  230 (258)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHH--hCHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            6666666666655531 22345555556666666666666666666655  334 2455556666666666666666666


Q ss_pred             HHHHH
Q 004744          719 DEMLQ  723 (732)
Q Consensus       719 ~~m~~  723 (732)
                      +++++
T Consensus       231 ~~a~~  235 (258)
T 3uq3_A          231 DAART  235 (258)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            65543

>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=99.63  E-value=7.2e-13  Score=130.38  Aligned_cols=222  Identities=14%  Similarity=0.003  Sum_probs=151.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004744          449 DVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCK----DGNMNKALNLFDIMTQKSIKPDIVTYN  524 (732)
Q Consensus       449 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~  524 (732)
                      ++.++..+...+...|++++|...|++..+.+   +..++..+...|..    .+++++|+..|++..+.+   +...+.
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            55666677777777777777777777777632   45566667777777    777777777777777654   556666


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 004744          525 TLIDGFCK----VGEMEKANKLWADMISRKISPNYISYGILINGYCS----MGHVTEAFRLWYEMVGKGIKPTLVSCNTI  596 (732)
Q Consensus       525 ~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  596 (732)
                      .+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|+..|++..+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            67777777    777777777777777653   56666667777776    777777777777777654   45556666


Q ss_pred             HHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004744          597 IKGYCR----SGDASKADEFLSKMVSEGVDPDSISYNTLINGFVR----EENMDKAFALVSKMENQGLVPDVITYNVILT  668 (732)
Q Consensus       597 ~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~  668 (732)
                      ...|..    .+++++|.+.|++..+.+   +...+..+...|..    .+++++|++.+++..+.+   +...+..+..
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~  226 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  226 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHH
Confidence            666666    677777777777776643   45566666666666    677777777777776642   2555666666


Q ss_pred             HHHh----cCCHHHHHHHHHHHHH
Q 004744          669 GFCR----QGRMHDSELILWRMIE  688 (732)
Q Consensus       669 ~~~~----~g~~~~A~~~~~~~~~  688 (732)
                      .|..    .|++++|..+|+++.+
T Consensus       227 ~~~~g~~~~~~~~~A~~~~~~a~~  250 (273)
T 1ouv_A          227 MQYNGEGVTRNEKQAIENFKKGCK  250 (273)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHH
T ss_pred             HHHcCCCcccCHHHHHHHHHHHHH
Confidence            6666    6777777777777766

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.63  E-value=7.5e-14  Score=137.34  Aligned_cols=249  Identities=12%  Similarity=0.047  Sum_probs=159.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHH
Q 004744          452 TYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPD--IVTYNTLIDG  529 (732)
Q Consensus       452 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li~~  529 (732)
                      .+......+...|++++|+..|+++.+..+. +...+..+...+...|++++|+..++.+.+....++  ...|..+...
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            3444556667777777777777777766433 444666677777777777777777777766321111  2336667777


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 004744          530 FCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKA  609 (732)
Q Consensus       530 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  609 (732)
                      +...|++++|.+.|++..+... .+...+..+...|...|++++|+..|++.++.. +.+...+..+...+...+++++|
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A  161 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKA  161 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777777776532 255677777777777778888877777777652 44566666666333344577788


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCC-CCCC------HHHHHHHHHHHHhcCCHHHH
Q 004744          610 DEFLSKMVSEGVDPDSISYNTLINGFVREEN---MDKAFALVSKMENQG-LVPD------VITYNVILTGFCRQGRMHDS  679 (732)
Q Consensus       610 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~g-~~p~------~~~~~~l~~~~~~~g~~~~A  679 (732)
                      .+.++++++.. +.+...+..+...+...|+   +++|...++++.+.. -.|+      ..+|..++..|...|++++|
T Consensus       162 ~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  240 (272)
T 3u4t_A          162 DSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKA  240 (272)
T ss_dssp             HHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            88777777643 2235666666777776676   677777777766521 1122      14666777777778888888


Q ss_pred             HHHHHHHHHcCCCCC-HHHHHHHHHHHH
Q 004744          680 ELILWRMIEKGLNPD-RSTYTTLINGHV  706 (732)
Q Consensus       680 ~~~~~~~~~~g~~p~-~~~~~~l~~~~~  706 (732)
                      ...++++++  +.|+ ...+..+.....
T Consensus       241 ~~~~~~al~--~~p~~~~a~~~l~~~~~  266 (272)
T 3u4t_A          241 DAAWKNILA--LDPTNKKAIDGLKMKLE  266 (272)
T ss_dssp             HHHHHHHHH--HCTTCHHHHHHHC----
T ss_pred             HHHHHHHHh--cCccHHHHHHHhhhhhc
Confidence            888888877  5664 455555544433

>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=99.62  E-value=6.3e-13  Score=130.79  Aligned_cols=225  Identities=10%  Similarity=-0.002  Sum_probs=165.1

Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHH----cCChHHHHHHHHHHHHcCCCCCHHHH
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVK----IGWVDLAREVYAEVVRSGIELNVYTL  243 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~  243 (732)
                      .++.++..++..|...|++++|+..|++..+.+   +..++..+...+..    .+++++|.+.|+++.+.+   +..++
T Consensus         4 ~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~   77 (273)
T 1ouv_A            4 QDPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC   77 (273)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            456677778888888888888888888888743   56777778888888    888888888888887764   66777


Q ss_pred             HHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHhhCCCCCCHhhHHH
Q 004744          244 NIMVNALCK----DHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCR----EGFLEEAFQLMNSMSGKGLKPGVFTYNS  315 (732)
Q Consensus       244 ~~l~~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~  315 (732)
                      ..+...|..    .+++++|...|++..+.+   +..++..+...|..    .|++++|++.|++..+.+   +..++..
T Consensus        78 ~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~  151 (273)
T 1ouv_A           78 HLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTI  151 (273)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHH
Confidence            777777877    888888888888877764   66777777777777    788888888888877764   5566677


Q ss_pred             HHHHHHh----cCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHc----CCCHhHHHHHHHHHHhCCCCCCHhHHHHHH
Q 004744          316 LINGLCK----KGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCR----KENMSEAEEIFCEMSRRGVAPDIVSFSTLI  387 (732)
Q Consensus       316 li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~  387 (732)
                      +...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|.+.|++..+.+   +...+..+.
T Consensus       152 lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~  225 (273)
T 1ouv_A          152 LGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLG  225 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHH
Confidence            7777776    777777777777777653   44566666667766    777777777777776654   355666666


Q ss_pred             HHHHh----CCCHHHHHHHHHHHHHCC
Q 004744          388 GIFSR----NGQLDRALMYFREMKSAG  410 (732)
Q Consensus       388 ~~~~~----~g~~~~A~~l~~~~~~~~  410 (732)
                      ..|..    .+++++|.+.|++..+.|
T Consensus       226 ~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          226 AMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            66666    667777777777666553

>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=99.62  E-value=6.7e-12  Score=137.07  Aligned_cols=216  Identities=6%  Similarity=-0.055  Sum_probs=104.3

Q ss_pred             HHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHH-HHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          435 LKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEAD-DLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQ  513 (732)
Q Consensus       435 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~-~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  513 (732)
                      ..+|++.+..-+ .....|...+..+.+.|+.++|. .+|+...... +.+...|...+....+.|+++.|..+|+.++.
T Consensus       329 ~~~Ye~aL~~~p-~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~  406 (679)
T 4e6h_A          329 TYVYMQAAQHVC-FAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEIETTILSCID  406 (679)
T ss_dssp             HHHHHHHHHHTT-TCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcC-CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            334444444322 24555555555555555555554 5555555432 22444445555555555556666655555543


Q ss_pred             CCC---------CC------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-CCH
Q 004744          514 KSI---------KP------------DIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSM-GHV  571 (732)
Q Consensus       514 ~~~---------~~------------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~  571 (732)
                      ...         .|            ...+|...+....+.|..+.|..+|.++.+.........|...+..-.+. ++.
T Consensus       407 ~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~  486 (679)
T 4e6h_A          407 RIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDT  486 (679)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCC
T ss_pred             HHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCH
Confidence            200         01            11234444555555555666666666655431111122222222222222 235


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          572 TEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDP--DSISYNTLINGFVREENMDKAFALVS  649 (732)
Q Consensus       572 ~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~  649 (732)
                      +.|..+|+..++. .+.+...+...+......|+.+.|+.+|++.+.....+  ....|...+..-.+.|+.+.+.++.+
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            5666666655554 33444455555555555566666666666655532211  12345555555555666666666666


Q ss_pred             HHHH
Q 004744          650 KMEN  653 (732)
Q Consensus       650 ~~~~  653 (732)
                      ++.+
T Consensus       566 R~~~  569 (679)
T 4e6h_A          566 RFFE  569 (679)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6655

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.62  E-value=9.9e-14  Score=136.46  Aligned_cols=235  Identities=11%  Similarity=0.009  Sum_probs=135.0

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 004744          119 MSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRN  198 (732)
Q Consensus       119 ~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  198 (732)
                      ..+...+..+...|++++|...|.+++..                  .+.+..++..++..|.+.|++++|+..|+++.+
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~------------------~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   65 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAK------------------KYNSPYIYNRRAVCYYELAKYDLAQKDIETYFS   65 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHT------------------TCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh------------------CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            34455666666777777777777776642                  233445666666777777777777777777766


Q ss_pred             CCC--ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH
Q 004744          199 KGI--CFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTV  276 (732)
Q Consensus       199 ~~~--~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  276 (732)
                      .+.  .....+|..+...+.+.|++++|.+.|+++++.. +.+..++..+...|...|++++|...|++..+.... +..
T Consensus        66 ~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~  143 (272)
T 3u4t_A           66 KVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTT-DPK  143 (272)
T ss_dssp             TSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCC-CHH
T ss_pred             ccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCC-cHH
Confidence            321  1123346666666777777777777777766653 445556666666666666666666666666655322 445


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCC---hhHHHHHHHHHHHCC-CCCC------HH
Q 004744          277 TYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGR---CDRAKEVLDEMLQMG-LSPD------TA  346 (732)
Q Consensus       277 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~g-~~~~------~~  346 (732)
                      +|..+...+...+++++|.+.|+++.+.... +...+..+...+...|+   +++|...++++.+.. -.|+      ..
T Consensus       144 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  222 (272)
T 3u4t_A          144 VFYELGQAYYYNKEYVKADSSFVKVLELKPN-IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIE  222 (272)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHH
Confidence            5555552333344666666666666654322 35555556666666665   555666666655421 0122      12


Q ss_pred             hHHHHHHHHHcCCCHhHHHHHHHHHHhC
Q 004744          347 TYNTLLVESCRKENMSEAEEIFCEMSRR  374 (732)
Q Consensus       347 ~~~~li~~~~~~g~~~~A~~~~~~~~~~  374 (732)
                      +|..+...|...|++++|.+.++++.+.
T Consensus       223 ~~~~l~~~~~~~~~~~~A~~~~~~al~~  250 (272)
T 3u4t_A          223 ANEYIAYYYTINRDKVKADAAWKNILAL  250 (272)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            4444555555555555555555555543

>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=99.61  E-value=2.6e-13  Score=131.80  Aligned_cols=201  Identities=16%  Similarity=0.045  Sum_probs=147.3

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      +.+|..++..|...|++++|+..|+++.+..+. +..++..+...+.+.|++++|.+.|+++++.. +.+..++..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPS-SADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            566778888888889999999999888877544 67788888888888888888888888887764 4566777777788


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhH
Q 004744          250 LCKDHKIDSAKMFLCEMEQKGVYP-DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDR  328 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  328 (732)
                      +...|++++|...++++.+.+..| +...+..++..+.+.|++++|.+.++++.+.... +...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN-QPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCCHHH
Confidence            888888888888888877622233 4556777777777788888888888777665322 56667777777777777777


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhC
Q 004744          329 AKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRR  374 (732)
Q Consensus       329 A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  374 (732)
                      |...++++.+.. +.+...+..+...+...|+.++|.+.++++.+.
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            777777776643 345556666666677777777777777766654

>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=99.61  E-value=2e-11  Score=133.27  Aligned_cols=475  Identities=11%  Similarity=0.057  Sum_probs=297.0

Q ss_pred             HcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC---hhH
Q 004744          182 QARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHK---IDS  258 (732)
Q Consensus       182 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~  258 (732)
                      +.....+-+..|++.+..++. |..+|..++..+.+.+.++.+..+|++++.. +|.....|...+..-.+.++   ++.
T Consensus        44 ~~~~~~d~i~~lE~~l~~np~-d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~  121 (679)
T 4e6h_A           44 RVRDESDVIGKLNDMIEEQPT-DIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAV  121 (679)
T ss_dssp             --CCCSCHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHH
T ss_pred             cccCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHH
Confidence            344567777788888888776 9999999999999999999999999999887 57788889999988888888   999


Q ss_pred             HHHHHHHHHhCCC-CCCHHHHHHHHHHHHHcCCH----HH----HHHHHHHHhh-CCC-CCC-HhhHHHHHHHHHh----
Q 004744          259 AKMFLCEMEQKGV-YPDTVTYNTLINAYCREGFL----EE----AFQLMNSMSG-KGL-KPG-VFTYNSLINGLCK----  322 (732)
Q Consensus       259 A~~~~~~~~~~g~-~p~~~~~~~li~~~~~~g~~----~~----A~~~~~~m~~-~g~-~p~-~~~~~~li~~~~~----  322 (732)
                      +..+|++...... .|++..|...+....+.++.    ++    ..++|+.... .|. .++ ...|...+.....    
T Consensus       122 v~~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~  201 (679)
T 4e6h_A          122 IEPVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPV  201 (679)
T ss_dssp             HHHHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCC
T ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhcccc
Confidence            9999999988741 37888888887766665553    33    3466666543 344 443 4566666654432    


Q ss_pred             -----cCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHH
Q 004744          323 -----KGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLD  397 (732)
Q Consensus       323 -----~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~  397 (732)
                           .++++.+..+|++++......-..+|..... +.+.-+...+.+++.+.                     ..+++
T Consensus       202 ~~~eeq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~-fe~~~~~~~a~~~~~e~---------------------~~~y~  259 (679)
T 4e6h_A          202 NKFEEQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQ-WEQDVNQLTARRHIGEL---------------------SAQYM  259 (679)
T ss_dssp             SHHHHHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHH-HHHHHCTTTHHHHHHHH---------------------HHHHH
T ss_pred             CcHHHHhHHHHHHHHHHHHHhCccHHHHHHHHHHHH-HHHhcCcchHHHHHHHh---------------------hHHHH
Confidence                 3345666677777664211111112221111 00000000111111110                     11233


Q ss_pred             HHHHHHHHHHHC--CCC---CCH-HHHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC------
Q 004744          398 RALMYFREMKSA--GLV---PDN-VLYTIIINGYCRNG-FVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAK------  464 (732)
Q Consensus       398 ~A~~l~~~~~~~--~~~---~~~-~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~------  464 (732)
                      .|...+.++...  ++.   |.. .+..  ....-..+ .....+               ..|...+..--..+      
T Consensus       260 ~Ar~~~~e~~~~~~~l~r~~p~~~~~~~--~~~~p~~~~~~~~ql---------------~lW~~yi~fEk~~~~~l~~~  322 (679)
T 4e6h_A          260 NARSLYQDWLNITKGLKRNLPITLNQAT--ESNLPKPNEYDVQQL---------------LIWLEWIRWESDNKLELSDD  322 (679)
T ss_dssp             HHHHHHHHHHHHTTTCCCCCCSSSTTCC--TTTSCCTTCCCHHHH---------------HHHHHHHHHHHTCTTCCCHH
T ss_pred             HHHHHHHHHHHHHHhHhhccccccccch--hccCCCCchhHHHHH---------------HHHHHHHHHHHhCCccccch
Confidence            333333332211  110   000 0000  00000000 001111               22333332211111      


Q ss_pred             -CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH-HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 004744          465 -MLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKAL-NLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKL  542 (732)
Q Consensus       465 -~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~-~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  542 (732)
                       ..+.+..+|++++...+. +...|...+..+...|+.++|. .+|+..... .+.+...|-..+....+.|+++.|.++
T Consensus       323 ~~~~Rv~~~Ye~aL~~~p~-~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~i  400 (679)
T 4e6h_A          323 LHKARMTYVYMQAAQHVCF-APEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETT  400 (679)
T ss_dssp             HHHHHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence             133456778888776443 7888888888888899999997 999999875 445677777888888999999999999


Q ss_pred             HHHHHHCCC---------CC------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 004744          543 WADMISRKI---------SP------------NYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYC  601 (732)
Q Consensus       543 ~~~~~~~~~---------~~------------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~  601 (732)
                      |+++++...         .|            ....|...+....+.|..+.|..+|..+++.-.......|...+..-.
T Consensus       401 yek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~  480 (679)
T 4e6h_A          401 ILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEY  480 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence            999886410         12            123677778887888999999999999987611223444544444434


Q ss_pred             Hc-CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHH
Q 004744          602 RS-GDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVP--DVITYNVILTGFCRQGRMHD  678 (732)
Q Consensus       602 ~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p--~~~~~~~l~~~~~~~g~~~~  678 (732)
                      +. ++.+.|.++|+..++. .+.+...|...++.....|+.+.|..+|++++.....+  ....|...+.--.+.|+.+.
T Consensus       481 ~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~  559 (679)
T 4e6h_A          481 HISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNS  559 (679)
T ss_dssp             TTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHH
T ss_pred             HhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            44 4589999999999885 33456667788888888999999999999999853222  23577777777778899999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHH
Q 004744          679 SELILWRMIEKGLNPDRSTYTTLI  702 (732)
Q Consensus       679 A~~~~~~~~~~g~~p~~~~~~~l~  702 (732)
                      +..+.+++.+  ..|+......++
T Consensus       560 ~~~v~~R~~~--~~P~~~~~~~f~  581 (679)
T 4e6h_A          560 VRTLEKRFFE--KFPEVNKLEEFT  581 (679)
T ss_dssp             HHHHHHHHHH--HSTTCCHHHHHH
T ss_pred             HHHHHHHHHH--hCCCCcHHHHHH
Confidence            9999999998  555543333343

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.60  E-value=5.9e-14  Score=135.39  Aligned_cols=201  Identities=13%  Similarity=0.080  Sum_probs=135.7

Q ss_pred             ChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHH
Q 004744          117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLL  196 (732)
Q Consensus       117 ~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  196 (732)
                      ++.+|..++..+...|++++|...|.+++.                  ..+.+..++..++..|.+.|++++|+..|+++
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~------------------~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~   83 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIE------------------ENKEDAIPYINFANLLSSVNELERALAFYDKA   83 (243)
T ss_dssp             --------------------CCTTHHHHHT------------------TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHH------------------hCcccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            456677777788888888888888888763                  24455777888888888888888888888888


Q ss_pred             HHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH
Q 004744          197 RNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTV  276 (732)
Q Consensus       197 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  276 (732)
                      .+..+. +..++..+...+...|++++|.+.|+++.+.. +.+...+..+...+.+.|++++|...++++.+.... +..
T Consensus        84 ~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~  160 (243)
T 2q7f_A           84 LELDSS-AATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNEN-DTE  160 (243)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTT-CHH
T ss_pred             HHcCCc-chHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc-cHH
Confidence            776554 67778888888888888888888888887764 556677777777888888888888888887766432 566


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 004744          277 TYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQM  339 (732)
Q Consensus       277 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  339 (732)
                      .+..++..+.+.|++++|.+.++++..... .+..++..+...|.+.|++++|...++++.+.
T Consensus       161 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          161 ARFQFGMCLANEGMLDEALSQFAAVTEQDP-GHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHHHTCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            777777777778888888888877766532 25667777777777777777777777777765

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.60  E-value=4.4e-13  Score=127.41  Aligned_cols=205  Identities=10%  Similarity=-0.032  Sum_probs=155.7

Q ss_pred             CCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 004744          167 GSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIM  246 (732)
Q Consensus       167 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  246 (732)
                      +.++.+|..++..|...|++++|+..|+++.+..+. +...+..+...+...|++++|.+.|+++++.. +.+..++..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   82 (225)
T 2vq2_A            5 NQVSNIKTQLAMEYMRGQDYRQATASIEDALKSDPK-NELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHH
Confidence            445778888889999999999999999998887654 67788888888889999999999999888764 5567788888


Q ss_pred             HHHHHhc-CChhHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcC
Q 004744          247 VNALCKD-HKIDSAKMFLCEMEQKGVYPD-TVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKG  324 (732)
Q Consensus       247 ~~~~~~~-g~~~~A~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  324 (732)
                      +..+... |++++|...++++.+.+..|+ ...+..+...+.+.|++++|.+.++++.+.... +...+..+...+.+.|
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~  161 (225)
T 2vq2_A           83 GWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-FPPAFKELARTKMLAG  161 (225)
T ss_dssp             HHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CchHHHHHHHHHHHcC
Confidence            8888888 888888888888887322333 566777888888888888888888887765332 5677777777788888


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhC
Q 004744          325 RCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRR  374 (732)
Q Consensus       325 ~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  374 (732)
                      ++++|...++++.+.....+...+..+...+...|+.++|..+++.+.+.
T Consensus       162 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          162 QLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             CHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            88888888877776531145556666666667777777777777776643

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.60  E-value=5.3e-14  Score=138.63  Aligned_cols=245  Identities=9%  Similarity=-0.056  Sum_probs=167.7

Q ss_pred             hcCCHHHHHHHHHHHHHcCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004744          462 RAKMLTEADDLFNEMLERGVF---PDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEK  538 (732)
Q Consensus       462 ~~~~~~~A~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  538 (732)
                      ..|++++|+..|+++.+....   .+..++..+...+...|++++|...|+++.+... .+...+..+...|...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHccCHHH
Confidence            346677777777777665321   1345666777777777777777777777776533 256777777777888888888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 004744          539 ANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVS  618 (732)
Q Consensus       539 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  618 (732)
                      |...|+++.+.. +.+...+..+...|...|++++|...|+++.+.  .|+.......+..+...|++++|...+++...
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            888888777753 235677777888888888888888888888775  33333333444455666888888888877766


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 004744          619 EGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPD-----VITYNVILTGFCRQGRMHDSELILWRMIEKGLNP  693 (732)
Q Consensus       619 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p  693 (732)
                      .. +++...+ .++..+...++.++|...++++.+.  .|+     ..+|..++..|.+.|++++|...|+++++  ..|
T Consensus       173 ~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p  246 (275)
T 1xnf_A          173 KS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATD--NTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA--NNV  246 (275)
T ss_dssp             HS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCS--HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCC
T ss_pred             cC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcc--cccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHh--CCc
Confidence            42 2333333 3666677778888888888887763  232     46778888888899999999999999988  666


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHH
Q 004744          694 DRSTYTTLINGHVSQNNLKEAFRFH  718 (732)
Q Consensus       694 ~~~~~~~l~~~~~~~g~~~~A~~~~  718 (732)
                      +.  +.....++...|++++|.+.+
T Consensus       247 ~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          247 HN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             TT--CHHHHHHHHHHHHHHHC----
T ss_pred             hh--HHHHHHHHHHHHHHHhhHHHH
Confidence            43  223355677888888887765

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.59  E-value=7.2e-14  Score=134.78  Aligned_cols=213  Identities=10%  Similarity=0.008  Sum_probs=158.3

Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMV  247 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  247 (732)
                      ..+..|..++..+.+.|++++|+..|+++.+..+. +...+..+...+.+.|++++|.+.|+++++.. +.+..++..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKE-DAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHH
Confidence            45677888899999999999999999999987655 78899999999999999999999999998875 56788888899


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChh
Q 004744          248 NALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCD  327 (732)
Q Consensus       248 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  327 (732)
                      ..+...|++++|...++++.+.... +...+..++..+.+.|++++|.+.++++.+... .+...+..+...+.+.|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAGME-NGDLFYMLGTVLVKLEQPKLALPYLQRAVELNE-NDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHTCC-SHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHcCCHH
Confidence            9999999999999999998887533 677888889999999999999999999887643 36778888888899999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHH
Q 004744          328 RAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTL  386 (732)
Q Consensus       328 ~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l  386 (732)
                      +|...++++.+.. +.+..++..+...+...|++++|.+.++++.+.... +...+..+
T Consensus       177 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~  233 (243)
T 2q7f_A          177 EALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPD-HMLALHAK  233 (243)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcc-hHHHHHHH
Confidence            9999998888764 445677888888888888888888888888775432 44444433

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.59  E-value=4e-14  Score=139.50  Aligned_cols=248  Identities=10%  Similarity=-0.083  Sum_probs=182.8

Q ss_pred             HHcCChHHHHHHHHHHHHCCC---ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChh
Q 004744          181 VQARKLREGSEVFRLLRNKGI---CFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKID  257 (732)
Q Consensus       181 ~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  257 (732)
                      ...|++++|+..|+++.+...   ..+..++..+...+...|++++|.+.|+++++.. +.+..++..++..+...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            345789999999999988643   1246788889999999999999999999998875 667888999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 004744          258 SAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEML  337 (732)
Q Consensus       258 ~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  337 (732)
                      +|...|+++.+.... +..++..+...|.+.|++++|.+.|+++.+..  |+.......+..+...|++++|...+.+..
T Consensus        95 ~A~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           95 AAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            999999999887433 67788899999999999999999999998753  444444445555677789999999998877


Q ss_pred             HCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCC---CHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCC
Q 004744          338 QMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAP---DIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPD  414 (732)
Q Consensus       338 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~---~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~  414 (732)
                      ... +++...+ .++..+...++.++|.+.+.+..+.....   +...+..+...+...|++++|...|+++.+..  |+
T Consensus       172 ~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~  247 (275)
T 1xnf_A          172 EKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VH  247 (275)
T ss_dssp             HHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CT
T ss_pred             hcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--ch
Confidence            653 3343344 36677777888888888888876543210   14667777788888888888888888877653  32


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHH
Q 004744          415 NVLYTIIINGYCRNGFVLEALKMR  438 (732)
Q Consensus       415 ~~~~~~li~~~~~~g~~~~A~~~~  438 (732)
                      .  +.....++...|++++|++.+
T Consensus       248 ~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          248 N--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             T--CHHHHHHHHHHHHHHHC----
T ss_pred             h--HHHHHHHHHHHHHHHhhHHHH
Confidence            1  222244556666777666554

>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=99.59  E-value=3.2e-13  Score=131.07  Aligned_cols=202  Identities=9%  Similarity=-0.065  Sum_probs=177.1

Q ss_pred             hHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 004744          118 SMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLR  197 (732)
Q Consensus       118 ~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  197 (732)
                      +.+|..++..+...|++++|...|.+++..                  .+.+..++..++..|.+.|++++|++.|+++.
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~------------------~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~   98 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEI------------------DPSSADAHAALAVVFQTEMEPKLADEEYRKAL   98 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHH------------------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhc------------------CCChHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            466778888999999999999999999853                  34457889999999999999999999999999


Q ss_pred             HCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH
Q 004744          198 NKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGI-ELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTV  276 (732)
Q Consensus       198 ~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  276 (732)
                      +..+. +...+..+...+...|++++|.++|+++.+.+. +.+...+..++..+.+.|++++|...++++.+.... +..
T Consensus        99 ~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~  176 (252)
T 2ho1_A           99 ASDSR-NARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN-QPS  176 (252)
T ss_dssp             HHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHH
T ss_pred             HHCcC-cHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-cHH
Confidence            88655 788999999999999999999999999987322 446678888999999999999999999999887533 678


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 004744          277 TYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMG  340 (732)
Q Consensus       277 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  340 (732)
                      ++..++..|.+.|++++|.+.++.+.+... .+...+..+...+...|+.++|.+.++++.+..
T Consensus       177 ~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          177 VALEMADLLYKEREYVPARQYYDLFAQGGG-QNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            899999999999999999999999988643 477888999999999999999999999998863

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.57  E-value=4.4e-13  Score=127.42  Aligned_cols=211  Identities=12%  Similarity=-0.033  Sum_probs=180.6

Q ss_pred             CChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHH
Q 004744          116 HSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRL  195 (732)
Q Consensus       116 ~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  195 (732)
                      .++.+|..++..+...|++++|...+.+++..                  .+.+..++..++..|...|++++|++.|++
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~------------------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~   67 (225)
T 2vq2_A            6 QVSNIKTQLAMEYMRGQDYRQATASIEDALKS------------------DPKNELAWLVRAEIYQYLKVNDKAQESFRQ   67 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh------------------CccchHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            35778899999999999999999999999853                  344577899999999999999999999999


Q ss_pred             HHHCCCccCHHHHHHHHHHHHHc-CChHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC
Q 004744          196 LRNKGICFSINACNSLLGGLVKI-GWVDLAREVYAEVVRSGI-ELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYP  273 (732)
Q Consensus       196 ~~~~~~~~~~~~~~~ll~~~~~~-g~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p  273 (732)
                      +.+..+. +..++..+...+... |++++|.+.|+++++.+. +.+..++..+...+.+.|++++|...++++.+.... 
T Consensus        68 a~~~~~~-~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-  145 (225)
T 2vq2_A           68 ALSIKPD-SAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-  145 (225)
T ss_dssp             HHHHCTT-CHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-
T ss_pred             HHHhCCC-ChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-
Confidence            9987655 788999999999999 999999999999988322 334678889999999999999999999999887433 


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhH
Q 004744          274 DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATY  348 (732)
Q Consensus       274 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~  348 (732)
                      +...+..++..+.+.|++++|.+.++++.+.....+...+..+...+...|+.++|..+++.+.+.  .|+....
T Consensus       146 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~  218 (225)
T 2vq2_A          146 FPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEEL  218 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             CchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHH
Confidence            578899999999999999999999999988644247778888888899999999999999998764  3544433

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.57  E-value=6.9e-14  Score=146.91  Aligned_cols=202  Identities=14%  Similarity=0.085  Sum_probs=124.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC----C-CCCCHHHHHHHHHHHHhcCC-----------------HHHHHHHHH
Q 004744          522 TYNTLIDGFCKVGEMEKANKLWADMISR----K-ISPNYISYGILINGYCSMGH-----------------VTEAFRLWY  579 (732)
Q Consensus       522 ~~~~li~~~~~~g~~~~A~~~~~~~~~~----~-~~~~~~~~~~li~~~~~~g~-----------------~~~A~~~~~  579 (732)
                      .+..+...|...|++++|...+++..+.    + .+....++..+...|...|+                 +++|++.++
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~  207 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQ  207 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            3444444455555555555555444332    0 01122345555566666666                 666666666


Q ss_pred             HHHhC----CC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          580 EMVGK----GI-KPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGV-DPD----SISYNTLINGFVREENMDKAFALVS  649 (732)
Q Consensus       580 ~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~g~~~~A~~~~~  649 (732)
                      +..+.    +. +....++..+...|...|++++|.+.+++..+... .++    ...+..+...|...|++++|...++
T Consensus       208 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  287 (411)
T 4a1s_A          208 ENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYK  287 (411)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            55432    11 11234666677777788888888888877765310 011    2366777788888888888888888


Q ss_pred             HHHHCC----CC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          650 KMENQG----LV-PDVITYNVILTGFCRQGRMHDSELILWRMIEK----GLNP-DRSTYTTLINGHVSQNNLKEAFRFHD  719 (732)
Q Consensus       650 ~~~~~g----~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~  719 (732)
                      ++.+..    .. ....++..++..+...|++++|..+++++++.    +..+ ...++..++.+|...|++++|.++++
T Consensus       288 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  367 (411)
T 4a1s_A          288 RTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAE  367 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            776521    00 01356777888888888888888888888751    1111 13477788888888888888888888


Q ss_pred             HHHH
Q 004744          720 EMLQ  723 (732)
Q Consensus       720 ~m~~  723 (732)
                      +.++
T Consensus       368 ~al~  371 (411)
T 4a1s_A          368 QHLQ  371 (411)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.54  E-value=4.9e-13  Score=140.01  Aligned_cols=99  Identities=13%  Similarity=0.088  Sum_probs=54.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-C
Q 004744          414 DNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMD----VVTYNTILNGLCRAKMLTEADDLFNEMLER----GVFP-D  484 (732)
Q Consensus       414 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~A~~~~~~~~~~----~~~~-~  484 (732)
                      ....+......+...|++++|+..+++..+.... +    ...+..+...+...|++++|...++++.+.    +..| .
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~   86 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGE   86 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHH
Confidence            3444555566666666666666666666665332 2    234555666666666666666666655432    1111 1


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          485 FYTFTTLIHGHCKDGNMNKALNLFDIMTQ  513 (732)
Q Consensus       485 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~  513 (732)
                      ..++..+...+...|++++|...++++.+
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  115 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRHLD  115 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            23445555555556666666666655554

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.53  E-value=4.3e-13  Score=136.19  Aligned_cols=267  Identities=13%  Similarity=0.033  Sum_probs=162.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CCCHHHHHHHH
Q 004744          457 LNGLCRAKMLTEADDLFNEMLERGVFPD----FYTFTTLIHGHCKDGNMNKALNLFDIMTQK----SI-KPDIVTYNTLI  527 (732)
Q Consensus       457 i~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~~~~~~li  527 (732)
                      ...+...|++++|...|+++.+.... +    ...+..+...+...|++++|...++++...    +. +.....+..+.
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            33344445555555555444443221 1    133444444455555555555554443321    00 01133444555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCC--------------------HHHHHHHHHHHH
Q 004744          528 DGFCKVGEMEKANKLWADMISRKI-SPN----YISYGILINGYCSMGH--------------------VTEAFRLWYEMV  582 (732)
Q Consensus       528 ~~~~~~g~~~~A~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~g~--------------------~~~A~~~~~~~~  582 (732)
                      ..+...|++++|...+++..+... .++    ..++..+...|...|+                    +++|...+++..
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            555566666666666655543210 001    2255566666666666                    677777666654


Q ss_pred             hC----CC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          583 GK----GI-KPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGV-DPD----SISYNTLINGFVREENMDKAFALVSKME  652 (732)
Q Consensus       583 ~~----~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~  652 (732)
                      ..    +. +....++..+...+...|++++|.+.+++..+... .++    ..++..+...+...|++++|...+++..
T Consensus       171 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  250 (338)
T 3ro2_A          171 SLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTL  250 (338)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            32    11 11234677777888888999998888888765310 111    3367788888999999999999999887


Q ss_pred             HC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          653 NQ----GLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEK----GLNP-DRSTYTTLINGHVSQNNLKEAFRFHDEML  722 (732)
Q Consensus       653 ~~----g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  722 (732)
                      +.    +..+ ...++..++..+...|++++|...++++.+.    +..+ ...++..++.+|...|++++|.+.+++++
T Consensus       251 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  330 (338)
T 3ro2_A          251 LLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHL  330 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            52    1111 1457788889999999999999999998762    1111 14578889999999999999999999998


Q ss_pred             HC
Q 004744          723 QR  724 (732)
Q Consensus       723 ~~  724 (732)
                      +.
T Consensus       331 ~~  332 (338)
T 3ro2_A          331 EI  332 (338)
T ss_dssp             HC
T ss_pred             HH
Confidence            63

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.52  E-value=1.8e-12  Score=118.93  Aligned_cols=172  Identities=13%  Similarity=0.026  Sum_probs=146.6

Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMV  247 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  247 (732)
                      .++.+|..|+..|.+.|++++|++.|+++++..+. +..++..+..++.+.|++++|...+..+.... +.+...+..+.
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~   80 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILG   80 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHH
Confidence            45778999999999999999999999999988776 88899999999999999999999999988765 66777888888


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChh
Q 004744          248 NALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCD  327 (732)
Q Consensus       248 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  327 (732)
                      ..+...++++.|...+.+..+.... +..++..+...|.+.|++++|++.|++..+.... +..+|..+...|.+.|+++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG-FIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch-hhhHHHHHHHHHHHCCCHH
Confidence            8899999999999999998877543 6778888899999999999999999998876443 6788888999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCH
Q 004744          328 RAKEVLDEMLQMGLSPDT  345 (732)
Q Consensus       328 ~A~~~~~~~~~~g~~~~~  345 (732)
                      +|...|++.++.  .|+.
T Consensus       159 ~A~~~~~~al~~--~p~~  174 (184)
T 3vtx_A          159 EAVKYFKKALEK--EEKK  174 (184)
T ss_dssp             HHHHHHHHHHHT--THHH
T ss_pred             HHHHHHHHHHhC--CccC
Confidence            999999998875  4543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.52  E-value=3.2e-13  Score=141.38  Aligned_cols=238  Identities=16%  Similarity=0.052  Sum_probs=151.0

Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccC----HHHHHHHHHHHHHcCChHHHHHHHHHHHHc----CC-CC
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFS----INACNSLLGGLVKIGWVDLAREVYAEVVRS----GI-EL  238 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~-~~  238 (732)
                      .....+..++..+...|++++|+..|+++.+.++. +    ..++..+...+...|++++|...|++++..    +. +.
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            45667778889999999999999999999887554 3    357888889999999999999999987653    11 12


Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHHcCC--------------------HHH
Q 004744          239 NVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVY-PD----TVTYNTLINAYCREGF--------------------LEE  293 (732)
Q Consensus       239 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~-p~----~~~~~~li~~~~~~g~--------------------~~~  293 (732)
                      ...++..+...+...|++++|...+++..+.... ++    ..++..+...|...|+                    +++
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            2456777888888889999988888877654110 11    3467777788888888                    777


Q ss_pred             HHHHHHHHhhC----CCC-CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC-CCC----HHhHHHHHHHHHcCCCHhH
Q 004744          294 AFQLMNSMSGK----GLK-PGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGL-SPD----TATYNTLLVESCRKENMSE  363 (732)
Q Consensus       294 A~~~~~~m~~~----g~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~-~~~----~~~~~~li~~~~~~g~~~~  363 (732)
                      |.+.+++....    +.. ....++..+...|...|++++|...+++..+... .++    ..++..+...+...|++++
T Consensus       166 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  245 (406)
T 3sf4_A          166 AVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFET  245 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHH
Confidence            77777765432    111 1133566666667777777777777766653210 011    1245555555666666666


Q ss_pred             HHHHHHHHHhCCCC-CC----HhHHHHHHHHHHhCCCHHHHHHHHHHH
Q 004744          364 AEEIFCEMSRRGVA-PD----IVSFSTLIGIFSRNGQLDRALMYFREM  406 (732)
Q Consensus       364 A~~~~~~~~~~g~~-~~----~~~~~~l~~~~~~~g~~~~A~~l~~~~  406 (732)
                      |.+.+++..+.... ++    ..++..+...+...|++++|...+++.
T Consensus       246 A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  293 (406)
T 3sf4_A          246 ASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKH  293 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHH
Confidence            66665554421000 00    234444555555555555555555444

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.51  E-value=5.2e-13  Score=140.21  Aligned_cols=236  Identities=16%  Similarity=0.072  Sum_probs=149.7

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCH----HHHHHHHHHHHHcCChHHHHHHHHHHHHc----C-CCCCH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSI----NACNSLLGGLVKIGWVDLAREVYAEVVRS----G-IELNV  240 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~-~~~~~  240 (732)
                      ...+..++..+...|++++|+..|+++.+.++. +.    .++..+...+...|++++|.+.|+++++.    + .+...
T Consensus        48 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  126 (411)
T 4a1s_A           48 CLELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEA  126 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHH
Confidence            344556788899999999999999999987654 43    57888899999999999999999988763    1 13344


Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHHcCC-----------------HHHHHHHH
Q 004744          241 YTLNIMVNALCKDHKIDSAKMFLCEMEQKG-----VYPDTVTYNTLINAYCREGF-----------------LEEAFQLM  298 (732)
Q Consensus       241 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g-----~~p~~~~~~~li~~~~~~g~-----------------~~~A~~~~  298 (732)
                      .++..+...|...|++++|...++++.+..     ......++..+...|...|+                 +++|++.+
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            577788888888999999988888876541     11124467777888888888                 77777777


Q ss_pred             HHHhhC----CC-CCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC-CC----HHhHHHHHHHHHcCCCHhHHHHHH
Q 004744          299 NSMSGK----GL-KPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLS-PD----TATYNTLLVESCRKENMSEAEEIF  368 (732)
Q Consensus       299 ~~m~~~----g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~-~~----~~~~~~li~~~~~~g~~~~A~~~~  368 (732)
                      ++..+.    +. .....++..+...|...|++++|...+++..+.... .+    ..++..+...|...|++++|.+.+
T Consensus       207 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  286 (411)
T 4a1s_A          207 QENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHY  286 (411)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            765432    10 112235666666666777777777776666542100 01    114455555555666666666555


Q ss_pred             HHHHhCCCC-----CCHhHHHHHHHHHHhCCCHHHHHHHHHHH
Q 004744          369 CEMSRRGVA-----PDIVSFSTLIGIFSRNGQLDRALMYFREM  406 (732)
Q Consensus       369 ~~~~~~g~~-----~~~~~~~~l~~~~~~~g~~~~A~~l~~~~  406 (732)
                      ++..+....     ....++..+...+...|++++|...+++.
T Consensus       287 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  329 (411)
T 4a1s_A          287 KRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRH  329 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            554332100     01233444445555555555555555444

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.50  E-value=5.1e-12  Score=126.62  Aligned_cols=219  Identities=8%  Similarity=-0.061  Sum_probs=171.5

Q ss_pred             hHHHHHHHhHHhhCCCCCCChHHHHHHHHHHH-------hCCCh-------HHHHHHHHHHHHhcCCChhHHHHhhhhhc
Q 004744           98 QVGQRFIDFIALNFPNVKHSSMSLSAMIHFLV-------RGRRI-------SDAQALILRMVRKSGVSRLEIVDSFVSTY  163 (732)
Q Consensus        98 ~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~-------~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  163 (732)
                      +.|...|+.+....|+   ++..|..++..+.       +.|++       ++|...|++++..                
T Consensus        33 ~~a~~~~~~al~~~p~---~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~----------------   93 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGH---HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST----------------   93 (308)
T ss_dssp             HHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTT----------------
T ss_pred             HHHHHHHHHHHHHcCC---CHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHH----------------
Confidence            3467788887776654   7889999888876       35886       8999999998731                


Q ss_pred             CCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHH-HHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH
Q 004744          164 SPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSIN-ACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYT  242 (732)
Q Consensus       164 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  242 (732)
                       ..+.+..+|..++..+.+.|++++|..+|+++++..+. +.. .|..++..+.+.|++++|..+|+++++.. +.+...
T Consensus        94 -~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~  170 (308)
T 2ond_A           94 -LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHV  170 (308)
T ss_dssp             -TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHH
T ss_pred             -hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHH
Confidence             24566788999999999999999999999999987554 343 89999999999999999999999998764 445555


Q ss_pred             HHHHHHHHH-hcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCC-CCC--CHhhHHHHHH
Q 004744          243 LNIMVNALC-KDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKG-LKP--GVFTYNSLIN  318 (732)
Q Consensus       243 ~~~l~~~~~-~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p--~~~~~~~li~  318 (732)
                      |...+.... ..|++++|..+|++..+..+. +...|..++..+.+.|++++|..+|++..... +.|  ....|..++.
T Consensus       171 ~~~~a~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~  249 (308)
T 2ond_A          171 YVTAALMEYYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLA  249 (308)
T ss_dssp             HHHHHHHHHHTSCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHH
Confidence            554443322 368999999999988876432 67788888888888899999999999988863 344  4567888888


Q ss_pred             HHHhcCChhHHHHHHHHHHHC
Q 004744          319 GLCKKGRCDRAKEVLDEMLQM  339 (732)
Q Consensus       319 ~~~~~g~~~~A~~~~~~~~~~  339 (732)
                      .+.+.|+.++|..+++++.+.
T Consensus       250 ~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          250 FESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            888889999999888888775

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.50  E-value=1.5e-11  Score=123.06  Aligned_cols=217  Identities=9%  Similarity=-0.027  Sum_probs=124.7

Q ss_pred             HHHHHHHHHHHHCCCccCHHHHHHHHHHHHH-------cCCh-------HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004744          187 REGSEVFRLLRNKGICFSINACNSLLGGLVK-------IGWV-------DLAREVYAEVVRSGIELNVYTLNIMVNALCK  252 (732)
Q Consensus       187 ~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~-------~g~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  252 (732)
                      ++|+.+|+++++..+. +...|..++..+.+       .|++       ++|..+|+++++.-.+.+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~p~-~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGH-HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            6777888888776554 67777777776653       4664       6777777777662124455566666666666


Q ss_pred             cCChhHHHHHHHHHHhCCCCCC-HH-HHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHH-hcCChhHH
Q 004744          253 DHKIDSAKMFLCEMEQKGVYPD-TV-TYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLC-KKGRCDRA  329 (732)
Q Consensus       253 ~g~~~~A~~~~~~~~~~g~~p~-~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~-~~g~~~~A  329 (732)
                      .|++++|..+|+++.+.  .|+ .. +|..++..+.+.|++++|.++|++..+.+. ++...|...+.... ..|+.++|
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHH
Confidence            77777777777776664  232 22 566666666666666666666666665432 23333332222211 24666666


Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCC-CCC--CHhHHHHHHHHHHhCCCHHHHHHHHHHH
Q 004744          330 KEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRG-VAP--DIVSFSTLIGIFSRNGQLDRALMYFREM  406 (732)
Q Consensus       330 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g-~~~--~~~~~~~l~~~~~~~g~~~~A~~l~~~~  406 (732)
                      ..+|++.++.. +.+...|..++..+.+.|+.++|..+|++..... +.|  ....|..++....+.|+.+.|..+++++
T Consensus       189 ~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          189 FKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            66666655432 2244455555555555566666666665555532 222  2445555555555555555555555555


Q ss_pred             HH
Q 004744          407 KS  408 (732)
Q Consensus       407 ~~  408 (732)
                      .+
T Consensus       268 ~~  269 (308)
T 2ond_A          268 FT  269 (308)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.48  E-value=7.2e-12  Score=114.88  Aligned_cols=164  Identities=14%  Similarity=0.101  Sum_probs=77.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004744          520 IVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKG  599 (732)
Q Consensus       520 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  599 (732)
                      ..+|..+...|.+.|++++|++.|++.++..+ .+...+..+...|.+.|++++|+..+....... +.+...+..+...
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLKADP-NNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            34444555555555555555555555544422 244444455555555555555555555444432 3334444444444


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHH
Q 004744          600 YCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHD  678 (732)
Q Consensus       600 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~  678 (732)
                      +...++++.|.+.+.+..... +.+...+..+...+.+.|++++|++.++++.+.  .| +..+|..++.+|.+.|++++
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISI--KPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHh--cchhhhHHHHHHHHHHHCCCHHH
Confidence            445555555555554444421 123344444444455555555555555554442  22 33344444445555555555


Q ss_pred             HHHHHHHHHH
Q 004744          679 SELILWRMIE  688 (732)
Q Consensus       679 A~~~~~~~~~  688 (732)
                      |...|+++++
T Consensus       160 A~~~~~~al~  169 (184)
T 3vtx_A          160 AVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            5555555544

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.48  E-value=1.1e-12  Score=133.06  Aligned_cols=200  Identities=17%  Similarity=0.043  Sum_probs=127.3

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccC----HHHHHHHHHHHHHcCChHHHHHHHHHHHHc----CC-CCCHH
Q 004744          171 LIFDLVIRTYVQARKLREGSEVFRLLRNKGICFS----INACNSLLGGLVKIGWVDLAREVYAEVVRS----GI-ELNVY  241 (732)
Q Consensus       171 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~  241 (732)
                      ..+...+..+...|++++|+..|+++.+..+. +    ...+..+...+...|++++|.+.++++++.    +. +....
T Consensus         6 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   84 (338)
T 3ro2_A            6 LELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAK   84 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHH
Confidence            34556678889999999999999999887544 3    467788889999999999999999887653    11 22245


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHHcCC--------------------HHHHHH
Q 004744          242 TLNIMVNALCKDHKIDSAKMFLCEMEQKGVY-PD----TVTYNTLINAYCREGF--------------------LEEAFQ  296 (732)
Q Consensus       242 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~-p~----~~~~~~li~~~~~~g~--------------------~~~A~~  296 (732)
                      ++..+...+...|++++|...+++..+.... ++    ..++..+...|...|+                    +++|.+
T Consensus        85 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~  164 (338)
T 3ro2_A           85 ASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVD  164 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHH
Confidence            6777788888888888888888876553110 12    3366777777777888                    777777


Q ss_pred             HHHHHhhC----CC-CCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC-CCC----HHhHHHHHHHHHcCCCHhHHHH
Q 004744          297 LMNSMSGK----GL-KPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGL-SPD----TATYNTLLVESCRKENMSEAEE  366 (732)
Q Consensus       297 ~~~~m~~~----g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~-~~~----~~~~~~li~~~~~~g~~~~A~~  366 (732)
                      .+++....    +. .....++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|.+
T Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  244 (338)
T 3ro2_A          165 LYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASE  244 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            77665431    10 11123455566666666666666666666543200 001    1144444455555555555555


Q ss_pred             HHHHH
Q 004744          367 IFCEM  371 (732)
Q Consensus       367 ~~~~~  371 (732)
                      .+++.
T Consensus       245 ~~~~a  249 (338)
T 3ro2_A          245 YYKKT  249 (338)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55444

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.47  E-value=4.6e-12  Score=131.45  Aligned_cols=230  Identities=8%  Similarity=-0.023  Sum_probs=167.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC------CCCHHHHH
Q 004744          491 LIHGHCKDGNMNKALNLFDIMTQK----SIKP-DIVTYNTLIDGFCKVGEMEKANKLWADMISRKI------SPNYISYG  559 (732)
Q Consensus       491 li~~~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~------~~~~~~~~  559 (732)
                      ....+...|++++|+..+++..+.    +-.+ ...++..+...|...|++++|...+.+..+...      .....+++
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            455567778888888888877653    1111 235667777788888888888888887765311      11234677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CC-CCCHHHHH
Q 004744          560 ILINGYCSMGHVTEAFRLWYEMVGKGI-KPT----LVSCNTIIKGYCRSGDASKADEFLSKMVSE----GV-DPDSISYN  629 (732)
Q Consensus       560 ~li~~~~~~g~~~~A~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~~~~~  629 (732)
                      .+...|...|++++|+..|++..+... .++    ..++..+...|...|++++|++.+++..+.    +. +....++.
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            788888999999999999888775310 011    247788888999999999999999998772    22 33466788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCC---CCCC-HHHHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCC-HHHHHHH
Q 004744          630 TLINGFVREENMDKAFALVSKMENQG---LVPD-VITYNVILTGFCRQGR---MHDSELILWRMIEKGLNPD-RSTYTTL  701 (732)
Q Consensus       630 ~li~~~~~~g~~~~A~~~~~~~~~~g---~~p~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~g~~p~-~~~~~~l  701 (732)
                      .+...|.+.|++++|...+++..+..   -.|. ...+..+...+...|+   +++|..++++.   +..|+ ...+..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHH
Confidence            89999999999999999999887621   0121 2335667788888888   77777777766   24443 4678889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 004744          702 INGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       702 ~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      +..|...|++++|..++++.++
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999999875

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.47  E-value=1.9e-12  Score=137.86  Aligned_cols=209  Identities=11%  Similarity=-0.004  Sum_probs=132.5

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 004744          501 MNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEM-EKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWY  579 (732)
Q Consensus       501 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  579 (732)
                      +++++..++...... +.+...+..+...+...|++ ++|++.|++.++... .+...|..+...|...|++++|+..|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEP-ELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            444555555444332 23555566666666666666 666666666665532 245566666666666666666666666


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHc---------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc--------CCHH
Q 004744          580 EMVGKGIKPTLVSCNTIIKGYCRS---------GDASKADEFLSKMVSEGVDPDSISYNTLINGFVRE--------ENMD  642 (732)
Q Consensus       580 ~~~~~~~~~~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~--------g~~~  642 (732)
                      +.++.  .|+...+..+...|...         |++++|++.++++++.. +.+...|..+..+|...        |+++
T Consensus       162 ~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            66655  34456666666666666         67777777777766643 22456666666666666        6777


Q ss_pred             HHHHHHHHHHHCCCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHH
Q 004744          643 KAFALVSKMENQGLVP----DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-RSTYTTLINGHVSQNNLKEAFRF  717 (732)
Q Consensus       643 ~A~~~~~~~~~~g~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~  717 (732)
                      +|+..|+++.+  +.|    +...|..++.+|...|++++|...|+++.+  +.|+ ...+..+..++...|++++|.+.
T Consensus       239 ~A~~~~~~al~--~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--l~p~~~~a~~~l~~~~~~lg~~~eAi~~  314 (474)
T 4abn_A          239 QALSAYAQAEK--VDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAA--LDPAWPEPQQREQQLLEFLSRLTSLLES  314 (474)
T ss_dssp             HHHHHHHHHHH--HCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH--hCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777776  344    556677777777777777777777777776  5553 45677777777777777777654


Q ss_pred             H
Q 004744          718 H  718 (732)
Q Consensus       718 ~  718 (732)
                      +
T Consensus       315 ~  315 (474)
T 4abn_A          315 K  315 (474)
T ss_dssp             T
T ss_pred             h
Confidence            3

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.44  E-value=2.7e-12  Score=136.63  Aligned_cols=213  Identities=10%  Similarity=-0.045  Sum_probs=150.1

Q ss_pred             ChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCCh-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHH
Q 004744          185 KLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWV-DLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFL  263 (732)
Q Consensus       185 ~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  263 (732)
                      .+++|+..++......+ .+...+..+...+...|++ ++|.+.|+++++.. +.+..+|..+...|.+.|++++|...|
T Consensus        83 ~~~~al~~l~~~~~~~~-~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSAQ-VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHHTTCC-CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCc-hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            35667777777665543 3677778888888888888 88888888887764 556777777888888888888888888


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHc---------CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhc--------CCh
Q 004744          264 CEMEQKGVYPDTVTYNTLINAYCRE---------GFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKK--------GRC  326 (732)
Q Consensus       264 ~~~~~~g~~p~~~~~~~li~~~~~~---------g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~--------g~~  326 (732)
                      ++..+.  .|+..++..+...|...         |++++|++.|++..+.... +...|..+..+|...        |++
T Consensus       161 ~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          161 SGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccchH
Confidence            887776  35567777777777777         7788888888777765433 566777777777777        777


Q ss_pred             hHHHHHHHHHHHCCCC---CCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHH
Q 004744          327 DRAKEVLDEMLQMGLS---PDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYF  403 (732)
Q Consensus       327 ~~A~~~~~~~~~~g~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~  403 (732)
                      ++|...|++.++.. +   .+...|..+...|...|++++|.+.|++..+.... +...+..+...+...|++++|.+.+
T Consensus       238 ~~A~~~~~~al~~~-p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          238 QQALSAYAQAEKVD-RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPA-WPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHHC-GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhC-CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            77777777777642 2   35566777777777777777777777776665322 4556666666666666666666554


Q ss_pred             H
Q 004744          404 R  404 (732)
Q Consensus       404 ~  404 (732)
                      .
T Consensus       316 ~  316 (474)
T 4abn_A          316 G  316 (474)
T ss_dssp             T
T ss_pred             c
Confidence            3

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.43  E-value=1.3e-11  Score=127.99  Aligned_cols=230  Identities=10%  Similarity=-0.026  Sum_probs=168.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--C----CCCHHHHH
Q 004744          456 ILNGLCRAKMLTEADDLFNEMLER----GVFP-DFYTFTTLIHGHCKDGNMNKALNLFDIMTQKS--I----KPDIVTYN  524 (732)
Q Consensus       456 li~~~~~~~~~~~A~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--~----~~~~~~~~  524 (732)
                      ....+...|++++|...|++..+.    +-.+ ...++..+...|...|++++|+..+.+..+..  .    .....++.
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            455667788888888888887653    1111 23567778888888888888888888776531  1    11234677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCHHHHH
Q 004744          525 TLIDGFCKVGEMEKANKLWADMISRKIS-PN----YISYGILINGYCSMGHVTEAFRLWYEMVGK----GI-KPTLVSCN  594 (732)
Q Consensus       525 ~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~~~~~  594 (732)
                      .+...|...|++++|...|++..+.... ++    ..++..+...|...|++++|+..+++..+.    +. +....++.
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            7888888999999999998887753111 11    236778889999999999999999988872    22 34467788


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 004744          595 TIIKGYCRSGDASKADEFLSKMVSE----GVDPDSISYNTLINGFVREEN---MDKAFALVSKMENQGLVPD-VITYNVI  666 (732)
Q Consensus       595 ~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~g~~p~-~~~~~~l  666 (732)
                      .+...|.+.|++++|.+.+++..+.    +-+.....+..+...+...|+   +++|+.++++..   ..|+ ...+..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~---~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKM---LYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCc---CHHHHHHHHHHH
Confidence            8999999999999999999988763    111122335678888888998   788888877762   3333 3467788


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 004744          667 LTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       667 ~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      +..|...|++++|..+++++.+
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999999886

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.42  E-value=2.4e-12  Score=129.21  Aligned_cols=200  Identities=13%  Similarity=0.041  Sum_probs=105.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC------C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------CC-C
Q 004744          522 TYNTLIDGFCKVGEMEKANKLWADMISR------K-ISPNYISYGILINGYCSMGHVTEAFRLWYEMVGK------GI-K  587 (732)
Q Consensus       522 ~~~~li~~~~~~g~~~~A~~~~~~~~~~------~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~-~  587 (732)
                      .+..+...|...|++++|...++++.+.      + .+.....+..+...|...|++++|...++++.+.      +. +
T Consensus        71 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~  150 (311)
T 3nf1_A           71 MLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHP  150 (311)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCCh
Confidence            3444444444455555555544444432      1 1112334555555566666666666666655542      11 1


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------
Q 004744          588 PTLVSCNTIIKGYCRSGDASKADEFLSKMVSE------GVDP-DSISYNTLINGFVREENMDKAFALVSKMENQ------  654 (732)
Q Consensus       588 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------  654 (732)
                      .....+..+...+...|++++|+++++++.+.      +..| ...++..+...|...|++++|.+.++++.+.      
T Consensus       151 ~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  230 (311)
T 3nf1_A          151 DVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREF  230 (311)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcC
Confidence            22345566666667777777777777666553      1122 2345666777777777777777777776651      


Q ss_pred             -CCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          655 -GLVPDV-------ITYNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       655 -g~~p~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                       ...+..       ..+..+...+...+.+.+|...+++...  ..| +..+|..++.+|.+.|++++|.+++++.++
T Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          231 GSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKV--DSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             C------CCHHHHHHHHHHC-------CCSCCCC-----------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCC--CCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             111111       1222233334455666677777777765  445 357888899999999999999999998874

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.42  E-value=1.4e-12  Score=130.88  Aligned_cols=240  Identities=13%  Similarity=0.035  Sum_probs=158.5

Q ss_pred             CCchHHHHHHHHHHHHcCChHHHHHHHHHHHHC-------CCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc-----
Q 004744          167 GSNSLIFDLVIRTYVQARKLREGSEVFRLLRNK-------GICFSINACNSLLGGLVKIGWVDLAREVYAEVVRS-----  234 (732)
Q Consensus       167 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-----  234 (732)
                      +.+..++..++..|...|++++|+..|+++.+.       .......++..+...+...|++++|.+.|+++++.     
T Consensus        24 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  103 (311)
T 3nf1_A           24 PARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTL  103 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence            345788999999999999999999999999873       23335678889999999999999999999998864     


Q ss_pred             -C-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC-
Q 004744          235 -G-IELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQK------GVYP-DTVTYNTLINAYCREGFLEEAFQLMNSMSGK-  304 (732)
Q Consensus       235 -~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-  304 (732)
                       + .+....++..+...|...|++++|...++++.+.      +..| ...++..+...|...|++++|.+.++++... 
T Consensus       104 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~  183 (311)
T 3nf1_A          104 GKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIY  183 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence             2 2334567888889999999999999999988764      2122 3456788888999999999999999888664 


Q ss_pred             -----CCCC-CHhhHHHHHHHHHhcCChhHHHHHHHHHHHCC-------CCCCHH-------hHHHHHHHHHcCCCHhHH
Q 004744          305 -----GLKP-GVFTYNSLINGLCKKGRCDRAKEVLDEMLQMG-------LSPDTA-------TYNTLLVESCRKENMSEA  364 (732)
Q Consensus       305 -----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g-------~~~~~~-------~~~~li~~~~~~g~~~~A  364 (732)
                           +..| ...++..+...|...|++++|...++++.+..       ..+...       .+..+...+...+.+.+|
T Consensus       184 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  263 (311)
T 3nf1_A          184 QTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEY  263 (311)
T ss_dssp             HHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHH
Confidence                 1122 34567888888889999999999998887531       111111       111112222333344444


Q ss_pred             HHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 004744          365 EEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMK  407 (732)
Q Consensus       365 ~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~  407 (732)
                      ...+....... +.+..++..+...|.+.|++++|.+.|++..
T Consensus       264 ~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  305 (311)
T 3nf1_A          264 GGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAM  305 (311)
T ss_dssp             C---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            44444443321 1133445555555666666666666555544

>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=99.41  E-value=1e-11  Score=137.46  Aligned_cols=170  Identities=14%  Similarity=0.035  Sum_probs=153.9

Q ss_pred             CCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 004744          165 PCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLN  244 (732)
Q Consensus       165 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  244 (732)
                      .+|.++.+++.|+..|.+.|++++|+..|+++++..+. +..+|+.+..+|.+.|++++|++.|+++++.. +.+..+|.
T Consensus         4 s~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~   81 (723)
T 4gyw_A            4 SCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYS   81 (723)
T ss_dssp             --CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            46778899999999999999999999999999998776 78999999999999999999999999999875 66788999


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcC
Q 004744          245 IMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKG  324 (732)
Q Consensus       245 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  324 (732)
                      .+..+|.+.|++++|++.|++..+.... +..+|+.+...|.+.|++++|++.|++..+.... +...|..+...|...|
T Consensus        82 nLg~~l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g  159 (723)
T 4gyw_A           82 NMGNTLKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIVC  159 (723)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhcc
Confidence            9999999999999999999999987543 6789999999999999999999999999987543 6889999999999999


Q ss_pred             ChhHHHHHHHHHHH
Q 004744          325 RCDRAKEVLDEMLQ  338 (732)
Q Consensus       325 ~~~~A~~~~~~~~~  338 (732)
                      ++++|.+.++++++
T Consensus       160 ~~~~A~~~~~kal~  173 (723)
T 4gyw_A          160 DWTDYDERMKKLVS  173 (723)
T ss_dssp             CCTTHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHH
Confidence            99999999988765

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.38  E-value=7.1e-11  Score=122.17  Aligned_cols=229  Identities=12%  Similarity=0.036  Sum_probs=155.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCC-CC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----C-CCHHHHH
Q 004744          491 LIHGHCKDGNMNKALNLFDIMTQKSI-KP----DIVTYNTLIDGFCKVGEMEKANKLWADMISRKI-----S-PNYISYG  559 (732)
Q Consensus       491 li~~~~~~g~~~~A~~~~~~~~~~~~-~~----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-----~-~~~~~~~  559 (732)
                      ....+...|++++|+..++++.+... .+    ...++..+...|...|++++|...+.+..+...     . ....+++
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            34445667777777777777765311 01    234566677777788888888887777664311     1 1234667


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCCCCHHHHH
Q 004744          560 ILINGYCSMGHVTEAFRLWYEMVGK----GIK-PTLVSCNTIIKGYCRSGDASKADEFLSKMVS-----EGVDPDSISYN  629 (732)
Q Consensus       560 ~li~~~~~~g~~~~A~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~~~~  629 (732)
                      .+...|...|++++|.+.|++..+.    +.+ ....++..+...|...|++++|++.+++.++     .. +....++.
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~  265 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLF  265 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHH
Confidence            7778888888888888888877653    111 1134677788888888888888888888876     32 22366777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCC---CCC-HHHHHHHHHHHHhcCC---HHHHHHHHHHHHHcCCCCC-HHHHHHH
Q 004744          630 TLINGFVREENMDKAFALVSKMENQGL---VPD-VITYNVILTGFCRQGR---MHDSELILWRMIEKGLNPD-RSTYTTL  701 (732)
Q Consensus       630 ~li~~~~~~g~~~~A~~~~~~~~~~g~---~p~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~g~~p~-~~~~~~l  701 (732)
                      .+...+.+.|++++|...+++..+...   .|. ...+..+...+...|+   +.+|..++++.   +..|+ ...+..+
T Consensus       266 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~l  342 (378)
T 3q15_A          266 GLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARSA  342 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHHH
Confidence            888888889999999999888877211   222 2345566666667777   77777777662   23333 3567788


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 004744          702 INGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       702 ~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      +..|...|++++|.+.++++++
T Consensus       343 a~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          343 AAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            8889999999999998888764

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.35  E-value=2.6e-10  Score=117.74  Aligned_cols=297  Identities=11%  Similarity=0.059  Sum_probs=166.5

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHH----HHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCCH----HHHH
Q 004744          419 TIIINGYCRNGFVLEALKMRDEMLEKGCVMDVV----TYNTILNGLCRAKMLTEADDLFNEMLERGV-FPDF----YTFT  489 (732)
Q Consensus       419 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~----~~~~li~~~~~~~~~~~A~~~~~~~~~~~~-~~~~----~~~~  489 (732)
                      ......+...|++++|...+++........+..    .++.+...+...|++++|...+++..+... ..+.    .++.
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            334455667788888888888777654333322    455666677777888888888777665311 1121    2245


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC----CCHHHH
Q 004744          490 TLIHGHCKDGNMNKALNLFDIMTQK----SIK--P-DIVTYNTLIDGFCKVGEMEKANKLWADMISRKIS----PNYISY  558 (732)
Q Consensus       490 ~li~~~~~~g~~~~A~~~~~~~~~~----~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~  558 (732)
                      .+...+...|++++|...+++....    +..  | ....+..+...+...|++++|...+++..+....    .....+
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            5666677777777777777766542    111  1 2234455666677777777777777776654221    112355


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHH-----HHHHHHHHcCCHHHHHHHHHHHHHCCCCCC---HHHHH
Q 004744          559 GILINGYCSMGHVTEAFRLWYEMVGKGIKP-TLVSCN-----TIIKGYCRSGDASKADEFLSKMVSEGVDPD---SISYN  629 (732)
Q Consensus       559 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~  629 (732)
                      ..+...+...|++++|...+++.......+ +...+.     ..+..+...|+.++|...+++.......+.   ...+.
T Consensus       178 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  257 (373)
T 1hz4_A          178 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  257 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHH
Confidence            566666777777777777777665431111 111111     122335567777777777776654321111   22345


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCC-C---CH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          630 TLINGFVREENMDKAFALVSKMENQGLV-P---DV-ITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLING  704 (732)
Q Consensus       630 ~li~~~~~~g~~~~A~~~~~~~~~~g~~-p---~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~  704 (732)
                      .+...+...|++++|...++++...... +   +. ..+..+..++...|+.++|...++++.+  +.+..    .....
T Consensus       258 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~--~~~~~----g~~~~  331 (373)
T 1hz4_A          258 NIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK--LANRT----GFISH  331 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HHHHH----CCCHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH--Hhccc----cHHHH
Confidence            5666667777777777777776652111 1   11 2444555666667777777777777665  32221    12233


Q ss_pred             HHhcCCHHHHHHHHHHHHH
Q 004744          705 HVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       705 ~~~~g~~~~A~~~~~~m~~  723 (732)
                      +...|  +....+++++..
T Consensus       332 ~~~~g--~~~~~ll~~~~~  348 (373)
T 1hz4_A          332 FVIEG--EAMAQQLRQLIQ  348 (373)
T ss_dssp             HHTTH--HHHHHHHHHHHH
T ss_pred             HHHcc--HHHHHHHHHHHh
Confidence            34444  455555555543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.34  E-value=1.2e-10  Score=120.49  Aligned_cols=230  Identities=10%  Similarity=-0.014  Sum_probs=169.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--C---C-CCHHHH
Q 004744          455 TILNGLCRAKMLTEADDLFNEMLERGV-FPD----FYTFTTLIHGHCKDGNMNKALNLFDIMTQKS--I---K-PDIVTY  523 (732)
Q Consensus       455 ~li~~~~~~~~~~~A~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--~---~-~~~~~~  523 (732)
                      .....+...|++++|+..|+++.+... .++    ..++..+...|...|+++.|...+++..+..  .   . ....++
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  185 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSL  185 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHH
Confidence            345556778888888888888775411 122    3467778888888999999988888776521  1   1 124567


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHH
Q 004744          524 NTLIDGFCKVGEMEKANKLWADMISR----KIS-PNYISYGILINGYCSMGHVTEAFRLWYEMVG-----KGIKPTLVSC  593 (732)
Q Consensus       524 ~~li~~~~~~g~~~~A~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~~~  593 (732)
                      ..+...|...|++++|.+.|++..+.    +.. ....++..+...|...|++++|+..+++..+     .. +....++
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~  264 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVL  264 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHH
Confidence            77888889999999999999887753    111 1234677888899999999999999999887     42 3346788


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCC---CCC-HHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCCC-HHHHHH
Q 004744          594 NTIIKGYCRSGDASKADEFLSKMVSEGV---DPD-SISYNTLINGFVREEN---MDKAFALVSKMENQGLVPD-VITYNV  665 (732)
Q Consensus       594 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~-~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~g~~p~-~~~~~~  665 (732)
                      ..+...|.+.|++++|.+.+++..+...   .+. ...+..+...+...|+   +++|+..+++..   ..|+ ...+..
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~---~~~~~~~~~~~  341 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKN---LHAYIEACARS  341 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCC---ChhHHHHHHHH
Confidence            8899999999999999999999887421   122 3456667777778888   788888777632   2333 346678


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH
Q 004744          666 ILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       666 l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      ++..|...|++++|...|+++.+
T Consensus       342 la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          342 AAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            88999999999999999999876

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.34  E-value=6.6e-10  Score=114.64  Aligned_cols=299  Identities=9%  Similarity=-0.033  Sum_probs=213.5

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHH----HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-cC----HHH
Q 004744          382 SFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNV----LYTIIINGYCRNGFVLEALKMRDEMLEKGCV-MD----VVT  452 (732)
Q Consensus       382 ~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~----~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~  452 (732)
                      ........+...|++++|...+++........+..    ++..+...+...|++++|...+++....... .+    ..+
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   95 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   95 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            34455667788999999999999988764333332    5667778888999999999999988763211 12    233


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC----CCHH
Q 004744          453 YNTILNGLCRAKMLTEADDLFNEMLER----GVF--P-DFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIK----PDIV  521 (732)
Q Consensus       453 ~~~li~~~~~~~~~~~A~~~~~~~~~~----~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~  521 (732)
                      +..+...+...|++++|...+++..+.    +..  | ....+..+...+...|++++|...+++.......    ....
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            567788899999999999999998763    221  2 2345667888899999999999999988764322    1235


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHH-----HHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHH
Q 004744          522 TYNTLIDGFCKVGEMEKANKLWADMISRKISP-NYISYG-----ILINGYCSMGHVTEAFRLWYEMVGKGIKP---TLVS  592 (732)
Q Consensus       522 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~  592 (732)
                      .+..+...+...|++++|...+++.......+ ....+.     ..+..+...|++++|...+++.......+   ....
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            67778888999999999999999987542121 111222     23345779999999999999987653221   1335


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004744          593 CNTIIKGYCRSGDASKADEFLSKMVSE----GVDPDS-ISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVIL  667 (732)
Q Consensus       593 ~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~  667 (732)
                      +..+...+...|++++|...+++....    |..++. ..+..+...+...|+.++|...+++....  .+.    ....
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~--~~~----~g~~  329 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL--ANR----TGFI  329 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HHH----HCCC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--hcc----ccHH
Confidence            677888999999999999999988653    222222 35667788889999999999999999872  111    1122


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 004744          668 TGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       668 ~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      ..+...|  +....+++++..
T Consensus       330 ~~~~~~g--~~~~~ll~~~~~  348 (373)
T 1hz4_A          330 SHFVIEG--EAMAQQLRQLIQ  348 (373)
T ss_dssp             HHHHTTH--HHHHHHHHHHHH
T ss_pred             HHHHHcc--HHHHHHHHHHHh
Confidence            3344555  566777777777

>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=99.33  E-value=3.1e-11  Score=133.61  Aligned_cols=166  Identities=11%  Similarity=-0.011  Sum_probs=152.2

Q ss_pred             ChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHH
Q 004744          117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLL  196 (732)
Q Consensus       117 ~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  196 (732)
                      +..+|+.|..+|.+.|++++|...|+++++.                  .+.+..+|..|+..|.+.|++++|+..|+++
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l------------------~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~A   69 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEV------------------FPEFAAAHSNLASVLQQQGKLQEALMHYKEA   69 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------------------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5789999999999999999999999999854                  4566889999999999999999999999999


Q ss_pred             HHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH
Q 004744          197 RNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTV  276 (732)
Q Consensus       197 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  276 (732)
                      ++.++. +..+|..+..+|.+.|++++|++.|+++++.. +.+..+++.+..+|.+.|++++|+..|++..+.... +..
T Consensus        70 l~l~P~-~~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~  146 (723)
T 4gyw_A           70 IRISPT-FADAYSNMGNTLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPD  146 (723)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHH
T ss_pred             HHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChH
Confidence            998776 78999999999999999999999999999876 677889999999999999999999999999988543 678


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 004744          277 TYNTLINAYCREGFLEEAFQLMNSMSG  303 (732)
Q Consensus       277 ~~~~li~~~~~~g~~~~A~~~~~~m~~  303 (732)
                      .|..+...|...|++++|.+.++++.+
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            899999999999999999999888764

>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=99.32  E-value=1.2e-10  Score=106.40  Aligned_cols=166  Identities=14%  Similarity=0.067  Sum_probs=131.4

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      ...+..++..|...|++++|+..|+++.+..+. +..++..+...+...|++++|.+.++++.+.. +.+..++..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAF-DVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcc-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            456777888889999999999999988876554 67888888888889999999999999888764 5667778888888


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHH
Q 004744          250 LCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRA  329 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  329 (732)
                      +...|++++|...++++.+... .+...+..+...+.+.|++++|.+.++++.+... .+..++..+...+...|++++|
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEANP-INFNVRFRLGVALDNLGRFDEAIDSFKIALGLRP-NEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcCc-HhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCHHHH
Confidence            8888888888888888877643 3667777788888888888888888888776542 2567777777788888888888


Q ss_pred             HHHHHHHHHC
Q 004744          330 KEVLDEMLQM  339 (732)
Q Consensus       330 ~~~~~~~~~~  339 (732)
                      ...++++.+.
T Consensus       164 ~~~~~~~~~~  173 (186)
T 3as5_A          164 LPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            8888777653

>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=99.31  E-value=1.7e-10  Score=105.51  Aligned_cols=166  Identities=14%  Similarity=0.035  Sum_probs=146.8

Q ss_pred             hHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 004744          118 SMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLR  197 (732)
Q Consensus       118 ~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  197 (732)
                      ...|..++..+...|++++|...+.+++                  ...+.+..++..++..|...|++++|...|+++.
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~   69 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVY------------------DADAFDVDVALHLGIAYVKTGAVDRGTELLERSL   69 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTC------------------CTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHH------------------HhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4567788889999999999999998875                  2344568889999999999999999999999999


Q ss_pred             HCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHH
Q 004744          198 NKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVT  277 (732)
Q Consensus       198 ~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~  277 (732)
                      +..+. +...+..+...+...|++++|.+.++++.+.. +.+...+..+...+.+.|++++|...++++.+.... +..+
T Consensus        70 ~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~  146 (186)
T 3as5_A           70 ADAPD-NVKVATVLGLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPN-EGKV  146 (186)
T ss_dssp             HHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             hcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCcc-chHH
Confidence            87654 78899999999999999999999999998875 677889999999999999999999999999887533 6788


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhC
Q 004744          278 YNTLINAYCREGFLEEAFQLMNSMSGK  304 (732)
Q Consensus       278 ~~~li~~~~~~g~~~~A~~~~~~m~~~  304 (732)
                      +..++..+.+.|++++|.+.++.+.+.
T Consensus       147 ~~~la~~~~~~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A          147 HRAIAFSYEQMGRHEEALPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            999999999999999999999998764

>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=99.30  E-value=3.4e-10  Score=107.66  Aligned_cols=206  Identities=12%  Similarity=0.020  Sum_probs=146.0

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 004744          483 PDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILI  562 (732)
Q Consensus       483 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li  562 (732)
                      .|+..+......+...|++++|+..|+..++...+++...+..+...+...|++++|.+.|++..+..+. +...+..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            3567788888888888899999988888887654357777777888888888888888888888876433 666788888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHH
Q 004744          563 NGYCSMGHVTEAFRLWYEMVGKGIKPTL-------VSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPD---SISYNTLI  632 (732)
Q Consensus       563 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~li  632 (732)
                      ..|...|++++|+..+++.++.. +.+.       ..|..+...+...|++++|++.|+++++.  .|+   ...|..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            88888888888888888888763 4444       45777777788888888888888888774  344   45666666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHH
Q 004744          633 NGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDR-STYTTLI  702 (732)
Q Consensus       633 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~  702 (732)
                      ..|...     +...++++...+ ..+...|....  ....|.+++|...++++.+  +.|+. .+...+.
T Consensus       161 ~~~~~~-----~~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~--l~p~~~~~~~~l~  221 (228)
T 4i17_A          161 VLFYNN-----GADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVT--LSPNRTEIKQMQD  221 (228)
T ss_dssp             HHHHHH-----HHHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             HHHHHH-----HHHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhh--cCCCCHHHHHHHH
Confidence            666544     344455555532 22344443333  2345668889999999888  67753 4444443

>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=99.27  E-value=5.8e-10  Score=106.07  Aligned_cols=208  Identities=10%  Similarity=-0.061  Sum_probs=162.4

Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMV  247 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  247 (732)
                      .++..+..++..|.+.|++++|+..|+++++..+.++...+..+..++.+.|++++|.+.|+++++.. +.+..++..+.
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            45678888999999999999999999999998765688888889999999999999999999999875 55778899999


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCC---HhhHHHHH
Q 004744          248 NALCKDHKIDSAKMFLCEMEQKGVYPDT-------VTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPG---VFTYNSLI  317 (732)
Q Consensus       248 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~-------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~li  317 (732)
                      ..|.+.|++++|...+++..+..+. +.       .+|..+...+.+.|++++|++.|+++.+.  .|+   ..+|..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            9999999999999999999987433 44       45888888999999999999999999886  344   56777888


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 004744          318 NGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIG  388 (732)
Q Consensus       318 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~  388 (732)
                      ..|...|     ...++++...+ ..+...|....  ....+.+++|...+++..+.... +..+...+..
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~-~~~~~~~l~~  222 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPN-RTEIKQMQDQ  222 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCC-CHHHHHHHHH
Confidence            8876554     44455555543 23444444333  23456689999999999886432 4444444433

>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=99.21  E-value=1.4e-10  Score=114.23  Aligned_cols=227  Identities=15%  Similarity=0.049  Sum_probs=159.6

Q ss_pred             HhcCCHHHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------CC-CCCHHHHHHH
Q 004744          496 CKDGNMNKALNLFDIMTQK-------SIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISR------KI-SPNYISYGIL  561 (732)
Q Consensus       496 ~~~g~~~~A~~~~~~~~~~-------~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~-~~~~~~~~~l  561 (732)
                      ...|++++|+..+++.++.       ..+....++..+...|...|++++|...++++.+.      +. +....++..+
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            4567777777777766552       22334667888899999999999999999998864      21 2245578889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC------C-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC------CCCC-CHHH
Q 004744          562 INGYCSMGHVTEAFRLWYEMVGK------G-IKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSE------GVDP-DSIS  627 (732)
Q Consensus       562 i~~~~~~g~~~~A~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~~~-~~~~  627 (732)
                      ...|...|++++|...+++..+.      . .+....++..+...|...|++++|.+.++++.+.      +..| ...+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999998764      1 1334567888899999999999999999999874      1122 2567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC-------CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHH----cC-CCC-
Q 004744          628 YNTLINGFVREENMDKAFALVSKMENQ-------GLVPDV-ITYNVILTGFCRQGRMHDSELILWRMIE----KG-LNP-  693 (732)
Q Consensus       628 ~~~li~~~~~~g~~~~A~~~~~~~~~~-------g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~g-~~p-  693 (732)
                      +..+...|...|++++|..+++++.+.       ...+.. ..|..+...+...+....+.. +.++..    .+ ..| 
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  250 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAP-YGEYGSWYKACKVDSPT  250 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC-------------CCCCCCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHH-HHHHHHHHHhcCCCCHH
Confidence            888999999999999999999998862       122222 234444444443333332222 222221    11 223 


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          694 DRSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       694 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      ...++..++.+|...|++++|.+++++.++
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            246889999999999999999999999875

>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=99.17  E-value=2.6e-10  Score=112.28  Aligned_cols=157  Identities=15%  Similarity=0.002  Sum_probs=114.6

Q ss_pred             HcCChHHHHHHHHHHHH-------CCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc------C-CCCCHHHHHHHH
Q 004744          182 QARKLREGSEVFRLLRN-------KGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRS------G-IELNVYTLNIMV  247 (732)
Q Consensus       182 ~~g~~~~A~~~~~~~~~-------~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~  247 (732)
                      ..|++++|+..|+++++       ........++..+...+...|++++|...|+++++.      + .+....++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            45666666666666554       222335677888889999999999999999988764      2 133455788888


Q ss_pred             HHHHhcCChhHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC------CCCC-CHhhH
Q 004744          248 NALCKDHKIDSAKMFLCEMEQK------GVYP-DTVTYNTLINAYCREGFLEEAFQLMNSMSGK------GLKP-GVFTY  313 (732)
Q Consensus       248 ~~~~~~g~~~~A~~~~~~~~~~------g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p-~~~~~  313 (732)
                      ..|...|++++|...++++.+.      .-.| ...++..+...|...|++++|.+.++++...      +..| ...++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            8899999999999988887764      1112 3566788888888889999998888887654      1122 35567


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHH
Q 004744          314 NSLINGLCKKGRCDRAKEVLDEMLQ  338 (732)
Q Consensus       314 ~~li~~~~~~g~~~~A~~~~~~~~~  338 (732)
                      ..+...|...|++++|...++++.+
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~  197 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILT  197 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7888888888888888888888775

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.16  E-value=5.9e-10  Score=110.46  Aligned_cols=163  Identities=11%  Similarity=-0.047  Sum_probs=76.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHCCCC-CC----H
Q 004744          557 SYGILINGYCSMGHVTEAFRLWYEMVGK----GIKP-TLVSCNTIIKGYCRS-GDASKADEFLSKMVSEGVD-PD----S  625 (732)
Q Consensus       557 ~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~-~~----~  625 (732)
                      +|+.+...|...|++++|+..+++.++.    |-.. -..+++.+...|... |++++|++.|++.++.... .+    .
T Consensus        79 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~  158 (292)
T 1qqe_A           79 TYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSN  158 (292)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHH
Confidence            4444555555555555555555544432    1000 023455555555554 6666666666655542100 01    2


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH---
Q 004744          626 ISYNTLINGFVREENMDKAFALVSKMENQGLVPDV------ITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRS---  696 (732)
Q Consensus       626 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~---  696 (732)
                      .++..++..+.+.|++++|+..++++.+.......      ..|..++.++...|++++|...+++.++  +.|+..   
T Consensus       159 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~  236 (292)
T 1qqe_A          159 KCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS--EDPNFADSR  236 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC--C--------
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCCCcH
Confidence            34555556666666666666666666552111111      1344555555566666666666666655  444311   


Q ss_pred             ---HHHHHHHHHH--hcCCHHHHHHHHHHH
Q 004744          697 ---TYTTLINGHV--SQNNLKEAFRFHDEM  721 (732)
Q Consensus       697 ---~~~~l~~~~~--~~g~~~~A~~~~~~m  721 (732)
                         .+..++.++.  ..+++++|++.++++
T Consensus       237 ~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~  266 (292)
T 1qqe_A          237 ESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (292)
T ss_dssp             -HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHhccC
Confidence               2233444443  334555555555444

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.14  E-value=1e-08  Score=99.15  Aligned_cols=247  Identities=11%  Similarity=0.024  Sum_probs=153.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 004744          423 NGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMN  502 (732)
Q Consensus       423 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  502 (732)
                      +-..-.|.+..++.-.   .+.....+......+.++|...|++...         ....|....+..+.. |...+   
T Consensus        21 kn~fy~G~yq~~i~e~---~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~-~~~~~---   84 (310)
T 3mv2_B           21 KQNYYTGNFVQCLQEI---EKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQ-FLDTK---   84 (310)
T ss_dssp             HHHHTTTCHHHHTHHH---HTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHH-HHTTT---
T ss_pred             HHHHHhhHHHHHHHHH---HhcCccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHH-Hhccc---
Confidence            4445568888777633   2222222333334455667777776532         122334334444333 33322   


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          503 KALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKI-SPNYISYGILINGYCSMGHVTEAFRLWYEM  581 (732)
Q Consensus       503 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  581 (732)
                       |+..+++....+ .++...+..+..++...|++++|++++.+.+..+. .-+...+..++..+.+.|+.+.|.+.+++|
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             667777766554 34555556777788888888888888888776543 235667777888888888888888888888


Q ss_pred             HhCCCCC-----CHHHHHHHHHH--HHHcC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          582 VGKGIKP-----TLVSCNTIIKG--YCRSG--DASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKME  652 (732)
Q Consensus       582 ~~~~~~~-----~~~~~~~l~~~--~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  652 (732)
                      .+.  .|     +..+...++.+  ....|  +.++|..+|+++.+.  .|+..+...+..++.+.|++++|.+.++.+.
T Consensus       163 ~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          163 TNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             Hhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            765  55     24555555555  33334  788888888887664  3443333444447788888888888888665


Q ss_pred             HC-----CC---CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          653 NQ-----GL---VP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDR  695 (732)
Q Consensus       653 ~~-----g~---~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  695 (732)
                      +.     +.   .| |+.++..++......|+  +|.++++++.+  ..|+.
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~--~~P~h  286 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVK--LDHEH  286 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHH--TTCCC
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHH--hCCCC
Confidence            42     00   13 44566455555556676  77888888888  67764

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.13  E-value=2.1e-09  Score=100.32  Aligned_cols=191  Identities=8%  Similarity=-0.053  Sum_probs=121.9

Q ss_pred             ChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHH
Q 004744          117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLL  196 (732)
Q Consensus       117 ~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  196 (732)
                      +...+...+..+.+.|++++|...|.+++...+..+......  ..-......+.....++..|.+.|++++|+..|+++
T Consensus         3 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~--~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~a   80 (208)
T 3urz_A            3 SVDEMLQKVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWT--NVDKNSEISSKLATELALAYKKNRNYDKAYLFYKEL   80 (208)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHH--HSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHh--hhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            345566667788899999999999999986432111111000  000001111222333888888888888888888888


Q ss_pred             HHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC--hhHHHHHHHHHHhCCCCCC
Q 004744          197 RNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHK--IDSAKMFLCEMEQKGVYPD  274 (732)
Q Consensus       197 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~g~~p~  274 (732)
                      ++..+. +...+..+..++...|++++|...|+++++.. |.+..++..+...|...|+  .+.+...+......  .|.
T Consensus        81 l~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~--~~~  156 (208)
T 3urz_A           81 LQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSP--TKM  156 (208)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CC--CHH
T ss_pred             HHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCC--Cch
Confidence            887766 77888888888888888888888888888765 6667778777777765543  33445555554321  233


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHH
Q 004744          275 TVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNS  315 (732)
Q Consensus       275 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  315 (732)
                      ...+..+..++...|++++|...|++..+.  .|+......
T Consensus       157 ~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~  195 (208)
T 3urz_A          157 QYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKT  195 (208)
T ss_dssp             HHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHH
Confidence            334444555666677888888888887764  455444333

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.13  E-value=2.5e-09  Score=99.91  Aligned_cols=168  Identities=14%  Similarity=-0.000  Sum_probs=98.1

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHH----------------HHHHHHHcCChHHHHHHHHHHHHcC
Q 004744          172 IFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNS----------------LLGGLVKIGWVDLAREVYAEVVRSG  235 (732)
Q Consensus       172 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~----------------ll~~~~~~g~~~~a~~~~~~~~~~~  235 (732)
                      .+-..+..+.+.|++++|+..|+++.+..+. +...|..                +..++.+.|++++|...|+++++..
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   84 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIALNID-RTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA   84 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCHH-HHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            3444566788899999999999999887544 4555555                6666666666666666666666654


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC--HHHHHHHHHHHhhCCCCCCHhhH
Q 004744          236 IELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGF--LEEAFQLMNSMSGKGLKPGVFTY  313 (732)
Q Consensus       236 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~--~~~A~~~~~~m~~~g~~p~~~~~  313 (732)
                       |.+..++..+..++...|++++|...|++..+..+. +..+|..+...|...|+  .+.+...++....  ..|....+
T Consensus        85 -p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~  160 (208)
T 3urz_A           85 -PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYAR  160 (208)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHH
Confidence             455666666666666666666666666666665332 45556666665554433  2333444444322  12222233


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHH
Q 004744          314 NSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTA  346 (732)
Q Consensus       314 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~  346 (732)
                      ..+..++...|++++|...|++.++.  .|+..
T Consensus       161 ~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~  191 (208)
T 3urz_A          161 YRDGLSKLFTTRYEKARNSLQKVILR--FPSTE  191 (208)
T ss_dssp             HHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHh--CCCHH
Confidence            33444455556666666666666553  34443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.12  E-value=1.8e-07  Score=99.30  Aligned_cols=203  Identities=10%  Similarity=0.000  Sum_probs=117.4

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          468 EADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMI  547 (732)
Q Consensus       468 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  547 (732)
                      .+..+|++++...+. +...|...+..+.+.|+.+.|..+++.....  +.+...+..    |....+.++.   ++.+.
T Consensus       197 Rv~~~ye~al~~~p~-~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~---~~~l~  266 (493)
T 2uy1_A          197 RMHFIHNYILDSFYY-AEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAV---YGDLK  266 (493)
T ss_dssp             HHHHHHHHHHHHTTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHH---HHHHH
T ss_pred             HHHHHHHHHHHcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHH---HHHHH
Confidence            344555555554322 4555555555556666666666666666655  222222221    1111111111   11111


Q ss_pred             HCC------------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHH
Q 004744          548 SRK------------ISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRS-GDASKADEFLS  614 (732)
Q Consensus       548 ~~~------------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~  614 (732)
                      +.-            .......|...+..+.+.+..+.|..+|+.. +.. +.+...|...+..-... ++.+.|..+|+
T Consensus       267 ~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife  344 (493)
T 2uy1_A          267 RKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFS  344 (493)
T ss_dssp             HHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHH
T ss_pred             HHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHH
Confidence            110            0011245666666666777888899999888 321 23444554333332333 36888999998


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          615 KMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       615 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      ..++.. +.+...+...++...+.|+.+.|..+|+++.     .....|...+.-=...|+.+.+..+++++.+
T Consensus       345 ~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          345 SGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            888752 2234456667777788889999999888873     2456777777666677998888888888774

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.12  E-value=5.1e-08  Score=94.36  Aligned_cols=248  Identities=11%  Similarity=0.025  Sum_probs=152.9

Q ss_pred             HHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHH
Q 004744          388 GIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLT  467 (732)
Q Consensus       388 ~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  467 (732)
                      +-..-.|.+..++.-...+   ........-..+.++|...|++...         ....|....+..+... ...+   
T Consensus        21 kn~fy~G~yq~~i~e~~~~---~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~-~~~~---   84 (310)
T 3mv2_B           21 KQNYYTGNFVQCLQEIEKF---SKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQF-LDTK---   84 (310)
T ss_dssp             HHHHTTTCHHHHTHHHHTS---SCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHH-HTTT---
T ss_pred             HHHHHhhHHHHHHHHHHhc---CccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHH-hccc---
Confidence            3445578888877733322   2222233334455677777766531         1223343344444433 3322   


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          468 EADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSI-KPDIVTYNTLIDGFCKVGEMEKANKLWADM  546 (732)
Q Consensus       468 ~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  546 (732)
                       |+..|++..+.+ .++..++..+...+...|++++|++++.+.+..+. .-+...+..++..+.+.|+.+.|.+.+++|
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             677777776654 34555666777788888888888888888766543 235666777788888888888888888888


Q ss_pred             HHCCCCC-----CHHHHHHHHHH--HHhcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 004744          547 ISRKISP-----NYISYGILING--YCSMG--HVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMV  617 (732)
Q Consensus       547 ~~~~~~~-----~~~~~~~li~~--~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  617 (732)
                      .+.  .|     +..+...++.+  ....|  ++.+|..+|+++.+.  .|+..+...++.++.+.|++++|.+.++.+.
T Consensus       163 ~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          163 TNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             Hhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            765  34     24444555545  23334  788888888887665  4553333344447778888888888888665


Q ss_pred             HCC---------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 004744          618 SEG---------VDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVI  661 (732)
Q Consensus       618 ~~~---------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  661 (732)
                      +..         -+.|..++..+|......|+  +|.++++++.+  ..|+..
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~--~~P~hp  287 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVK--LDHEHA  287 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHH--TTCCCH
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHH--hCCCCh
Confidence            420         02345666566666666676  78888888887  456544

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.10  E-value=1.2e-07  Score=100.59  Aligned_cols=125  Identities=12%  Similarity=0.061  Sum_probs=89.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004744          521 VTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSM-GHVTEAFRLWYEMVGKGIKPTLVSCNTIIKG  599 (732)
Q Consensus       521 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~  599 (732)
                      ..|...+....+.+..+.|..+|++. .. ...+...|...+..-... ++.+.|..+|+...+.. +.+...+...++.
T Consensus       287 ~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~  363 (493)
T 2uy1_A          287 LLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLF  363 (493)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            45666666666778899999999988 32 223444454333322223 36999999999988763 4445566777887


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          600 YCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       600 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      ..+.|+.+.|+.+|+++.     .....|...+..-...|+.+.+.++++++..
T Consensus       364 e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          364 LLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            888899999999999872     2567788888877888999999998888774

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.10  E-value=1.1e-08  Score=95.73  Aligned_cols=175  Identities=11%  Similarity=0.013  Sum_probs=98.6

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC----CHHHHHHHHH
Q 004744          539 ANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSG----DASKADEFLS  614 (732)
Q Consensus       539 A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----~~~~A~~~~~  614 (732)
                      |.+.|++..+.|   +...+..+...|...+++++|+..|++..+.|   +...+..+...|.. |    +.++|.++|+
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~   77 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAE   77 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHH
Confidence            445555555543   45555555566666666666666666665554   44555555555555 4    5666666666


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHh----cCCHHHHHHHHHH
Q 004744          615 KMVSEGVDPDSISYNTLINGFVR----EENMDKAFALVSKMENQGLV-PDVITYNVILTGFCR----QGRMHDSELILWR  685 (732)
Q Consensus       615 ~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~-p~~~~~~~l~~~~~~----~g~~~~A~~~~~~  685 (732)
                      +..+.|   +...+..|...|..    .+++++|+++|++..+.|.. .++..+..|...|..    .++.++|..+|++
T Consensus        78 ~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           78 KAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            665533   44555555555554    55666666666666653310 014555556666655    5566666666666


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHhc-C-----CHHHHHHHHHHHHHCC
Q 004744          686 MIEKGLNPDRSTYTTLINGHVSQ-N-----NLKEAFRFHDEMLQRG  725 (732)
Q Consensus       686 ~~~~g~~p~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~m~~~g  725 (732)
                      ..+.  .++...+..|+.+|... |     ++++|..++++..+.|
T Consensus       155 A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          155 SSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            6652  22344555666666543 2     6666666666665554

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.10  E-value=5.6e-08  Score=95.22  Aligned_cols=223  Identities=12%  Similarity=0.021  Sum_probs=152.6

Q ss_pred             HHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcC--ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH----Hhc-
Q 004744          181 VQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIG--WVDLAREVYAEVVRSGIELNVYTLNIMVNAL----CKD-  253 (732)
Q Consensus       181 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~-  253 (732)
                      .+....++|+..++.++..++. +..+|+.-..++...|  +++++++.++.++... |.+..+|+.-...+    .+. 
T Consensus        44 ~~~e~s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~  121 (306)
T 3dra_A           44 KAEEYSERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNN  121 (306)
T ss_dssp             HTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTT
T ss_pred             HcCCCCHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhcc
Confidence            3344457899999999888877 7888888888888888  8899999998888765 56666676555554    444 


Q ss_pred             --CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHH--HHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCC----
Q 004744          254 --HKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLE--EAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGR----  325 (732)
Q Consensus       254 --g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~--~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~----  325 (732)
                        +++++++.+++.+.+...+ +-.+|+.-.-.+.+.|.++  ++++.++++++.++. |..+|+.-...+...|+    
T Consensus       122 ~~~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~  199 (306)
T 3dra_A          122 NDFDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATD  199 (306)
T ss_dssp             TCCCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCH
T ss_pred             ccCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchh
Confidence              6788888888888877544 6777777777777777777  888888888877655 77777776666666665    


Q ss_pred             --hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhH-HHHHHHHHHhCC--CCCCHhHHHHHHHHHHhCCCHHHHH
Q 004744          326 --CDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSE-AEEIFCEMSRRG--VAPDIVSFSTLIGIFSRNGQLDRAL  400 (732)
Q Consensus       326 --~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~~~~~g--~~~~~~~~~~l~~~~~~~g~~~~A~  400 (732)
                        ++++++.+++++... +-|...|+-+...+.+.|+... +.++..++.+.+  -..+...+..++..+.+.|+.++|.
T Consensus       200 ~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~  278 (306)
T 3dra_A          200 NTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESR  278 (306)
T ss_dssp             HHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHH
Confidence              667777777766654 4466666666666666665333 344555444322  1124555666666666666666666


Q ss_pred             HHHHHHHH
Q 004744          401 MYFREMKS  408 (732)
Q Consensus       401 ~l~~~~~~  408 (732)
                      ++++.+.+
T Consensus       279 ~~~~~l~~  286 (306)
T 3dra_A          279 TVYDLLKS  286 (306)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            66666654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.09  E-value=4.7e-09  Score=103.93  Aligned_cols=162  Identities=10%  Similarity=-0.056  Sum_probs=94.7

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHC----CCccC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC---CC--CHHHHHHH
Q 004744          177 IRTYVQARKLREGSEVFRLLRNK----GICFS-INACNSLLGGLVKIGWVDLAREVYAEVVRSGI---EL--NVYTLNIM  246 (732)
Q Consensus       177 ~~~~~~~g~~~~A~~~~~~~~~~----~~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~---~~--~~~~~~~l  246 (732)
                      +..|...|++++|++.|+++.+.    |..++ ..+|+.+..+|.+.|++++|+..|+++++...   .+  -..+++.+
T Consensus        44 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~l  123 (292)
T 1qqe_A           44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (292)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34577788899999888887653    21111 45778888888888888888888888765310   00  12355556


Q ss_pred             HHHHHhc-CChhHHHHHHHHHHhCCCCC-C----HHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHh------hHH
Q 004744          247 VNALCKD-HKIDSAKMFLCEMEQKGVYP-D----TVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVF------TYN  314 (732)
Q Consensus       247 ~~~~~~~-g~~~~A~~~~~~~~~~g~~p-~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~------~~~  314 (732)
                      ...|... |++++|+..|++..+..... +    ..+++.+...|.+.|++++|+..|++..+........      .|.
T Consensus       124 g~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  203 (292)
T 1qqe_A          124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (292)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHH
Confidence            6666664 66666666666655431100 0    2345555666666666666666666665543221111      344


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHH
Q 004744          315 SLINGLCKKGRCDRAKEVLDEMLQ  338 (732)
Q Consensus       315 ~li~~~~~~g~~~~A~~~~~~~~~  338 (732)
                      .+..++...|++++|...|++.++
T Consensus       204 ~lg~~~~~~g~~~~A~~~~~~al~  227 (292)
T 1qqe_A          204 KKGLCQLAATDAVAAARTLQEGQS  227 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh
Confidence            555555556666666666655554

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.09  E-value=4.8e-09  Score=89.78  Aligned_cols=130  Identities=18%  Similarity=0.124  Sum_probs=91.6

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 004744          172 IFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALC  251 (732)
Q Consensus       172 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  251 (732)
                      .|..++..|...|++++|+..|+++.+.++. +...+..+...+...|++++|...|+++.+.+ +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCCc-chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            4566777788888888888888887776544 56677777777777788888888887777654 455666667777777


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC
Q 004744          252 KDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGK  304 (732)
Q Consensus       252 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  304 (732)
                      ..|++++|.+.++++.+.... +..++..++..+.+.|++++|.+.++++...
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            777777777777777665322 4556666677777777777777777766553

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.08  E-value=3.4e-09  Score=103.06  Aligned_cols=104  Identities=12%  Similarity=-0.094  Sum_probs=86.7

Q ss_pred             CCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccC---HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC--CCCH
Q 004744          166 CGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFS---INACNSLLGGLVKIGWVDLAREVYAEVVRSGI--ELNV  240 (732)
Q Consensus       166 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~~~~  240 (732)
                      .+.++..+-.++..+.+.|++++|+..|+++++..+. +   ..++..+..++.+.|++++|...|+++++...  +...
T Consensus        11 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~   89 (261)
T 3qky_A           11 RHSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVP   89 (261)
T ss_dssp             CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHH
T ss_pred             CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhH
Confidence            3456777888899999999999999999999987654 3   67888999999999999999999999998642  1234


Q ss_pred             HHHHHHHHHHHh--------cCChhHHHHHHHHHHhCC
Q 004744          241 YTLNIMVNALCK--------DHKIDSAKMFLCEMEQKG  270 (732)
Q Consensus       241 ~~~~~l~~~~~~--------~g~~~~A~~~~~~~~~~g  270 (732)
                      .++..+..++.+        .|++++|...|+++.+..
T Consensus        90 ~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~  127 (261)
T 3qky_A           90 QAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY  127 (261)
T ss_dssp             HHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC
Confidence            567778888888        999999999999998874

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.07  E-value=6.7e-08  Score=94.66  Aligned_cols=234  Identities=8%  Similarity=-0.042  Sum_probs=189.5

Q ss_pred             CChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcC--ChHHHHHHHHHHHHCCCccCHHHHH
Q 004744          132 RRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQAR--KLREGSEVFRLLRNKGICFSINACN  209 (732)
Q Consensus       132 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~  209 (732)
                      ...++|+.+...++..                  .|.+..+|+.-...+...|  ++++++..++.++..++. +..+|+
T Consensus        47 e~s~~aL~~t~~~L~~------------------nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~  107 (306)
T 3dra_A           47 EYSERALHITELGINE------------------LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWN  107 (306)
T ss_dssp             CCSHHHHHHHHHHHHH------------------CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHH
T ss_pred             CCCHHHHHHHHHHHHH------------------CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHH
Confidence            4446899999998854                  4566788998888888888  999999999999999887 777887


Q ss_pred             HHHHHH----HHc---CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChh--HHHHHHHHHHhCCCCCCHHHHHH
Q 004744          210 SLLGGL----VKI---GWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKID--SAKMFLCEMEQKGVYPDTVTYNT  280 (732)
Q Consensus       210 ~ll~~~----~~~---g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~--~A~~~~~~~~~~g~~p~~~~~~~  280 (732)
                      .-...+    .+.   +++++++++++.+++.. +.+..+|+--...+.+.|.++  +++++++++.+..+. |..+|+.
T Consensus       108 ~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~  185 (306)
T 3dra_A          108 YRQLIIGQIMELNNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSH  185 (306)
T ss_dssp             HHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHH
Confidence            776666    555   78999999999999876 788889998888888899988  999999999998765 8888988


Q ss_pred             HHHHHHHcCC------HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhH-HHHHHHHHHHCC--CCCCHHhHHHH
Q 004744          281 LINAYCREGF------LEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDR-AKEVLDEMLQMG--LSPDTATYNTL  351 (732)
Q Consensus       281 li~~~~~~g~------~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~-A~~~~~~~~~~g--~~~~~~~~~~l  351 (732)
                      -...+.+.|.      ++++++.++.++...+. |...|+.+...+.+.|+..+ +..+..++.+.+  -+.+...+..+
T Consensus       186 R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l  264 (306)
T 3dra_A          186 RFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETL  264 (306)
T ss_dssp             HHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHH
T ss_pred             HHHHHHhccccchhhhHHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHH
Confidence            8777777776      99999999999987655 89999999999999988555 556776666532  13467788899


Q ss_pred             HHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHH
Q 004744          352 LVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLI  387 (732)
Q Consensus       352 i~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~  387 (732)
                      +..|.+.|+.++|.++++.+.+.--+.....|+..+
T Consensus       265 a~~~~~~~~~~~A~~~~~~l~~~~Dpir~~yW~~~~  300 (306)
T 3dra_A          265 AKIYTQQKKYNESRTVYDLLKSKYNPIRSNFWDYQI  300 (306)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             HHHHHccCCHHHHHHHHHHHHhccChHHHHHHHHHH
Confidence            999999999999999999998631122444555443

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.06  E-value=2.9e-09  Score=118.64  Aligned_cols=182  Identities=8%  Similarity=-0.102  Sum_probs=148.4

Q ss_pred             HhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHH
Q 004744          129 VRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINAC  208 (732)
Q Consensus       129 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  208 (732)
                      ...|++++|...+.+++...-          .......+.+...+..++..|.+.|++++|+..|+++.+.++. +...|
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~----------~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~  470 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGAL----------DADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLV  470 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-----------------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcc----------cccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHH
Confidence            678999999999999872100          0000224566788999999999999999999999999988766 88999


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 004744          209 NSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCRE  288 (732)
Q Consensus       209 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~  288 (732)
                      ..+..++.+.|++++|.+.|+++++.. +.+...+..+..++.+.|++++ +..|++..+.... +...|..+...|.+.
T Consensus       471 ~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~  547 (681)
T 2pzi_A          471 WYRAVAELLTGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAE  547 (681)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHc
Confidence            999999999999999999999999875 6678889999999999999999 9999999987543 678899999999999


Q ss_pred             CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCC
Q 004744          289 GFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGR  325 (732)
Q Consensus       289 g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  325 (732)
                      |++++|++.|+++.+.+.. +..+|..+..++...++
T Consensus       548 g~~~~A~~~~~~al~l~P~-~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          548 GDRVGAVRTLDEVPPTSRH-FTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             TCHHHHHHHHHTSCTTSTT-HHHHHHHHHHHTC----
T ss_pred             CCHHHHHHHHHhhcccCcc-cHHHHHHHHHHHHccCC
Confidence            9999999999999876432 46677777777766554

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.05  E-value=5.7e-09  Score=101.47  Aligned_cols=191  Identities=11%  Similarity=-0.043  Sum_probs=128.9

Q ss_pred             CCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHH
Q 004744          115 KHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFR  194 (732)
Q Consensus       115 ~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  194 (732)
                      ..++..+..+...+.+.|++++|...|.+++...+.               .+..+.++..++.+|.+.|++++|+..|+
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~---------------~~~~~~a~~~lg~~~~~~~~~~~A~~~~~   76 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT---------------HEWAADAQFYLARAYYQNKEYLLAASEYE   76 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC---------------STTHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC---------------CcchHHHHHHHHHHHHHhCcHHHHHHHHH
Confidence            346788888999999999999999999999854211               11226788899999999999999999999


Q ss_pred             HHHHCCCc-c-CHHHHHHHHHHHHH--------cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHH
Q 004744          195 LLRNKGIC-F-SINACNSLLGGLVK--------IGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLC  264 (732)
Q Consensus       195 ~~~~~~~~-~-~~~~~~~ll~~~~~--------~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  264 (732)
                      ++++..+. + ...++..+..++.+        .|++++|...|+++++.. |.+......+...              .
T Consensus        77 ~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~~--------------~  141 (261)
T 3qky_A           77 RFIQIYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY-PNHELVDDATQKI--------------R  141 (261)
T ss_dssp             HHHHHCTTCTTHHHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC-TTCTTHHHHHHHH--------------H
T ss_pred             HHHHHCCCCchhHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC-cCchhHHHHHHHH--------------H
Confidence            99987542 2 25677888889999        999999999999999864 3343333222111              1


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCC--CHhhHHHHHHHHHhc----------CChhHHHHH
Q 004744          265 EMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKP--GVFTYNSLINGLCKK----------GRCDRAKEV  332 (732)
Q Consensus       265 ~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~li~~~~~~----------g~~~~A~~~  332 (732)
                      .+...    -...+..+...|.+.|++++|+..|+++.+.....  ....+..+..+|...          |++++|...
T Consensus       142 ~~~~~----~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~  217 (261)
T 3qky_A          142 ELRAK----LARKQYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVEL  217 (261)
T ss_dssp             HHHHH----HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHH
T ss_pred             HHHHH----HHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHH
Confidence            11100    11124455666666677777777766666542211  233555566666544          666677777


Q ss_pred             HHHHHHC
Q 004744          333 LDEMLQM  339 (732)
Q Consensus       333 ~~~~~~~  339 (732)
                      |+++++.
T Consensus       218 ~~~~~~~  224 (261)
T 3qky_A          218 YERLLQI  224 (261)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7766654

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.03  E-value=1.2e-08  Score=87.18  Aligned_cols=127  Identities=17%  Similarity=0.282  Sum_probs=72.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004744          593 CNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCR  672 (732)
Q Consensus       593 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~  672 (732)
                      +..+...+...|++++|.++++++.+.. +.+...+..++..+...|++++|..+++++...+ +.+...+..++..+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            4445555555566666666665555432 2234455555555666666666666666665531 2234455566666666


Q ss_pred             cCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          673 QGRMHDSELILWRMIEKGLNP-DRSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       673 ~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      .|++++|...++++.+  ..| +...+..++.++...|++++|.+.++++++
T Consensus        82 ~~~~~~A~~~~~~~~~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALE--LDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            6666666666666665  333 345566666666666666666666666653

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.03  E-value=1.5e-09  Score=95.27  Aligned_cols=143  Identities=13%  Similarity=-0.014  Sum_probs=85.8

Q ss_pred             HHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCH
Q 004744          126 HFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSI  205 (732)
Q Consensus       126 ~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  205 (732)
                      .++...|++++|+..+.+.+.                  ..+.++..+-.+...|.+.|++++|++.|+++++..+. +.
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~------------------~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~   65 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTP------------------SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DP   65 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSC------------------SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CH
T ss_pred             HHHHHcChHHHHHHHHHHhcc------------------cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CH
Confidence            344455666666666655541                  12223445556677777777777777777777766555 66


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHH-HHHHHhCCCCCCHHHHHHHHHH
Q 004744          206 NACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMF-LCEMEQKGVYPDTVTYNTLINA  284 (732)
Q Consensus       206 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~g~~p~~~~~~~li~~  284 (732)
                      .+|..+..++.+.|++++|...|+++++.. |.+..++..+...|.+.|++++|.+. +++..+..+. +..+|......
T Consensus        66 ~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~l  143 (150)
T 4ga2_A           66 KAHRFLGLLYELEENTDKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQL  143 (150)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHH
Confidence            677777777777777777777777776654 44566666666667777766655443 4666555322 44555555555


Q ss_pred             HHHcC
Q 004744          285 YCREG  289 (732)
Q Consensus       285 ~~~~g  289 (732)
                      +.+.|
T Consensus       144 l~~~G  148 (150)
T 4ga2_A          144 LDCEG  148 (150)
T ss_dssp             HHTCC
T ss_pred             HHHhC
Confidence            55544

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.03  E-value=2e-09  Score=119.84  Aligned_cols=148  Identities=11%  Similarity=-0.074  Sum_probs=68.6

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHH
Q 004744          239 NVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLIN  318 (732)
Q Consensus       239 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~  318 (732)
                      +...+..+...+.+.|++++|...|+++.+.... +...|..+...|.+.|++++|++.|++..+.... +...|..+..
T Consensus       432 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~  509 (681)
T 2pzi_A          432 SVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELLTGDYDSATKHFTEVLDTFPG-ELAPKLALAA  509 (681)
T ss_dssp             CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CSHHHHHHHH
T ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHH
Confidence            3344444444445555555555555554443221 3444444555555555555555555554443222 3444445555


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHH
Q 004744          319 GLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFS  391 (732)
Q Consensus       319 ~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~  391 (732)
                      .|.+.|++++ ...|++.++.+ +.+...|..+..++.+.|++++|.+.|+++.+.+.. +...+..+..++.
T Consensus       510 ~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~~~~~~~  579 (681)
T 2pzi_A          510 TAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTLDEVPPTSRH-FTTARLTSAVTLL  579 (681)
T ss_dssp             HHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTTSTT-HHHHHHHHHHHTC
T ss_pred             HHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHHHhhcccCcc-cHHHHHHHHHHHH
Confidence            5555555555 55555544432 223344455555555555555555555554443211 2334444444443

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.03  E-value=3.4e-09  Score=95.98  Aligned_cols=163  Identities=13%  Similarity=0.034  Sum_probs=126.2

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-H
Q 004744          172 IFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA-L  250 (732)
Q Consensus       172 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~  250 (732)
                      .+..++..+.+.|++++|+..|+++.+..+. +...+..+..++.+.|++++|...|+++++..  |+...+..+... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDELQS-RGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHHHT-SHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHH
Confidence            4556778889999999999999998877655 78889999999999999999999999987654  255444433322 2


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCC-CHhhHHHHHHHHHhcCChhHH
Q 004744          251 CKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKP-GVFTYNSLINGLCKKGRCDRA  329 (732)
Q Consensus       251 ~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A  329 (732)
                      ...+...+|...+++..+..+. +...+..+...+.+.|++++|.+.|+++.+....+ +...+..+...+...|+.++|
T Consensus        85 ~~~~~~~~a~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAANPD-NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             HhhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            2333445678888888877433 57788889999999999999999999988875433 356788888899999999999


Q ss_pred             HHHHHHHHH
Q 004744          330 KEVLDEMLQ  338 (732)
Q Consensus       330 ~~~~~~~~~  338 (732)
                      ...|++.+.
T Consensus       164 ~~~y~~al~  172 (176)
T 2r5s_A          164 ASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            998887653

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.02  E-value=8e-10  Score=96.99  Aligned_cols=145  Identities=7%  Similarity=-0.105  Sum_probs=91.1

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 004744          176 VIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHK  255 (732)
Q Consensus       176 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  255 (732)
                      |+..+...|++++|+..|+......+. +...+..+...|.+.|++++|.+.|+++++.. |.+..+|..+..+|.+.|+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~p~-~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSPRQ-KSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSHHH-HHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCc
Confidence            445566677777888777777655332 34455667777777777777777777777764 5566677777777777777


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHH-HHHHhhCCCCCCHhhHHHHHHHHHhcC
Q 004744          256 IDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQL-MNSMSGKGLKPGVFTYNSLINGLCKKG  324 (732)
Q Consensus       256 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~-~~~m~~~g~~p~~~~~~~li~~~~~~g  324 (732)
                      +++|+..|++..+..+. +..+|..+...|.+.|++++|.+. +++..+..+. +..+|......+...|
T Consensus        81 ~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTCC
T ss_pred             hHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhC
Confidence            77777777777766432 456667777777777776655544 4565554322 4555555555555544

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.00  E-value=2.6e-08  Score=93.12  Aligned_cols=177  Identities=12%  Similarity=0.003  Sum_probs=118.2

Q ss_pred             HHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC----ChhHHHHH
Q 004744          187 REGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDH----KIDSAKMF  262 (732)
Q Consensus       187 ~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----~~~~A~~~  262 (732)
                      .+|++.|++..+.|   ++.++..+...|...+++++|.++|+++.+.|   +...+..|...|.. +    ++++|...
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~   75 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQL   75 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHH
Confidence            35667777777765   67777777777777778888888887777654   55666666666666 5    67777777


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHhhCCCC-CCHhhHHHHHHHHHh----cCChhHHHHHH
Q 004744          263 LCEMEQKGVYPDTVTYNTLINAYCR----EGFLEEAFQLMNSMSGKGLK-PGVFTYNSLINGLCK----KGRCDRAKEVL  333 (732)
Q Consensus       263 ~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~-p~~~~~~~li~~~~~----~g~~~~A~~~~  333 (732)
                      |++..+.|   +..++..|...|..    .+++++|++.|++..+.|.. .+..++..|...|..    .+++++|...|
T Consensus        76 ~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           76 AEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            77777664   56666677777766    67777777777777766431 125666777777766    66777777777


Q ss_pred             HHHHHCCCCCCHHhHHHHHHHHHcC-C-----CHhHHHHHHHHHHhCC
Q 004744          334 DEMLQMGLSPDTATYNTLLVESCRK-E-----NMSEAEEIFCEMSRRG  375 (732)
Q Consensus       334 ~~~~~~g~~~~~~~~~~li~~~~~~-g-----~~~~A~~~~~~~~~~g  375 (732)
                      ++..+.  +.+...+..|...|... |     +.++|.+.|+...+.|
T Consensus       153 ~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          153 KGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            777665  22344555566665432 2     6777777777766655

>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=98.99  E-value=3.1e-09  Score=96.22  Aligned_cols=164  Identities=8%  Similarity=-0.053  Sum_probs=132.7

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 004744          119 MSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRN  198 (732)
Q Consensus       119 ~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  198 (732)
                      ..+..+...+.+.|++++|...|.+++..                  .|.++..+..++..|.+.|++++|+..|+++..
T Consensus         7 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~------------------~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~   68 (176)
T 2r5s_A            7 EQLLKQVSELLQQGEHAQALNVIQTLSDE------------------LQSRGDVKLAKADCLLETKQFELAQELLATIPL   68 (176)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHTSCHH------------------HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCG
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH------------------CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhh
Confidence            45667788899999999999999988743                  345688899999999999999999999999987


Q ss_pred             CCCccCHHHHHHHHHH-HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-CHH
Q 004744          199 KGICFSINACNSLLGG-LVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYP-DTV  276 (732)
Q Consensus       199 ~~~~~~~~~~~~ll~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~  276 (732)
                      ..+  +...+..+... +.+.+....|...|+++++.. |.+...+..+...+...|++++|...|+++.+..+.+ +..
T Consensus        69 ~~p--~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~  145 (176)
T 2r5s_A           69 EYQ--DNSYKSLIAKLELHQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGE  145 (176)
T ss_dssp             GGC--CHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTH
T ss_pred             ccC--ChHHHHHHHHHHHHhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHH
Confidence            754  55444333322 223344456899999998875 6678899999999999999999999999999885443 356


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 004744          277 TYNTLINAYCREGFLEEAFQLMNSMSG  303 (732)
Q Consensus       277 ~~~~li~~~~~~g~~~~A~~~~~~m~~  303 (732)
                      .+..++..+...|+.++|...|++...
T Consensus       146 a~~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          146 VKKTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCcHHHHHHHHHH
Confidence            889999999999999999999998754

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.97  E-value=1.6e-08  Score=99.74  Aligned_cols=166  Identities=12%  Similarity=-0.012  Sum_probs=124.5

Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH-HHHH
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYT-LNIM  246 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~l  246 (732)
                      .+...+..+...+.+.|++++|+..|+++++..+. +...+..+...+.+.|++++|...++++....  |+... ....
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~  191 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVA  191 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHH
Confidence            44566677788888888888888888888887766 77888888888888888888888888876653  34333 2233


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCC-CHhhHHHHHHHHHhcCC
Q 004744          247 VNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKP-GVFTYNSLINGLCKKGR  325 (732)
Q Consensus       247 ~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~  325 (732)
                      ...+.+.++.++|...+++.....+. +...+..+...|...|++++|++.|+++....... +...+..++..+...|+
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~  270 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGT  270 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCT
T ss_pred             HHHHHhhcccCccHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCC
Confidence            34466777788888888888776433 66778888888888888888888888887764331 25678888888888888


Q ss_pred             hhHHHHHHHHHH
Q 004744          326 CDRAKEVLDEML  337 (732)
Q Consensus       326 ~~~A~~~~~~~~  337 (732)
                      .++|...+++.+
T Consensus       271 ~~~a~~~~r~al  282 (287)
T 3qou_A          271 GDALASXYRRQL  282 (287)
T ss_dssp             TCHHHHHHHHHH
T ss_pred             CCcHHHHHHHHH
Confidence            888888877755

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.96  E-value=4.9e-08  Score=92.33  Aligned_cols=184  Identities=11%  Similarity=-0.034  Sum_probs=113.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH---HHHH
Q 004744          520 IVTYNTLIDGFCKVGEMEKANKLWADMISRKISPN--YISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTL---VSCN  594 (732)
Q Consensus       520 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~  594 (732)
                      ...+..+...+.+.|++++|...|+++++..+...  ...+..+..+|.+.|++++|+..|+++++.. |.+.   ..+.
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~-P~~~~~~~a~~   82 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN-PTHPNIDYVMY   82 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCcHHHHHH
Confidence            34455566677888888888888888887533211  3466677788888888888888888887753 2222   2344


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-H------------
Q 004744          595 TIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDV-I------------  661 (732)
Q Consensus       595 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~------------  661 (732)
                      .+..++...|..     .++            .|..+...+...|++++|+..|+++++.  .|+. .            
T Consensus        83 ~~g~~~~~~~~~-----~~~------------~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~  143 (225)
T 2yhc_A           83 MRGLTNMALDDS-----ALQ------------GFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLK  143 (225)
T ss_dssp             HHHHHHHHHHC-------------------------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhh-----hhh------------hhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHH
Confidence            444444432100     000            0011111122234444444444444441  2221 1            


Q ss_pred             -----HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 004744          662 -----TYNVILTGFCRQGRMHDSELILWRMIEKGLNPD----RSTYTTLINGHVSQNNLKEAFRFHDEMLQRG  725 (732)
Q Consensus       662 -----~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  725 (732)
                           ....++..|.+.|++++|...|+++++  ..|+    ...+..++.+|.+.|++++|.+.++.+...+
T Consensus       144 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~--~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          144 DRLAKYEYSVAEYYTERGAWVAVVNRVEGMLR--DYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHH--HCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence                 113466778899999999999999998  5564    2578899999999999999999999988643

>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=5.9e-08  Score=91.75  Aligned_cols=184  Identities=13%  Similarity=0.038  Sum_probs=122.2

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccC--HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH---HHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFS--INACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNV---YTLN  244 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~  244 (732)
                      +..+-.++..+.+.|++++|+..|+++.+..+...  ...+..+..++.+.|++++|+..|+++++.. |.+.   .++.
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~-P~~~~~~~a~~   82 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN-PTHPNIDYVMY   82 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCcHHHHHH
Confidence            45566778889999999999999999998754421  4678888999999999999999999998864 2232   2444


Q ss_pred             HHHHHHHh------------------cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCC
Q 004744          245 IMVNALCK------------------DHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGL  306 (732)
Q Consensus       245 ~l~~~~~~------------------~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  306 (732)
                      .+..++.+                  .|++++|...|+++.+..+. +..++.+.....    .      +...+     
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~-~~~a~~a~~~l~----~------~~~~~-----  146 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPN-SQYTTDATKRLV----F------LKDRL-----  146 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTT-CTTHHHHHHHHH----H------HHHHH-----
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcC-ChhHHHHHHHHH----H------HHHHH-----
Confidence            45555544                  45566666666666655221 122222111100    0      00000     


Q ss_pred             CCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH----HhHHHHHHHHHcCCCHhHHHHHHHHHHhCC
Q 004744          307 KPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDT----ATYNTLLVESCRKENMSEAEEIFCEMSRRG  375 (732)
Q Consensus       307 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  375 (732)
                         ......+...|.+.|++++|...|+++++.  .|+.    ..+..+..++.+.|+.++|.+.++.+...+
T Consensus       147 ---~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          147 ---AKYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             ---HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             ---HHHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence               011234567788888888888888888875  2332    467778888888899999988888887764

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.95  E-value=2e-08  Score=98.98  Aligned_cols=177  Identities=11%  Similarity=0.000  Sum_probs=145.5

Q ss_pred             HHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHH
Q 004744          103 FIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQ  182 (732)
Q Consensus       103 ~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~  182 (732)
                      +-.++....|+   +...+..+...+.+.|++++|...|.+++..                  .+.++..+..++..|.+
T Consensus       105 l~~~l~~~lp~---~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~------------------~P~~~~a~~~la~~~~~  163 (287)
T 3qou_A          105 IRALLDXVLPR---EEELXAQQAMQLMQESNYTDALPLLXDAWQL------------------SNQNGEIGLLLAETLIA  163 (287)
T ss_dssp             HHHHHHHHSCC---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------TTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCC---chhhHHHHHHHHHhCCCHHHHHHHHHHHHHh------------------CCcchhHHHHHHHHHHH
Confidence            33444444443   5677888999999999999999999999854                  45678899999999999


Q ss_pred             cCChHHHHHHHHHHHHCCCccCHHHH-HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHH
Q 004744          183 ARKLREGSEVFRLLRNKGICFSINAC-NSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKM  261 (732)
Q Consensus       183 ~g~~~~A~~~~~~~~~~~~~~~~~~~-~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  261 (732)
                      .|++++|+..|+++....+  +.... ......+.+.++.++|.+.|++++... |.+...+..+...+...|++++|..
T Consensus       164 ~g~~~~A~~~l~~~~~~~p--~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~  240 (287)
T 3qou_A          164 LNRSEDAEAVLXTIPLQDQ--DTRYQGLVAQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALE  240 (287)
T ss_dssp             TTCHHHHHHHHTTSCGGGC--SHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CCCHHHHHHHHHhCchhhc--chHHHHHHHHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHH
Confidence            9999999999999987754  44333 333345778889999999999999876 7788999999999999999999999


Q ss_pred             HHHHHHhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 004744          262 FLCEMEQKGVYP-DTVTYNTLINAYCREGFLEEAFQLMNSMSG  303 (732)
Q Consensus       262 ~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  303 (732)
                      .|+++.+..... +...+..++..|...|+.++|...+++...
T Consensus       241 ~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          241 LLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            999999874331 267899999999999999999999987653

>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=98.91  E-value=7e-09  Score=103.47  Aligned_cols=222  Identities=12%  Similarity=0.042  Sum_probs=153.3

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004744          463 AKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCK-DGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANK  541 (732)
Q Consensus       463 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  541 (732)
                      .|++++|.+++++..+....           .+.. .+++++|...|..+               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~-----------~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKT-----------SFMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCC-----------CSSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccc-----------cccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            56778888888877664221           1233 57788888877765               345778899999999


Q ss_pred             HHHHHHHCC----CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHHHcCCHHHHH
Q 004744          542 LWADMISRK----ISP-NYISYGILINGYCSMGHVTEAFRLWYEMVGK----GIKPT--LVSCNTIIKGYCRSGDASKAD  610 (732)
Q Consensus       542 ~~~~~~~~~----~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~A~  610 (732)
                      .|.+..+..    ..+ -..+|+.+...|...|++++|+..|++.++.    | .+.  ..+++.+...|.. |++++|+
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g-~~~~~a~~~~~lg~~~~~-g~~~~A~  135 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENG-TPDTAAMALDRAGKLMEP-LDLSKAV  135 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHHHTT-TCHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHHHHc-CCHHHHH
Confidence            998876531    110 1346778888888999999999999987653    2 121  3567778888877 9999999


Q ss_pred             HHHHHHHHCCCCC-C----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCCHHHHH
Q 004744          611 EFLSKMVSEGVDP-D----SISYNTLINGFVREENMDKAFALVSKMENQGL-VPD----VITYNVILTGFCRQGRMHDSE  680 (732)
Q Consensus       611 ~~~~~~~~~~~~~-~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~-~p~----~~~~~~l~~~~~~~g~~~~A~  680 (732)
                      +.|++.++..... +    ..++..+...|.+.|++++|+..++++.+... .++    ...+..++.++...|++++|.
T Consensus       136 ~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~  215 (307)
T 2ifu_A          136 HLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQ  215 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHH
Confidence            9999888742111 1    45677888889999999999999999887211 111    125566666777789999999


Q ss_pred             HHHHHHHHcCCCCCHH-H-----HHHHHHHHHhcCCHHHHHH
Q 004744          681 LILWRMIEKGLNPDRS-T-----YTTLINGHVSQNNLKEAFR  716 (732)
Q Consensus       681 ~~~~~~~~~g~~p~~~-~-----~~~l~~~~~~~g~~~~A~~  716 (732)
                      ..|++.+   +.|+.. +     ...++.++ ..|+.+.+.+
T Consensus       216 ~~~~~al---~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          216 KCVRESY---SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHHT---TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHHh---CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            9999887   456554 3     33444444 5677666655

>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=98.91  E-value=2.8e-08  Score=108.69  Aligned_cols=155  Identities=10%  Similarity=-0.084  Sum_probs=115.5

Q ss_pred             CCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHH
Q 004744          131 GRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNS  210 (732)
Q Consensus       131 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  210 (732)
                      .|++++|...+.+++.                  ..+.+...|..++..|.+.|++++|++.|+++.+..+. +..++..
T Consensus         2 ~g~~~~A~~~~~~al~------------------~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~   62 (568)
T 2vsy_A            2 TADGPRELLQLRAAVR------------------HRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVAR   62 (568)
T ss_dssp             -------------------------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHH
T ss_pred             CccHHHHHHHHHHHHH------------------hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHH
Confidence            4677888888888763                  24456788888999999999999999999999888765 7888889


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc--
Q 004744          211 LLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCRE--  288 (732)
Q Consensus       211 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~--  288 (732)
                      +...+.+.|++++|.+.|+++++.. +.+...+..+..+|.+.|++++|.+.+++..+.... +...+..+...+...  
T Consensus        63 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~  140 (568)
T 2vsy_A           63 LGRVRWTQQRHAEAAVLLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE-EPYITAQLLNWRRRLCD  140 (568)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhhc
Confidence            9999999999999999999988875 667788888889999999999999999998887433 567788888888888  


Q ss_pred             -CCHHHHHHHHHHHhhCCC
Q 004744          289 -GFLEEAFQLMNSMSGKGL  306 (732)
Q Consensus       289 -g~~~~A~~~~~~m~~~g~  306 (732)
                       |++++|.+.+++..+.+.
T Consensus       141 ~g~~~~A~~~~~~al~~~p  159 (568)
T 2vsy_A          141 WRALDVLSAQVRAAVAQGV  159 (568)
T ss_dssp             CTTHHHHHHHHHHHHHHTC
T ss_pred             cccHHHHHHHHHHHHhcCC
Confidence             899999999998887643

>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=98.90  E-value=2.3e-08  Score=109.41  Aligned_cols=154  Identities=10%  Similarity=-0.072  Sum_probs=119.6

Q ss_pred             cCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 004744          183 ARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMF  262 (732)
Q Consensus       183 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  262 (732)
                      .|++++|++.|+++.+..+. +...|..+...+.+.|++++|.+.|+++++.. +.+..++..+...|.+.|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            47889999999999887655 78899999999999999999999999999875 66788999999999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhc---CChhHHHHHHHHHHHC
Q 004744          263 LCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKK---GRCDRAKEVLDEMLQM  339 (732)
Q Consensus       263 ~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~---g~~~~A~~~~~~~~~~  339 (732)
                      +++..+.... +...+..+...|.+.|++++|.+.+++..+.... +...+..+...+...   |+.++|.+.+++.++.
T Consensus        80 ~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE-EPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            9999887533 6788999999999999999999999999886433 678889999999999   9999999999999876


Q ss_pred             C
Q 004744          340 G  340 (732)
Q Consensus       340 g  340 (732)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            4

>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=98.89  E-value=3.2e-08  Score=98.63  Aligned_cols=223  Identities=9%  Similarity=-0.038  Sum_probs=161.4

Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004744          428 NGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCR-AKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALN  506 (732)
Q Consensus       428 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~-~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  506 (732)
                      .|++++|.+++++..+....           .+.+ .+++++|...|..+               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~-----------~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKT-----------SFMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCC-----------CSSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccc-----------cccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            57788999999887764211           1233 57889998888765               346778999999999


Q ss_pred             HHHHHHHCCC----C-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--C-CC--CHHHHHHHHHHHHhcCCHHHHHH
Q 004744          507 LFDIMTQKSI----K-PDIVTYNTLIDGFCKVGEMEKANKLWADMISRK--I-SP--NYISYGILINGYCSMGHVTEAFR  576 (732)
Q Consensus       507 ~~~~~~~~~~----~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--~-~~--~~~~~~~li~~~~~~g~~~~A~~  576 (732)
                      .|.+..+...    . .-..+|..+...|.+.|++++|...|++.++..  . .+  ...++..+...|.. |++++|+.
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            9988765311    1 113577888889999999999999999887541  1 11  13567788888988 99999999


Q ss_pred             HHHHHHhCCC---CC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCCHHHHHH
Q 004744          577 LWYEMVGKGI---KP--TLVSCNTIIKGYCRSGDASKADEFLSKMVSE----GVDPD-SISYNTLINGFVREENMDKAFA  646 (732)
Q Consensus       577 ~~~~~~~~~~---~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~A~~  646 (732)
                      .|++.++...   .+  ...++..+...|.+.|++++|++.|++.++.    +..+. ...+..++..+...|++++|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999876411   11  1467888999999999999999999999863    11111 2356677777888899999999


Q ss_pred             HHHHHHHCCCCCC---H---HHHHHHHHHHHhcCCHHHHHH
Q 004744          647 LVSKMENQGLVPD---V---ITYNVILTGFCRQGRMHDSEL  681 (732)
Q Consensus       647 ~~~~~~~~g~~p~---~---~~~~~l~~~~~~~g~~~~A~~  681 (732)
                      .+++.. .  .|+   .   .....++.++ ..|+.+.+..
T Consensus       217 ~~~~al-~--~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          217 CVRESY-S--IPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHT-T--STTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHh-C--CCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            999998 4  342   1   2344555555 5677766655

>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=98.86  E-value=1.6e-06  Score=85.78  Aligned_cols=181  Identities=8%  Similarity=-0.063  Sum_probs=111.8

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcC-ChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          171 LIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIG-WVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       171 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      .+++.+-....+.+..++|++.+++++..++. +..+|+.-...+...| .+++++++++.++... +.+..+|+--...
T Consensus        55 ~~~~~~r~~~~~~e~se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wl  132 (349)
T 3q7a_A           55 DAMDYFRAIAAKEEKSERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLL  132 (349)
T ss_dssp             HHHHHHHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            44555555555556667788888888887766 7777877777777777 4778888888777664 5666677766666


Q ss_pred             HHhc-C-ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHH--------HHHHHHHHHhhCCCCCCHhhHHHHHHH
Q 004744          250 LCKD-H-KIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLE--------EAFQLMNSMSGKGLKPGVFTYNSLING  319 (732)
Q Consensus       250 ~~~~-g-~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~--------~A~~~~~~m~~~g~~p~~~~~~~li~~  319 (732)
                      +.+. + ++++++.+++.+.+...+ |-.+|+.-.-.+.+.|.++        ++++.++++++..+. |..+|+.....
T Consensus       133 L~~l~~~~~~~EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~l  210 (349)
T 3q7a_A          133 LDRISPQDPVSEIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYL  210 (349)
T ss_dssp             HHHHCCSCCHHHHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHhcCCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            6665 5 677777777777766543 5666666555555555544        666666666665443 55666666555


Q ss_pred             HHhcCC-------hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHH
Q 004744          320 LCKKGR-------CDRAKEVLDEMLQMGLSPDTATYNTLLVESC  356 (732)
Q Consensus       320 ~~~~g~-------~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~  356 (732)
                      +.+.++       ++++++.+++++... +-|...|+-+-..+.
T Consensus       211 L~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~  253 (349)
T 3q7a_A          211 RVSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLK  253 (349)
T ss_dssp             HTTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            555554       344555554444432 234444444333333

>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=98.86  E-value=1.1e-06  Score=86.91  Aligned_cols=219  Identities=10%  Similarity=0.051  Sum_probs=102.3

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc-C-CHHHHHHH
Q 004744          221 VDLAREVYAEVVRSGIELNVYTLNIMVNALCKDH-KIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCRE-G-FLEEAFQL  297 (732)
Q Consensus       221 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~-g-~~~~A~~~  297 (732)
                      .++|+++++.++..+ +.+..+|+.-...+...| .+++++.+++.+....++ +..+|+.-...+.+. + ++++++++
T Consensus        70 se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~~  147 (349)
T 3q7a_A           70 SERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIEY  147 (349)
T ss_dssp             SHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHHH
T ss_pred             CHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHHH
Confidence            344555555555543 344444554444444445 355555555555555433 444555544444443 4 55555555


Q ss_pred             HHHHhhCCCCCCHhhHHHHHHHHHhcCChh--------HHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCC-------Hh
Q 004744          298 MNSMSGKGLKPGVFTYNSLINGLCKKGRCD--------RAKEVLDEMLQMGLSPDTATYNTLLVESCRKEN-------MS  362 (732)
Q Consensus       298 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~--------~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~-------~~  362 (732)
                      ++.+.+...+ |..+|+.-.-.+.+.|.++        ++++.++++++.. +.|..+|+.....+.+.++       ++
T Consensus       148 ~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~  225 (349)
T 3q7a_A          148 IHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRSLQ  225 (349)
T ss_dssp             HHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHHH
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHHHH
Confidence            5555554333 4455544444444444444        5555555555443 3344455554444444443       44


Q ss_pred             HHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCH--------------------HHHHHHHHHHHHCC-----CCCCHHH
Q 004744          363 EAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQL--------------------DRALMYFREMKSAG-----LVPDNVL  417 (732)
Q Consensus       363 ~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~--------------------~~A~~l~~~~~~~~-----~~~~~~~  417 (732)
                      ++++.+++++...+. |...|+.+-..+.+.|+.                    ....+...++...+     -.+....
T Consensus       226 eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~a  304 (349)
T 3q7a_A          226 DELIYILKSIHLIPH-NVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLA  304 (349)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHH
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHH
Confidence            555555555444322 455555544444443332                    22222222222211     1234455


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 004744          418 YTIIINGYCRNGFVLEALKMRDEMLEK  444 (732)
Q Consensus       418 ~~~li~~~~~~g~~~~A~~~~~~~~~~  444 (732)
                      ...+++.|...|+.++|.++++.+.+.
T Consensus       305 l~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          305 LEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            555556666666666666666665543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.84  E-value=4.1e-07  Score=89.92  Aligned_cols=165  Identities=12%  Similarity=-0.006  Sum_probs=103.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH------HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC---CCC--H
Q 004744          557 SYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTL------VSCNTIIKGYCRSGDASKADEFLSKMVSEGV---DPD--S  625 (732)
Q Consensus       557 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~--~  625 (732)
                      .+...+..+...|++++|.+.+.+..+.... ..      ..+..+...+...|++++|++.+++..+...   .+.  .
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEY-HPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCC-CHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccC-ChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            3344555666777777777777766654211 11      1233344556667778888888777765311   111  3


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC-
Q 004744          626 ISYNTLINGFVREENMDKAFALVSKMENQ-GLVPD-----VITYNVILTGFCRQGRMHDSELILWRMIEK----GLNPD-  694 (732)
Q Consensus       626 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~-g~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g~~p~-  694 (732)
                      .+|+.++..|...|++++|+..++++.+. ...|+     ..++..++..|...|++++|..+++++++.    +.... 
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~  235 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALI  235 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            46777777788888888888888777631 01121     146777777888888888888888877651    11111 


Q ss_pred             HHHHHHHHHHHHhcCCHHHH-HHHHHHHH
Q 004744          695 RSTYTTLINGHVSQNNLKEA-FRFHDEML  722 (732)
Q Consensus       695 ~~~~~~l~~~~~~~g~~~~A-~~~~~~m~  722 (732)
                      ..+|..++.+|.+.|++++| ...+++.+
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            46777788888888888888 66676654

>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=98.82  E-value=4.9e-07  Score=89.37  Aligned_cols=163  Identities=12%  Similarity=-0.011  Sum_probs=119.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCC-CCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCC----HHHHHH
Q 004744          561 LINGYCSMGHVTEAFRLWYEMVGKGI-KPTL----VSCNTIIKGYCRSGDASKADEFLSKMVSEGV-DPD----SISYNT  630 (732)
Q Consensus       561 li~~~~~~g~~~~A~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~----~~~~~~  630 (732)
                      .+..+...|++++|...+++..+... .|+.    ..+..+...+...|++++|++.++++.+... .++    ..+++.
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            45667888999999999988876421 2221    1233466666777889999999999887422 222    336888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH----C-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC-HHHHH
Q 004744          631 LINGFVREENMDKAFALVSKMEN----Q-GLVPD-VITYNVILTGFCRQGRMHDSELILWRMIEK----GLNPD-RSTYT  699 (732)
Q Consensus       631 li~~~~~~g~~~~A~~~~~~~~~----~-g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g~~p~-~~~~~  699 (732)
                      ++..|...|++++|+.+++++.+    . +..+. ..+|..++..|.+.|++++|..+++++++.    +..+. ..+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            88999999999999999998884    1 12222 247888999999999999999999988751    22222 57899


Q ss_pred             HHHHHHHhcCC-HHHHHHHHHHHHH
Q 004744          700 TLINGHVSQNN-LKEAFRFHDEMLQ  723 (732)
Q Consensus       700 ~l~~~~~~~g~-~~~A~~~~~~m~~  723 (732)
                      .++.+|.+.|+ +++|.+.++++++
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            99999999994 6999999988864

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.80  E-value=8.4e-08  Score=80.96  Aligned_cols=111  Identities=7%  Similarity=-0.098  Sum_probs=84.8

Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMV  247 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  247 (732)
                      .....+..++..|.+.|++++|++.|+++++..+. +..+|..+..++.+.|++++|++.|+++++.+ +.+...|..+.
T Consensus        11 ~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg   88 (126)
T 4gco_A           11 ELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKA   88 (126)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHH
Confidence            34566777888888888888888888888887665 77888888888888888888888888888765 56677788888


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 004744          248 NALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTL  281 (732)
Q Consensus       248 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l  281 (732)
                      .++...|++++|...|++..+..+. +...+..|
T Consensus        89 ~~~~~~~~~~~A~~~~~~al~l~P~-~~~a~~~l  121 (126)
T 4gco_A           89 ACLVAMREWSKAQRAYEDALQVDPS-NEEAREGV  121 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCcC-CHHHHHHH
Confidence            8888888888888888888776432 44444444

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.79  E-value=1.7e-07  Score=81.62  Aligned_cols=105  Identities=11%  Similarity=-0.026  Sum_probs=87.2

Q ss_pred             CCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH
Q 004744          164 SPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTL  243 (732)
Q Consensus       164 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  243 (732)
                      ...|.++..+..++..|.+.|++++|+..|+++.+..+. +...|..+..++.+.|++++|...|+++++.. |.+...+
T Consensus        30 ~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~  107 (151)
T 3gyz_A           30 AIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPV  107 (151)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHH
Confidence            334556778888888899999999999999998888766 78888888888889999999999999888875 6667788


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCC
Q 004744          244 NIMVNALCKDHKIDSAKMFLCEMEQKG  270 (732)
Q Consensus       244 ~~l~~~~~~~g~~~~A~~~~~~~~~~g  270 (732)
                      ..+..+|.+.|++++|...|++..+..
T Consensus       108 ~~lg~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          108 FHTGQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            888888888888888888888888763

>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=98.76  E-value=5.8e-07  Score=83.95  Aligned_cols=131  Identities=8%  Similarity=-0.076  Sum_probs=110.8

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 004744          171 LIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNAL  250 (732)
Q Consensus       171 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  250 (732)
                      ..+..++..|...|++++|+..|+++.    .|+..+|..+...+.+.|++++|.+.|+++++.. +.+..++..+..+|
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            345567788899999999999999874    4588899999999999999999999999998875 66788899999999


Q ss_pred             HhcCChhHHHHHHHHHHhCCCC--------------C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCC
Q 004744          251 CKDHKIDSAKMFLCEMEQKGVY--------------P-DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGL  306 (732)
Q Consensus       251 ~~~g~~~~A~~~~~~~~~~g~~--------------p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  306 (732)
                      .+.|++++|...|++..+....              | +...+..+...|.+.|++++|.+.|+...+...
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            9999999999999999886422              1 126788888999999999999999999987643

>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=98.75  E-value=3e-07  Score=85.93  Aligned_cols=133  Identities=12%  Similarity=0.011  Sum_probs=110.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004744          555 YISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLING  634 (732)
Q Consensus       555 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  634 (732)
                      ...+..+...+...|++++|+..|++..    .|+...+..+...|...|++++|++.+++.++.. +.+...+..+..+
T Consensus         6 ~~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~   80 (213)
T 1hh8_A            6 AISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGML   80 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHH
Confidence            3445667778889999999999998774    5688889999999999999999999999988753 3457788889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCH----------------HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          635 FVREENMDKAFALVSKMENQGLVPDV----------------ITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDR  695 (732)
Q Consensus       635 ~~~~g~~~~A~~~~~~~~~~g~~p~~----------------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  695 (732)
                      |...|++++|++.++++.+.. +.+.                ..+..++.++.+.|++++|...|+++.+  +.|+.
T Consensus        81 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~p~~  154 (213)
T 1hh8_A           81 YYQTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS--MKSEP  154 (213)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCCSG
T ss_pred             HHHcccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH--cCccc
Confidence            999999999999999998842 1122                6788888899999999999999999998  77876

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.74  E-value=3.2e-07  Score=87.59  Aligned_cols=188  Identities=10%  Similarity=-0.071  Sum_probs=131.3

Q ss_pred             HcCChHHHHHHHHHHHHCCCccCHHHHHHH-------HHHHHHcCChHHHHHHHHHHHHcCCCCC---------------
Q 004744          182 QARKLREGSEVFRLLRNKGICFSINACNSL-------LGGLVKIGWVDLAREVYAEVVRSGIELN---------------  239 (732)
Q Consensus       182 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l-------l~~~~~~g~~~~a~~~~~~~~~~~~~~~---------------  239 (732)
                      ..++..+|.+.|.++.+..+. ....|..+       ..++.+.++..++...+...+..  .|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l--~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQI--SMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTC--CGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcC--ChhhhhhhhccCCccccc
Confidence            579999999999999998877 78899888       68888888888888877776552  221               


Q ss_pred             -------HHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCC--H
Q 004744          240 -------VYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPG--V  310 (732)
Q Consensus       240 -------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~  310 (732)
                             ......+...+...|++++|.++|+.+...+  |+......+...+.+.|++++|+..|+...... .|.  .
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                   1223345667777888888888888777654  333366666667788888888888887655431 111  2


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC--HHhHHHHHHHHHcCCCHhHHHHHHHHHHhCC
Q 004744          311 FTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPD--TATYNTLLVESCRKENMSEAEEIFCEMSRRG  375 (732)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  375 (732)
                      ..+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++....
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3566777777788888888888887764322143  2345556667777788888888877777653

>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=2.4e-07  Score=78.06  Aligned_cols=111  Identities=9%  Similarity=-0.019  Sum_probs=97.0

Q ss_pred             hHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 004744          118 SMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLR  197 (732)
Q Consensus       118 ~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  197 (732)
                      ...+......|.+.|++++|...|.+++..                  .+.++.+|..++.+|.+.|++++|+..|++++
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~------------------~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al   74 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKR------------------DPENAILYSNRAACLTKLMEFQRALDDCDTCI   74 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------------------CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHH
Confidence            456778888999999999999999999854                  45678899999999999999999999999999


Q ss_pred             HCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          198 NKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVN  248 (732)
Q Consensus       198 ~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  248 (732)
                      +.++. +..+|..+..++...|++++|.+.|+++++.. |.+...+..+..
T Consensus        75 ~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~l~-P~~~~a~~~l~~  123 (126)
T 4gco_A           75 RLDSK-FIKGYIRKAACLVAMREWSKAQRAYEDALQVD-PSNEEAREGVRN  123 (126)
T ss_dssp             HHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             Hhhhh-hhHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-cCCHHHHHHHHH
Confidence            98766 78999999999999999999999999999875 556666655544

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.72  E-value=8.3e-08  Score=83.58  Aligned_cols=103  Identities=12%  Similarity=-0.022  Sum_probs=71.0

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHH
Q 004744          589 TLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVIL  667 (732)
Q Consensus       589 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~  667 (732)
                      +...+..+...+.+.|++++|+..|++++... +.+...|..+..+|...|++++|+..|+++.+  +.| ++..|..++
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~--l~P~~~~~~~~lg  111 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFA--LGKNDYTPVFHTG  111 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSSSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHh--hCCCCcHHHHHHH
Confidence            34556666677777777777777777777643 23466677777777777777777777777777  344 345677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHH
Q 004744          668 TGFCRQGRMHDSELILWRMIEKGLNPDRS  696 (732)
Q Consensus       668 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  696 (732)
                      .+|.+.|++++|...|+++++  +.|+..
T Consensus       112 ~~~~~lg~~~eA~~~~~~al~--l~~~~~  138 (151)
T 3gyz_A          112 QCQLRLKAPLKAKECFELVIQ--HSNDEK  138 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH--HCCCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHH--hCCCHH
Confidence            777777777777777777777  556553

>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=98.72  E-value=4.1e-07  Score=80.93  Aligned_cols=130  Identities=7%  Similarity=-0.085  Sum_probs=99.8

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      +..|..++..|...|++++|+..|+++.+..+. +..++..+...+...|++++|.+.|.++++.. +.+..++..+..+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            566778888889999999999999998887655 67888888888888999999999998888764 5667778888888


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHH--HHHHHHHHcCCHHHHHHHHHHHh
Q 004744          250 LCKDHKIDSAKMFLCEMEQKGVYPDTVTYN--TLINAYCREGFLEEAFQLMNSMS  302 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~--~li~~~~~~g~~~~A~~~~~~m~  302 (732)
                      +.+.|++++|...|+++.+.... +...+.  .++..+.+.|++++|++.+....
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            88888888888888888776432 444443  33334667788888887777653

>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=98.71  E-value=4.1e-06  Score=82.65  Aligned_cols=163  Identities=8%  Similarity=-0.014  Sum_probs=120.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCC-CCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----HHHHHH
Q 004744          526 LIDGFCKVGEMEKANKLWADMISRKI-SPNY----ISYGILINGYCSMGHVTEAFRLWYEMVGKGIK-PT----LVSCNT  595 (732)
Q Consensus       526 li~~~~~~g~~~~A~~~~~~~~~~~~-~~~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~  595 (732)
                      .+..+...|++++|..++++..+... .|+.    ..+..+...+...|++++|+..|++..+.... ++    ..+++.
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            35667888899999999988876422 1221    13334666677778999999999998874222 22    336888


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHC-----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCCC-HHHHH
Q 004744          596 IIKGYCRSGDASKADEFLSKMVSE-----GVDPD-SISYNTLINGFVREENMDKAFALVSKMEN----QGLVPD-VITYN  664 (732)
Q Consensus       596 l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~g~~p~-~~~~~  664 (732)
                      +...|...|++++|...|+++++.     +..+. ..++..++..|.+.|++++|+..++++.+    .+..+. ..+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            889999999999999999998842     11122 34778889999999999999999998876    222222 56888


Q ss_pred             HHHHHHHhcCC-HHHHHHHHHHHHH
Q 004744          665 VILTGFCRQGR-MHDSELILWRMIE  688 (732)
Q Consensus       665 ~l~~~~~~~g~-~~~A~~~~~~~~~  688 (732)
                      .++.++.+.|+ +++|...++++++
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            89999999994 6999999999875

>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=98.71  E-value=6.1e-08  Score=95.10  Aligned_cols=194  Identities=11%  Similarity=0.000  Sum_probs=119.9

Q ss_pred             ChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHH
Q 004744          117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLL  196 (732)
Q Consensus       117 ~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  196 (732)
                      +...+..++..+.+.|++++|...|.+++..                  .+.+...|..++.+|.+.|++++|+..|+++
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~------------------~p~~~~~~~~la~~~~~~~~~~~A~~~~~~a   64 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR------------------NPLVAVYYTNRALCYLKMQQPEQALADCRRA   64 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------------------CCccHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            4567778888888888888888888888753                  3456778888888888888888888888888


Q ss_pred             HHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH
Q 004744          197 RNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTV  276 (732)
Q Consensus       197 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  276 (732)
                      ++..+. +...+..+..++.+.|++++|...|.++++.+ +.+...+...+....+.   .++... ..........+..
T Consensus        65 l~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~  138 (281)
T 2c2l_A           65 LELDGQ-SVKAHFFLGQCQLEMESYDEAIANLQRAYSLA-KEQRLNFGDDIPSALRI---AKKKRW-NSIEERRIHQESE  138 (281)
T ss_dssp             TTSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-HHTTCCCCSHHHHHHHH---HHHHHH-HHHHHTCCCCCCH
T ss_pred             HHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHH---HHHHHH-HHHHHHHHhhhHH
Confidence            887665 77888888888888888888888888877643 11111111112111111   111111 1122222233444


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCC-HhhHHHHHHHHHhc-CChhHHHHHHHHHHH
Q 004744          277 TYNTLINAYCREGFLEEAFQLMNSMSGKGLKPG-VFTYNSLINGLCKK-GRCDRAKEVLDEMLQ  338 (732)
Q Consensus       277 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~li~~~~~~-g~~~~A~~~~~~~~~  338 (732)
                      ....+...  ..|++++|++.++...+.  .|+ ......+...+.+. +.+++|.++|.++.+
T Consensus       139 i~~~l~~l--~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          139 LHSYLTRL--IAAERERELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHHHHHH--HHHHHHHHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHH--HHHHHHHHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            44333322  257778888777777664  333 23333333334443 556777777776654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.69  E-value=2.9e-06  Score=83.73  Aligned_cols=167  Identities=8%  Similarity=-0.036  Sum_probs=121.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---CCC--HH
Q 004744          522 TYNTLIDGFCKVGEMEKANKLWADMISRKISPNY-----ISYGILINGYCSMGHVTEAFRLWYEMVGKGI---KPT--LV  591 (732)
Q Consensus       522 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~-----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---~~~--~~  591 (732)
                      .+...+..+...|++++|.+.+.+..+.......     ..+..+...+...|++++|+..+++..+...   .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            3444566777888888888888877765322111     1234455667788899999999998875421   112  45


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC-H
Q 004744          592 SCNTIIKGYCRSGDASKADEFLSKMVSE-GVDPD-----SISYNTLINGFVREENMDKAFALVSKMENQ----GLVPD-V  660 (732)
Q Consensus       592 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----g~~p~-~  660 (732)
                      +++.+...|...|++++|...++++.+. ...|+     ..++..++..|.+.|++++|+..+++..+.    +.... .
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            7888999999999999999999998732 01122     257888999999999999999999998762    11111 5


Q ss_pred             HHHHHHHHHHHhcCCHHHH-HHHHHHHHH
Q 004744          661 ITYNVILTGFCRQGRMHDS-ELILWRMIE  688 (732)
Q Consensus       661 ~~~~~l~~~~~~~g~~~~A-~~~~~~~~~  688 (732)
                      .+|..++.+|.+.|++++| ...++++..
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            6788999999999999999 787888765

>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=98.68  E-value=4.3e-08  Score=96.20  Aligned_cols=99  Identities=9%  Similarity=-0.079  Sum_probs=71.2

Q ss_pred             chHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          169 NSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVN  248 (732)
Q Consensus       169 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  248 (732)
                      +...+..++..|.+.|++++|+..|+++++..+. +...|..+..++.+.|++++|...++++++.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            3456666777777778888888888777776544 67777777777777777777777777777654 556667777777


Q ss_pred             HHHhcCChhHHHHHHHHHHhC
Q 004744          249 ALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       249 ~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      +|...|++++|...|++..+.
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            777777777777777776654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.66  E-value=7.7e-07  Score=74.51  Aligned_cols=114  Identities=18%  Similarity=0.062  Sum_probs=73.6

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      ...|..++..|...|++++|++.|+++.+..+. +..++..+...+.+.|++++|..+|+++.+.. +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            456667777777777777777777777765443 56667777777777777777777777776653 4455666666666


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 004744          250 LCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYC  286 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~  286 (732)
                      +.+.|++++|...++++.+.... +...+..+...+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~  122 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELDPN-NAEAKQNLGNAKQ  122 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHH
Confidence            66667777777766666655322 3444444444443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.66  E-value=1.3e-07  Score=90.22  Aligned_cols=199  Identities=9%  Similarity=-0.092  Sum_probs=150.6

Q ss_pred             hCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHH-------HHHHHHcCChHHHHHHHHHHHHCCC-
Q 004744          130 RGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLV-------IRTYVQARKLREGSEVFRLLRNKGI-  201 (732)
Q Consensus       130 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l-------~~~~~~~g~~~~A~~~~~~~~~~~~-  201 (732)
                      ..++..+|.+.|.++++.                  .+.....|..+       ...+.+.++..+++..++......+ 
T Consensus        18 ~~~d~~~A~~~F~~a~~~------------------dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~   79 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNY------------------DESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMS   79 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHH------------------CTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGG
T ss_pred             cCCCHHHHHHHHHHHHHh------------------ChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChh
Confidence            689999999999999864                  44556777777       6777777788888888888776211 


Q ss_pred             ----ccC---------------HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 004744          202 ----CFS---------------INACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMF  262 (732)
Q Consensus       202 ----~~~---------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  262 (732)
                          ..+               ...+-.+...|...|++++|.++|+.+...+ +.+. ..-.+...+.+.+++++|+..
T Consensus        80 ~l~a~~~~~g~y~~~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~-p~~~-~~~~~a~l~~~~~r~~dA~~~  157 (282)
T 4f3v_A           80 TLNARIAIGGLYGDITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG-SEHL-VAWMKAVVYGAAERWTDVIDQ  157 (282)
T ss_dssp             GGCCEEECCTTTCCCEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT-CHHH-HHHHHHHHHHHTTCHHHHHHH
T ss_pred             hhhhhhccCCcccccccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CchH-HHHHHHHHHHHcCCHHHHHHH
Confidence                111               2345567788999999999999999887654 3334 666667789999999999999


Q ss_pred             HHHHHhCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCC--HhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 004744          263 LCEMEQKGVYPD--TVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPG--VFTYNSLINGLCKKGRCDRAKEVLDEMLQ  338 (732)
Q Consensus       263 ~~~~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~  338 (732)
                      |+...+.. .|.  ...+..+..++.+.|++++|++.|++.......|.  .........++.+.|+.++|..+|+++..
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            98666542 121  34677889999999999999999999985433243  44677888899999999999999999998


Q ss_pred             CCCCCCHHhHHHH
Q 004744          339 MGLSPDTATYNTL  351 (732)
Q Consensus       339 ~g~~~~~~~~~~l  351 (732)
                      .  .|+...+..|
T Consensus       237 ~--~P~~~~~~aL  247 (282)
T 4f3v_A          237 T--HPEPKVAAAL  247 (282)
T ss_dssp             H--SCCHHHHHHH
T ss_pred             c--CCcHHHHHHH
Confidence            6  4554444433

>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=98.65  E-value=1.8e-05  Score=77.78  Aligned_cols=195  Identities=8%  Similarity=0.009  Sum_probs=111.5

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-HHHHHHH
Q 004744          501 MNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVG--EMEKANKLWADMISRKISPNYISYGILINGYCSMGH-VTEAFRL  577 (732)
Q Consensus       501 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~  577 (732)
                      +++++.+++.++....+ +..+|+.-...+.+.+  .+++++.+++++.+..+. |..+|+--...+...|. ++++++.
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            45555555555554332 5555555444455555  356666666666655332 55555555555555555 4666666


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHc--------------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-----
Q 004744          578 WYEMVGKGIKPTLVSCNTIIKGYCRS--------------GDASKADEFLSKMVSEGVDPDSISYNTLINGFVRE-----  638 (732)
Q Consensus       578 ~~~~~~~~~~~~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----  638 (732)
                      ++++++.. +.|...|+.....+.+.              +.++++++.+.+++... +-|...|+.+-..+.+.     
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-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCE  245 (331)
T ss_dssp             HHHHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGG
T ss_pred             HHHHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccc
Confidence            66666553 44555555554444433              34667777777776643 23556666555555444     


Q ss_pred             ------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-----HhcCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHH
Q 004744          639 ------ENMDKAFALVSKMENQGLVPDVITYNVILTGF-----CRQGRMHDSELILWRMIEKGLNPDR-STYTTLING  704 (732)
Q Consensus       639 ------g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~-----~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~l~~~  704 (732)
                            +.++++++.++++.+  ..||. .|..+..++     ...|..++...++.++.+  ++|.. .-|..+...
T Consensus       246 ~~~~~~~~l~~el~~~~elle--~~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~--~Dp~r~~~y~d~~~~  318 (331)
T 3dss_A          246 LSVEKSTVLQSELESCKELQE--LEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRAAYLDDLRSK  318 (331)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHH--HCTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH--HCGGGHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHh--hCccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHH--hCcchhhHHHHHHHH
Confidence                  457788888888887  56664 343322222     245777788888888888  77753 445555433

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.65  E-value=6.1e-07  Score=76.25  Aligned_cols=121  Identities=7%  Similarity=-0.099  Sum_probs=92.6

Q ss_pred             CCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 004744          166 CGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNI  245 (732)
Q Consensus       166 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  245 (732)
                      .+.++..|..++..|.+.|++++|+..|+++.+..+. +...+..+...+...|++++|.+.|+++++.. +.+...+..
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~   89 (133)
T 2lni_A           12 NPDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPK-DAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTR   89 (133)
T ss_dssp             SSCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHH
Confidence            4456788888899999999999999999998887654 67888888888888888888888888888764 556777777


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC
Q 004744          246 MVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREG  289 (732)
Q Consensus       246 l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g  289 (732)
                      +..++.+.|++++|...|++..+.... +...+..+...+.+.|
T Consensus        90 la~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           90 KAAALEAMKDYTKAMDVYQKALDLDSS-CKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCGG-GTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHhc
Confidence            788888888888888888887766322 3455666666665544

>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=98.64  E-value=7.2e-07  Score=79.33  Aligned_cols=131  Identities=11%  Similarity=0.005  Sum_probs=110.2

Q ss_pred             hHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 004744          118 SMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLR  197 (732)
Q Consensus       118 ~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  197 (732)
                      ...|..+...+...|++++|...|.+++..                  .+.+..++..++..|...|++++|+..|++..
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~------------------~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~   74 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIEL------------------NPSNAIYYGNRSLAYLRTECYGYALGDATRAI   74 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHh------------------CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            467788899999999999999999999853                  34467889999999999999999999999999


Q ss_pred             HCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH--HHHHHhcCChhHHHHHHHHHHh
Q 004744          198 NKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIM--VNALCKDHKIDSAKMFLCEMEQ  268 (732)
Q Consensus       198 ~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l--~~~~~~~g~~~~A~~~~~~~~~  268 (732)
                      +..+. +...|..+..++.+.|++++|.+.|+++++.. +.+...+..+  +..+.+.|++++|...+.....
T Consensus        75 ~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           75 ELDKK-YIKGYYRRAASNMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhCcc-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            88655 78899999999999999999999999999875 4555565443  4447788999999998887643

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.64  E-value=7.6e-07  Score=75.27  Aligned_cols=120  Identities=8%  Similarity=-0.100  Sum_probs=85.3

Q ss_pred             chHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          169 NSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVN  248 (732)
Q Consensus       169 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  248 (732)
                      +...+..++..+...|++++|+..|+++....+. +...+..+...+...|++++|.+.+..+++.. +.+...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPA-NAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            4566777788888888888888888888776544 66777777778888888888888888777654 455666777777


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCH
Q 004744          249 ALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFL  291 (732)
Q Consensus       249 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~  291 (732)
                      .+.+.|++++|...|++..+.... +...+..+...+.+.|++
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELDPD-NETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTTC
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHhcC
Confidence            777777777777777777665322 455666666666665553

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.63  E-value=8.4e-07  Score=75.38  Aligned_cols=120  Identities=6%  Similarity=-0.045  Sum_probs=103.1

Q ss_pred             CCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHH
Q 004744          115 KHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFR  194 (732)
Q Consensus       115 ~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  194 (732)
                      ..+..+|..++..+.+.|++++|...+.+++.                  ..+.+..++..++..|...|++++|+..|+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~------------------~~~~~~~~~~~la~~~~~~~~~~~A~~~~~   74 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIK------------------RNPKDAKLYSNRAACYTKLLEFQLALKDCE   74 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHT------------------TCTTCHHHHHHHHHHHTTTTCHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH------------------cCCCcHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            45678899999999999999999999999973                  244568889999999999999999999999


Q ss_pred             HHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 004744          195 LLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDH  254 (732)
Q Consensus       195 ~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  254 (732)
                      ++.+..+. +...+..+..++.+.|++++|.+.|+++++.. +.+...+..+..++.+.|
T Consensus        75 ~a~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           75 ECIQLEPT-FIKGYTRKAAALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHhCCC-chHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            99987655 78899999999999999999999999998864 455667777777776655

>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=98.61  E-value=1.7e-05  Score=78.04  Aligned_cols=167  Identities=9%  Similarity=-0.038  Sum_probs=111.9

Q ss_pred             HHHcCChH-HHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCC----------hHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          180 YVQARKLR-EGSEVFRLLRNKGICFSINACNSLLGGLVKIGW----------VDLAREVYAEVVRSGIELNVYTLNIMVN  248 (732)
Q Consensus       180 ~~~~g~~~-~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~  248 (732)
                      ..+.|.++ +|+..++.++..++. +..+|+.--..+...+.          +++++.+++.++... |.+..+|+--..
T Consensus        39 ~~~~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~w  116 (331)
T 3dss_A           39 KRQAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCW  116 (331)
T ss_dssp             HHHTTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34455544 789999999988877 77788776655554443          577778888877764 667777777666


Q ss_pred             HHHhcCC--hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhc--
Q 004744          249 ALCKDHK--IDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGF-LEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKK--  323 (732)
Q Consensus       249 ~~~~~g~--~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~--  323 (732)
                      .+.+.|+  ++++..+++.+.+..+. |-.+|+.-...+...|. ++++++.++.+++.++. |..+|+.....+.+.  
T Consensus       117 lL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~  194 (331)
T 3dss_A          117 LLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHP  194 (331)
T ss_dssp             HHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSC
T ss_pred             HHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhh
Confidence            6767663  67888888888877544 66777777766777777 57888888888776554 777777766665554  


Q ss_pred             ------------CChhHHHHHHHHHHHCCCCCCHHhHHHH
Q 004744          324 ------------GRCDRAKEVLDEMLQMGLSPDTATYNTL  351 (732)
Q Consensus       324 ------------g~~~~A~~~~~~~~~~g~~~~~~~~~~l  351 (732)
                                  +.++++++.+.+.+... +-|..+|+-+
T Consensus       195 ~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~  233 (331)
T 3dss_A          195 QPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYH  233 (331)
T ss_dssp             CC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             ccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence                        23455555555555443 3344445433

>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=98.61  E-value=3e-07  Score=83.08  Aligned_cols=123  Identities=5%  Similarity=-0.048  Sum_probs=99.1

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHhcCCh--
Q 004744          180 YVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA-LCKDHKI--  256 (732)
Q Consensus       180 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~--  256 (732)
                      +...|++++|+..|++..+..+. +...|..+...+...|++++|...|+++++.. +.+...+..+..+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHCCS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            34678899999999998887665 78889999999999999999999999998765 5577788888888 7788998  


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCC
Q 004744          257 DSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKG  305 (732)
Q Consensus       257 ~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  305 (732)
                      ++|...++++.+.... +...+..+...|.+.|++++|...|+++.+..
T Consensus        98 ~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           98 AQTRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            9999999998887433 56778888889999999999999999988764

>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=98.59  E-value=7.7e-07  Score=89.67  Aligned_cols=93  Identities=10%  Similarity=0.016  Sum_probs=57.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHH
Q 004744          626 ISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTLIN  703 (732)
Q Consensus       626 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~  703 (732)
                      ..|..+..+|.+.|++++|+..++++++.  .| +...|..++.+|...|++++|...|+++++  +.| +...+..+..
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~l~~  272 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALEL--DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQ--LYPNNKAAKTQLAV  272 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHH
Confidence            55666666666666666666666666663  33 445666666666666666666666666666  455 3456666666


Q ss_pred             HHHhcCCHHHH-HHHHHHHH
Q 004744          704 GHVSQNNLKEA-FRFHDEML  722 (732)
Q Consensus       704 ~~~~~g~~~~A-~~~~~~m~  722 (732)
                      ++...|++++| ...+++|.
T Consensus       273 ~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          273 CQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            66666666666 33445443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.59  E-value=1.5e-06  Score=72.69  Aligned_cols=113  Identities=20%  Similarity=0.134  Sum_probs=70.6

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 004744          205 INACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINA  284 (732)
Q Consensus       205 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~  284 (732)
                      ...|..+...+.+.|++++|.+.|+++++.. +.+..++..+...+.+.|++++|...++++.+... .+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHH
Confidence            4566666677777777777777777776653 44566666666677777777777777777666532 245566666666


Q ss_pred             HHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHH
Q 004744          285 YCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGL  320 (732)
Q Consensus       285 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~  320 (732)
                      |.+.|++++|.+.++++...... +...+..+...+
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~  121 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELDPN-NAEAKQNLGNAK  121 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHH
Confidence            66777777777777666654322 344444444443

>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=98.58  E-value=4e-07  Score=79.32  Aligned_cols=102  Identities=13%  Similarity=-0.032  Sum_probs=82.0

Q ss_pred             CCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 004744          166 CGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNI  245 (732)
Q Consensus       166 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  245 (732)
                      .+.+...+..++..+.+.|++++|+..|+++....+. +...|..+..++.+.|++++|...|+++++.. |.+..++..
T Consensus        17 ~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~   94 (148)
T 2vgx_A           17 SSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFH   94 (148)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHH
T ss_pred             CHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHH
Confidence            3445667777888888888888888888888877665 77888888888888888888888888888765 556777777


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhC
Q 004744          246 MVNALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       246 l~~~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      +..+|...|++++|...|++..+.
T Consensus        95 lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           95 AAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            888888888888888888887765

>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=98.58  E-value=9.6e-07  Score=88.96  Aligned_cols=132  Identities=14%  Similarity=-0.036  Sum_probs=94.2

Q ss_pred             chHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccC--------------HHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 004744          169 NSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFS--------------INACNSLLGGLVKIGWVDLAREVYAEVVRS  234 (732)
Q Consensus       169 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  234 (732)
                      +...+..++..|.+.|++++|+..|+++++..+...              ..+|..+..++.+.|++++|+..|+++++.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            356778888888888999999999988887765522              467777777777777777777777777776


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHH-HHHHHHHh
Q 004744          235 GIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEA-FQLMNSMS  302 (732)
Q Consensus       235 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A-~~~~~~m~  302 (732)
                      . +.+..++..+..+|...|++++|+..|+++.+.... +..++..+...+.+.|++++| .+++..|.
T Consensus       226 ~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          226 D-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4 556667777777777777777777777777766432 456666677777777777766 34555543

>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=98.58  E-value=2.7e-07  Score=83.33  Aligned_cols=122  Identities=8%  Similarity=0.007  Sum_probs=103.7

Q ss_pred             HhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHH
Q 004744          129 VRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINAC  208 (732)
Q Consensus       129 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  208 (732)
                      ...|++++|...+.+++..                  .+.++.+|..++..|...|++++|+..|+++.+..+. +...+
T Consensus        21 ~~~~~~~~A~~~~~~al~~------------------~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~   81 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRA------------------NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGE-NAELY   81 (177)
T ss_dssp             C-----CCCCHHHHHHHHH------------------CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCS-CHHHH
T ss_pred             hhccCHHHHHHHHHHHHHh------------------CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHH
Confidence            4578889999999988753                  3456789999999999999999999999999987665 78888


Q ss_pred             HHHHHH-HHHcCCh--HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 004744          209 NSLLGG-LVKIGWV--DLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKG  270 (732)
Q Consensus       209 ~~ll~~-~~~~g~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g  270 (732)
                      ..+..+ +.+.|++  ++|...|+++++.. +.+...+..+...|...|++++|...|+++.+..
T Consensus        82 ~~la~~l~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           82 AALATVLYYQASQHMTAQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            889988 7899998  99999999999875 6678889999999999999999999999999874

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.57  E-value=1.5e-06  Score=73.34  Aligned_cols=120  Identities=10%  Similarity=-0.073  Sum_probs=104.2

Q ss_pred             ChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHH
Q 004744          117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLL  196 (732)
Q Consensus       117 ~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  196 (732)
                      +...+..++..+...|++++|...+.+++..                  .+.+..++..++..|...|++++|+..|+++
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~------------------~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~   72 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIEL------------------NPANAVYFCNRAAAYSKLGNYAGAVQDCERA   72 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHc------------------CCCCHHHHHHHHHHHHHhhchHHHHHHHHHH
Confidence            4567888899999999999999999999853                  3445788999999999999999999999999


Q ss_pred             HHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004744          197 RNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKI  256 (732)
Q Consensus       197 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  256 (732)
                      .+..+. +...+..+...+.+.|++++|...|+++.+.. +.+...+..+..++.+.|++
T Consensus        73 ~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           73 ICIDPA-YSKAYGRMGLALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HhcCcc-CHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            987655 68899999999999999999999999999875 56778888888888887765

>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=7.1e-07  Score=82.50  Aligned_cols=156  Identities=10%  Similarity=-0.041  Sum_probs=87.6

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHHcCCH
Q 004744          532 KVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGK----GI-KPTLVSCNTIIKGYCRSGDA  606 (732)
Q Consensus       532 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~  606 (732)
                      ..|++++|.+.++.+.. ........+..+...+...|++++|...+++....    +. +....++..+...+...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            34556666553333322 12223445556666666666666666666665541    11 11234556666667777777


Q ss_pred             HHHHHHHHHHHHC----CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC---CCCC--HHHHHHHHHHHHhcCC
Q 004744          607 SKADEFLSKMVSE----GVDP--DSISYNTLINGFVREENMDKAFALVSKMENQG---LVPD--VITYNVILTGFCRQGR  675 (732)
Q Consensus       607 ~~A~~~~~~~~~~----~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g---~~p~--~~~~~~l~~~~~~~g~  675 (732)
                      ++|.+.+++..+.    +..+  ....+..+...+...|++++|...+++.....   -.+.  ..++..+...+...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            7777777766543    1011  13345666677777777777777777765410   0111  2245667777777888


Q ss_pred             HHHHHHHHHHHHH
Q 004744          676 MHDSELILWRMIE  688 (732)
Q Consensus       676 ~~~A~~~~~~~~~  688 (732)
                      +++|...++++.+
T Consensus       163 ~~~A~~~~~~al~  175 (203)
T 3gw4_A          163 LLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            8888877777765

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.56  E-value=5.5e-07  Score=83.27  Aligned_cols=156  Identities=12%  Similarity=-0.057  Sum_probs=88.6

Q ss_pred             HHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc----CC-CCCHHHHHHHHHHHHhcCC
Q 004744          181 VQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRS----GI-ELNVYTLNIMVNALCKDHK  255 (732)
Q Consensus       181 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~  255 (732)
                      ...|++++|.+.++.+.. .+.....++..+...+...|++++|...+++++..    +. +....++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            456788888885555443 22235667777778888888888888888877651    11 2233456666666777777


Q ss_pred             hhHHHHHHHHHHhC----CCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC----CCC-CCHhhHHHHHHHHHhcC
Q 004744          256 IDSAKMFLCEMEQK----GVYP--DTVTYNTLINAYCREGFLEEAFQLMNSMSGK----GLK-PGVFTYNSLINGLCKKG  324 (732)
Q Consensus       256 ~~~A~~~~~~~~~~----g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~-p~~~~~~~li~~~~~~g  324 (732)
                      +++|...+++..+.    +-.+  ...++..+...+...|++++|.+.+++....    +.. .-..++..+...+...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            77777776665543    1011  1334566666666677777777766665431    100 01123345555555666


Q ss_pred             ChhHHHHHHHHHH
Q 004744          325 RCDRAKEVLDEML  337 (732)
Q Consensus       325 ~~~~A~~~~~~~~  337 (732)
                      ++++|...+++..
T Consensus       162 ~~~~A~~~~~~al  174 (203)
T 3gw4_A          162 NLLEAQQHWLRAR  174 (203)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            6666666555544

>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=98.55  E-value=3.4e-07  Score=79.79  Aligned_cols=110  Identities=11%  Similarity=-0.059  Sum_probs=69.5

Q ss_pred             HHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 004744          192 VFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGV  271 (732)
Q Consensus       192 ~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~  271 (732)
                      .|+++....+. +...+..+...+.+.|++++|...|++++... +.+...|..+..+|.+.|++++|...|++.....+
T Consensus         9 ~~~~al~~~p~-~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p   86 (148)
T 2vgx_A            9 TIAMLNEISSD-TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI   86 (148)
T ss_dssp             SHHHHTTCCHH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             hHHHHHcCCHh-hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            34555544332 45556666667777777777777777766654 55666666666667777777777777777666533


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC
Q 004744          272 YPDTVTYNTLINAYCREGFLEEAFQLMNSMSGK  304 (732)
Q Consensus       272 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  304 (732)
                      . +...+..+...|...|++++|.+.|+...+.
T Consensus        87 ~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           87 X-EPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             T-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             C-CchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            2 4555666666666677777777666666553

>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=98.53  E-value=1.8e-06  Score=72.71  Aligned_cols=98  Identities=11%  Similarity=-0.027  Sum_probs=75.5

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      ...|..++..+.+.|++++|+..|+++++..+. +...|..+..++.+.|++++|...|+++++.. +.+...+..+..+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            455667777888888888888888888877655 67778888888888888888888888887764 5566777777777


Q ss_pred             HHhcCChhHHHHHHHHHHhC
Q 004744          250 LCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~  269 (732)
                      +...|++++|...|++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHh
Confidence            77888888888877777765

>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=98.52  E-value=3.7e-07  Score=77.08  Aligned_cols=104  Identities=12%  Similarity=0.103  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--------HHH
Q 004744          591 VSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPD--------VIT  662 (732)
Q Consensus       591 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~--------~~~  662 (732)
                      ..+..+...+.+.|++++|++.|++.++.. +.+...|..+..+|.+.|++++|++.+++.++  +.|+        ..+
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~~a~~   85 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVE--VGRETRADYKLIAKA   85 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHH--hCcccchhhHHHHHH
Confidence            445566666777777777777777766642 22455666666777777777777777776665  2221        124


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 004744          663 YNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYT  699 (732)
Q Consensus       663 ~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~  699 (732)
                      |..++.++...|++++|+..|++.++  ..||+....
T Consensus        86 ~~~lg~~~~~~~~~~~A~~~~~kal~--~~~~~~~~~  120 (127)
T 4gcn_A           86 MSRAGNAFQKQNDLSLAVQWFHRSLS--EFRDPELVK  120 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH--HSCCHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh--hCcCHHHHH
Confidence            55566666666777777777777666  555655443

>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=98.51  E-value=1.8e-07  Score=86.39  Aligned_cols=131  Identities=11%  Similarity=0.065  Sum_probs=86.5

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-C--------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 004744          591 VSCNTIIKGYCRSGDASKADEFLSKMVSEGVD-P--------------DSISYNTLINGFVREENMDKAFALVSKMENQG  655 (732)
Q Consensus       591 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~--------------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  655 (732)
                      ..+..+...+...|++++|++.|++.++.... |              ....|..+..+|.+.|++++|+..++++.+. 
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~-  117 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI-  117 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh-
Confidence            34445555566666666666666666553211 1              0257777888888889999999988888874 


Q ss_pred             CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHH-HHHHHHHHCC
Q 004744          656 LVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTLINGHVSQNNLKEAF-RFHDEMLQRG  725 (732)
Q Consensus       656 ~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~-~~~~~m~~~g  725 (732)
                       .| +...|..++.+|...|++++|...|+++++  +.| +...+..+..++...|+.+++. ..++.|...|
T Consensus       118 -~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          118 -DKNNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             -STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHHHHHHC-------------
T ss_pred             -CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHH--HCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence             44 567788888888888999999999999888  666 4677888888888888888777 5566665443

>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=98.50  E-value=1.1e-06  Score=74.09  Aligned_cols=96  Identities=14%  Similarity=0.120  Sum_probs=42.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCC----HHHHHH
Q 004744          557 SYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEG--VDPD----SISYNT  630 (732)
Q Consensus       557 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~----~~~~~~  630 (732)
                      .+..+...+.+.|++++|+..|++.++.. |.+...|..+..+|.+.|++++|++.+++.++..  ..++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            34444444455555555555555444432 3334444444445555555555555554444321  0011    123344


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH
Q 004744          631 LINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       631 li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      +...+...|++++|++.|++.++
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            44444445555555555554444

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.50  E-value=1.1e-06  Score=75.85  Aligned_cols=102  Identities=11%  Similarity=-0.071  Sum_probs=84.5

Q ss_pred             CCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 004744          166 CGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNI  245 (732)
Q Consensus       166 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  245 (732)
                      .+.+...+..++..+.+.|++++|+..|+++...++. +...|..+..++.+.|++++|...|+++++.. |.+...+..
T Consensus        14 ~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~   91 (142)
T 2xcb_A           14 SEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFH   91 (142)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHH
Confidence            3445666777888888999999999999998887765 78888888888999999999999999888875 667777888


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhC
Q 004744          246 MVNALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       246 l~~~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      +..+|...|++++|...|++..+.
T Consensus        92 lg~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           92 AAECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh
Confidence            888888889999998888888765

>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=98.47  E-value=5.9e-06  Score=68.12  Aligned_cols=99  Identities=10%  Similarity=-0.126  Sum_probs=67.4

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      +..+..++..+...|++++|+..|+++....+. +...+..+...+.+.|++++|...++++++.. +.+...+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            445666677777777777777777777766544 56667777777777777777777777776653 4455666666666


Q ss_pred             HHhcCChhHHHHHHHHHHhCC
Q 004744          250 LCKDHKIDSAKMFLCEMEQKG  270 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~g  270 (732)
                      +.+.|++++|...+++..+.+
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHhhHHHHHHHHHHHHHcC
Confidence            666777777777776666553

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.43  E-value=1.7e-06  Score=72.22  Aligned_cols=92  Identities=13%  Similarity=0.042  Sum_probs=69.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHH
Q 004744          628 YNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTLINGH  705 (732)
Q Consensus       628 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~  705 (732)
                      +..+...+.+.|++++|+..++++++  ..| +...|..++.++...|++++|+..|+++++  +.| +...+..++.+|
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~--l~P~~~~~~~~la~~~   95 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQ--KEPEREEAWRSLGLTQAENEKDGLAIIALNHARM--LDPKDIAVHAALAVSH   95 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHH
Confidence            34455667778888888888888877  344 566777777778888888888888888887  666 457777888888


Q ss_pred             HhcCCHHHHHHHHHHHHH
Q 004744          706 VSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       706 ~~~g~~~~A~~~~~~m~~  723 (732)
                      ...|++++|...+++.++
T Consensus        96 ~~~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           96 TNEHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHC
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            888888888888888773

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.43  E-value=2.5e-06  Score=73.64  Aligned_cols=101  Identities=11%  Similarity=-0.054  Sum_probs=81.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHH
Q 004744          589 TLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVIL  667 (732)
Q Consensus       589 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~  667 (732)
                      +...+..+...+.+.|++++|+..|++++... +.+...|..+..+|.+.|++++|+..++++...  .| ++..|..++
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg   93 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALM--DINEPRFPFHAA   93 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCcHHHHHHH
Confidence            44566677778888999999999999888753 236777888888899999999999999998884  44 556778888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 004744          668 TGFCRQGRMHDSELILWRMIEKGLNPD  694 (732)
Q Consensus       668 ~~~~~~g~~~~A~~~~~~~~~~g~~p~  694 (732)
                      .+|...|++++|...|+++++  +.|+
T Consensus        94 ~~~~~~g~~~~A~~~~~~al~--~~p~  118 (142)
T 2xcb_A           94 ECHLQLGDLDGAESGFYSARA--LAAA  118 (142)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH--HHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHHH--hCCC
Confidence            888999999999999999887  5553

>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=98.41  E-value=5.4e-06  Score=69.71  Aligned_cols=96  Identities=16%  Similarity=0.055  Sum_probs=66.9

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHH
Q 004744          590 LVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILT  668 (732)
Q Consensus       590 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~  668 (732)
                      ...+......+.+.|++++|+..|++.++.. +.+...|..+..++.+.|++++|+..++++++.  .| +...|..++.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~   80 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEK--DPNFVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHH
Confidence            3455566666777777777777777776643 234666777777777777777777777777763  34 4556777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 004744          669 GFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       669 ~~~~~g~~~~A~~~~~~~~~  688 (732)
                      ++...|++++|...|+++++
T Consensus        81 ~~~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           81 AQIAVKEYASALETLDAART  100 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHH
Confidence            77777777777777777776

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.41  E-value=3e-06  Score=69.25  Aligned_cols=101  Identities=15%  Similarity=-0.040  Sum_probs=77.1

Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC--CHHHHHH
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIEL--NVYTLNI  245 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~  245 (732)
                      .+...|..++..|.+.|++++|+..|+++.+..+. +...+..+...+.+.|++++|.+.|+++++.. +.  +...+..
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~   81 (112)
T 2kck_A            4 QNPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPE-ESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAA   81 (112)
T ss_dssp             SSTTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHH
Confidence            34566777788888888888888888888876554 67777888888888888888888888887754 44  5667777


Q ss_pred             HHHHHHhc-CChhHHHHHHHHHHhCC
Q 004744          246 MVNALCKD-HKIDSAKMFLCEMEQKG  270 (732)
Q Consensus       246 l~~~~~~~-g~~~~A~~~~~~~~~~g  270 (732)
                      +..++.+. |++++|.+.+++..+..
T Consensus        82 l~~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           82 KADALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHhhcc
Confidence            77777777 88888888887777663

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.41  E-value=4.4e-06  Score=74.15  Aligned_cols=102  Identities=7%  Similarity=-0.132  Sum_probs=86.5

Q ss_pred             CCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 004744          167 GSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIM  246 (732)
Q Consensus       167 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  246 (732)
                      ..+...|..++..|.+.|++++|+..|+++++..+. +...|..+..++.+.|++++|+..|+++++.. +.+...+..+
T Consensus         8 ~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l   85 (164)
T 3sz7_A            8 TPESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRL   85 (164)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            345677888889999999999999999999887665 78888889999999999999999999988875 5667888888


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCC
Q 004744          247 VNALCKDHKIDSAKMFLCEMEQKG  270 (732)
Q Consensus       247 ~~~~~~~g~~~~A~~~~~~~~~~g  270 (732)
                      ..+|.+.|++++|...|++..+..
T Consensus        86 g~~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           86 GLARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC
Confidence            888888999999999888888763

>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=98.40  E-value=3.9e-06  Score=77.24  Aligned_cols=124  Identities=12%  Similarity=-0.075  Sum_probs=78.5

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccC---------------HHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFS---------------INACNSLLGGLVKIGWVDLAREVYAEVVRS  234 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  234 (732)
                      ...+..++..|.+.|++++|+..|+++.+..+...               ..+|..+..++.+.|++++|...++.+++.
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  117 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI  117 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            45567778888899999999999999887644311               256666666666677777777777666665


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 004744          235 GIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAF  295 (732)
Q Consensus       235 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  295 (732)
                      . +.+..++..+..+|...|++++|...|++..+.... +..++..+...+.+.++.+++.
T Consensus       118 ~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~~~  176 (198)
T 2fbn_A          118 D-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYELCVNKLKEARKKD  176 (198)
T ss_dssp             S-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHC--
T ss_pred             C-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHHHHHHHH
Confidence            3 445556666666666666666666666666655322 4445555555555555554444

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.39  E-value=2.4e-06  Score=69.84  Aligned_cols=96  Identities=9%  Similarity=-0.058  Sum_probs=67.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HHHHHHH
Q 004744          625 SISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD---RSTYTTL  701 (732)
Q Consensus       625 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~---~~~~~~l  701 (732)
                      ...+..+...+...|++++|...++++.+.. +.+...|..++..+...|++++|...++++.+  ..|+   ...|..+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~~~l   82 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVIN--VIEDEYNKDVWAAK   82 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TSCCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCcccchHHHHHHH
Confidence            3445566667777777777777777777631 23456677777777777777888777777777  4444   5677777


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHHH
Q 004744          702 INGHVSQ-NNLKEAFRFHDEMLQ  723 (732)
Q Consensus       702 ~~~~~~~-g~~~~A~~~~~~m~~  723 (732)
                      +.++... |++++|.+.+++.++
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhh
Confidence            7777777 888888887777764

>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=98.39  E-value=8.9e-06  Score=67.01  Aligned_cols=111  Identities=12%  Similarity=-0.011  Sum_probs=94.2

Q ss_pred             hHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 004744          118 SMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLR  197 (732)
Q Consensus       118 ~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  197 (732)
                      +..+..++..+...|++++|...+.+++..                  .+.++..+..++..|...|++++|+..++++.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~------------------~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~   65 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKL------------------DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTV   65 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHH------------------CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHH
Confidence            567888899999999999999999999853                  34467889999999999999999999999999


Q ss_pred             HCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          198 NKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVN  248 (732)
Q Consensus       198 ~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  248 (732)
                      +..+. +...+..+..++.+.|++++|.+.|+++.+.+ +.+...+..+..
T Consensus        66 ~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  114 (118)
T 1elw_A           66 DLKPD-WGKGYSRKAAALEFLNRFEEAKRTYEEGLKHE-ANNPQLKEGLQN  114 (118)
T ss_dssp             HHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHH
T ss_pred             HhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcC-CCCHHHHHHHHH
Confidence            88655 78899999999999999999999999998764 455555554443

>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=98.37  E-value=2.2e-06  Score=72.35  Aligned_cols=112  Identities=10%  Similarity=0.079  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCC----HHHHH
Q 004744          591 VSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGL--VPD----VITYN  664 (732)
Q Consensus       591 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~--~p~----~~~~~  664 (732)
                      ..+..+...+...|++++|...+++..+.. +.+...+..++..+...|++++|...++++.+...  .++    ..+|.
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            345555666666666666666666666542 23455666666666677777777777776665210  111    55666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 004744          665 VILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGH  705 (732)
Q Consensus       665 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  705 (732)
                      .++.++...|++++|...|+++.+  ..|+...+..+..+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~l~~~~  122 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLA--EHRTPDVLKKCQQAE  122 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH--HCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHH--hCCCHHHHHHHHHHH
Confidence            777777777777777777777777  455655555554443

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.36  E-value=3.1e-06  Score=71.43  Aligned_cols=98  Identities=11%  Similarity=0.083  Sum_probs=68.5

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC-------HHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELN-------VYT  242 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-------~~~  242 (732)
                      +..|..++..|...|++++|+..|+++.+..+. +...+..+...+...|++++|...|+++++.. +.+       ..+
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~   81 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVG-RENREDYRQIAKA   81 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc-cccchhHHHHHHH
Confidence            455667777888888888888888888776544 66777777777888888888888887776643 112       455


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhC
Q 004744          243 LNIMVNALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       243 ~~~l~~~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      +..+..++.+.|++++|...|+++.+.
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            666666666666666666666666654

>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=98.36  E-value=5.4e-06  Score=70.81  Aligned_cols=101  Identities=9%  Similarity=-0.075  Sum_probs=79.3

Q ss_pred             CCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 004744          167 GSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIM  246 (732)
Q Consensus       167 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  246 (732)
                      +.++..|..++..|...|++++|+..|+++.+..+. +...|..+..++.+.|++++|...|+++++.. +.+...+..+
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   83 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFL   83 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHH
Confidence            345677888888888888888888888888877655 67788888888888888888888888887765 5567777777


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhC
Q 004744          247 VNALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       247 ~~~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      ..++...|++++|...|++..+.
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH
Confidence            88888888888888888777654

>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=98.34  E-value=8.5e-06  Score=69.58  Aligned_cols=99  Identities=8%  Similarity=0.004  Sum_probs=81.2

Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHH
Q 004744          587 KPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNV  665 (732)
Q Consensus       587 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~  665 (732)
                      +.+...+..+...+...|++++|...|++.+... +.+...|..+..++...|++++|...++++.+.  .| +...|..
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~   82 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFF   82 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CchhHHHHHH
Confidence            4567788888888889999999999998888753 235778888888888999999999999988884  34 5678888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH
Q 004744          666 ILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       666 l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      ++.++...|++++|...|+++++
T Consensus        83 l~~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           83 LGQCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHH
Confidence            88888889999999999988887

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.34  E-value=5.1e-06  Score=73.72  Aligned_cols=103  Identities=11%  Similarity=0.014  Sum_probs=89.5

Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHH
Q 004744          587 KPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNV  665 (732)
Q Consensus       587 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~  665 (732)
                      +.+...+..+...+.+.|++++|++.|++.++.. +.+...|..+..+|.+.|++++|+..++++++.  .| +...|..
T Consensus         8 ~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~   84 (164)
T 3sz7_A            8 TPESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVV--DPKYSKAWSR   84 (164)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence            3456778888999999999999999999999854 236788999999999999999999999999984  45 5778999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 004744          666 ILTGFCRQGRMHDSELILWRMIEKGLNPD  694 (732)
Q Consensus       666 l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  694 (732)
                      +..+|...|++++|...|+++++  +.|+
T Consensus        85 lg~~~~~~g~~~~A~~~~~~al~--~~p~  111 (164)
T 3sz7_A           85 LGLARFDMADYKGAKEAYEKGIE--AEGN  111 (164)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HHSS
T ss_pred             HHHHHHHccCHHHHHHHHHHHHH--hCCC
Confidence            99999999999999999999998  5664

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.34  E-value=3.9e-06  Score=69.96  Aligned_cols=96  Identities=13%  Similarity=-0.079  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 004744          172 IFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALC  251 (732)
Q Consensus       172 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  251 (732)
                      .+..++..+.+.|++++|+..|+++++..+. +...|..+..++.+.|++++|+..|+++++.. |.+...+..+..++.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            3556677788888888888888888887665 77888888888888888888888888888765 556777777888888


Q ss_pred             hcCChhHHHHHHHHHHhC
Q 004744          252 KDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       252 ~~g~~~~A~~~~~~~~~~  269 (732)
                      +.|++++|+..+++..+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC-
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            888888888888887765

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.34  E-value=2.1e-05  Score=82.42  Aligned_cols=197  Identities=7%  Similarity=-0.020  Sum_probs=95.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCH----------------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC
Q 004744          492 IHGHCKDGNMNKALNLFDIMTQKSIKPDI----------------VTYNTLIDGFCKVGEMEKANKLWADMISRKIS-PN  554 (732)
Q Consensus       492 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~----------------~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~  554 (732)
                      ...+.+.|++++|++.|..+++.......                ..+..+...|.+.|++++|.+.+.++.+.... ++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            44556677777777777777765332110                12445566666666666666666655432100 11


Q ss_pred             H----HHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCC-
Q 004744          555 Y----ISYGILINGYCSMGHVTEAFRLWYEMVGK----GIKP-TLVSCNTIIKGYCRSGDASKADEFLSKMVSE--GVD-  622 (732)
Q Consensus       555 ~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~-  622 (732)
                      .    .+.+.+...+...|++++|..++++....    +..+ -..++..++..|...|++++|..+++++...  +.. 
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            1    11222222333445566666666554421    1111 1334455555566666666666666555432  111 


Q ss_pred             -C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          623 -P-DSISYNTLINGFVREENMDKAFALVSKMEN----QGLVPD--VITYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       623 -~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~g~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                       + ....+..++..|...|++++|..++++...    .+.++.  ...+..++..+...|++++|...|.++.+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence             1 123455555555666666666666555443    111111  12334444444555566666655555554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.32  E-value=1.6e-05  Score=68.68  Aligned_cols=111  Identities=19%  Similarity=0.147  Sum_probs=76.4

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHH
Q 004744          588 PTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPD----SISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVIT  662 (732)
Q Consensus       588 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~  662 (732)
                      .+...+..+...+...|++++|.+.|++..+.  .|+    ...+..+...|...|++++|+..+++..+.  .| +...
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~  101 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK--DGGDVKA  101 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TSCCHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CccCHHH
Confidence            34566666777777777777777777777664  344    466677777777788888888888777763  34 4567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHH
Q 004744          663 YNVILTGFCRQGRMHDSELILWRMIEKGLNPD-RSTYTTLING  704 (732)
Q Consensus       663 ~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~  704 (732)
                      |..++.++...|++++|...|+++++  +.|+ ...+..+...
T Consensus       102 ~~~~a~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~  142 (148)
T 2dba_A          102 LYRRSQALEKLGRLDQAVLDLQRCVS--LEPKNKVFQEALRNI  142 (148)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHH--HCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHH
Confidence            77777777888888888888888877  5564 4444444443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.30  E-value=3.2e-06  Score=74.46  Aligned_cols=132  Identities=11%  Similarity=0.016  Sum_probs=90.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHH
Q 004744          592 SCNTIIKGYCRSGDASKADEFLSKMVSEGV-DPD----SISYNTLINGFVREENMDKAFALVSKMENQ----GLVP-DVI  661 (732)
Q Consensus       592 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----g~~p-~~~  661 (732)
                      ++..+...+...|++++|.+.+++..+... .++    ...+..+...+...|++++|...++++.+.    +..+ ...
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            455555666666666666666666554210 011    235666777778888888888888876651    1111 134


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          662 TYNVILTGFCRQGRMHDSELILWRMIEK----GLNP-DRSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       662 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      ++..++..+...|++++|...+++..+.    +..+ ...++..++.++...|++++|.+.+++.++
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            6777888888999999999999888752    1111 135788889999999999999999998875

>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=98.29  E-value=8.4e-06  Score=70.03  Aligned_cols=59  Identities=7%  Similarity=-0.028  Sum_probs=36.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-------CCC-HHHH----HHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          662 TYNVILTGFCRQGRMHDSELILWRMIEKGL-------NPD-RSTY----TTLINGHVSQNNLKEAFRFHDEML  722 (732)
Q Consensus       662 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~-------~p~-~~~~----~~l~~~~~~~g~~~~A~~~~~~m~  722 (732)
                      .|..+..++.+.|++++|+..++++++  +       .|+ ...|    ...+.++...|++++|+..|++.+
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~--l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALH--YFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH--HHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHH--hhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence            555666666666666666666666665  4       564 3455    666666666666666666666665

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.29  E-value=1.8e-05  Score=68.39  Aligned_cols=102  Identities=12%  Similarity=-0.036  Sum_probs=81.8

Q ss_pred             CCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccC---HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH
Q 004744          167 GSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFS---INACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTL  243 (732)
Q Consensus       167 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  243 (732)
                      +.+...+..++..+.+.|++++|+..|+++.+..+. +   ...|..+...+.+.|++++|...++++++.. +.+...+
T Consensus        25 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           25 ASSVEQLRKEGNELFKCGDYGGALAAYTQALGLDAT-PQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             hHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHccc-chHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            456788888999999999999999999999887543 2   6778888888888888888888888887764 5567777


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCC
Q 004744          244 NIMVNALCKDHKIDSAKMFLCEMEQKG  270 (732)
Q Consensus       244 ~~l~~~~~~~g~~~~A~~~~~~~~~~g  270 (732)
                      ..+..++...|++++|...|++..+..
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            777888888888888888888877763

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.25  E-value=1.9e-06  Score=91.26  Aligned_cols=123  Identities=7%  Similarity=-0.078  Sum_probs=98.2

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 004744          174 DLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKD  253 (732)
Q Consensus       174 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  253 (732)
                      ..++..|.+.|++++|++.|+++++..+. +..+|..+..++.+.|++++|.+.|+++++.. +.+..++..+..+|.+.
T Consensus        10 ~~lg~~~~~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~   87 (477)
T 1wao_1           10 KTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMAL   87 (477)
T ss_dssp             SSSSSSTTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            33455677889999999999999988665 78899999999999999999999999999875 66788899999999999


Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHHcCCHHHHHHHHH
Q 004744          254 HKIDSAKMFLCEMEQKGVYPDTVTYNTLINA--YCREGFLEEAFQLMN  299 (732)
Q Consensus       254 g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~--~~~~g~~~~A~~~~~  299 (732)
                      |++++|.+.|++..+.... +...+..+..+  +.+.|++++|++.++
T Consensus        88 g~~~eA~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           88 GKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             TCHHHHHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             CCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999998887432 44556666555  788899999999988

>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=98.24  E-value=1e-05  Score=85.20  Aligned_cols=122  Identities=11%  Similarity=-0.006  Sum_probs=58.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 004744          554 NYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPT---------------LVSCNTIIKGYCRSGDASKADEFLSKMVS  618 (732)
Q Consensus       554 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  618 (732)
                      ....+..+...|.+.|++++|+..|++.++.. +.+               ...|..+..+|.+.|++++|+..++++++
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  345 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL-EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALG  345 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            34456666667777777777777777766542 112               23444444444444444444444444444


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHH
Q 004744          619 EGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPD-VITYNVILTGFCRQGRMHDS  679 (732)
Q Consensus       619 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A  679 (732)
                      .. +.+...|..+..+|...|++++|+..|+++.+  +.|+ ...+..+..++.+.|+.++|
T Consensus       346 ~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          346 LD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TC----CHHHHHHHHHHHHHHHHHH
T ss_pred             cC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            32 11334444444444444444444444444444  2332 22344444444444444443

>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=98.20  E-value=1.4e-05  Score=84.13  Aligned_cols=124  Identities=12%  Similarity=-0.080  Sum_probs=73.0

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccC--------------HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFS--------------INACNSLLGGLVKIGWVDLAREVYAEVVRSG  235 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  235 (732)
                      ...|..++..|.+.|++++|+..|+++++..+...              ..+|..+..++.+.|++++|+..|+++++..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  347 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD  347 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            45667777778888888888888887776543321              4555566666666666666666666665543


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 004744          236 IELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAF  295 (732)
Q Consensus       236 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  295 (732)
                       +.+..++..+..+|...|++++|+..|+++.+.... +..++..+...+.+.|+.++|.
T Consensus       348 -p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          348 -SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             -CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHH
Confidence             445555555556666666666666666665555322 3345555555555555555444

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.20  E-value=6.7e-05  Score=78.60  Aligned_cols=197  Identities=11%  Similarity=0.006  Sum_probs=145.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCC----------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC
Q 004744          457 LNGLCRAKMLTEADDLFNEMLERGVFPD----------------FYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIK-PD  519 (732)
Q Consensus       457 i~~~~~~~~~~~A~~~~~~~~~~~~~~~----------------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~  519 (732)
                      ...+.+.|++++|++.|..+.+......                ..++..+...|...|++++|.+.+..+...... ++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            4567889999999999999998754321                124778899999999999999999987653111 12


Q ss_pred             HH----HHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCC-
Q 004744          520 IV----TYNTLIDGFCKVGEMEKANKLWADMISR----KISP-NYISYGILINGYCSMGHVTEAFRLWYEMVGK--GIK-  587 (732)
Q Consensus       520 ~~----~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~-  587 (732)
                      ..    +.+.+...+...|+.++|..++.+....    +..+ -..++..+...|...|++++|..++++....  +.. 
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            21    2223333445678999999999887642    2222 2457788999999999999999999988753  111 


Q ss_pred             -C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCC-C-C--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          588 -P-TLVSCNTIIKGYCRSGDASKADEFLSKMVSE--GVD-P-D--SISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       588 -~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~-~-~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                       + ...++..++..|...|++++|..++++....  .+. | .  ...+..++..+...|++++|...+.+..+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence             1 2457888899999999999999999988753  111 2 1  34566777788899999999999998876

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.19  E-value=6.6e-05  Score=80.87  Aligned_cols=175  Identities=8%  Similarity=-0.070  Sum_probs=139.7

Q ss_pred             cCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCC----------hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004744          183 ARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGW----------VDLAREVYAEVVRSGIELNVYTLNIMVNALCK  252 (732)
Q Consensus       183 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  252 (732)
                      ...-++|++.++++++.++. +..+|+.-..++.+.|+          ++++.+.++.+++.. +.+..+|+--...+.+
T Consensus        42 ~~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~  119 (567)
T 1dce_A           42 GELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSR  119 (567)
T ss_dssp             TCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            34457889999999999887 88889888888888777          899999999999876 7788888888888888


Q ss_pred             cC--ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhc------
Q 004744          253 DH--KIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREG-FLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKK------  323 (732)
Q Consensus       253 ~g--~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~------  323 (732)
                      .+  +++++.+.++++.+.... |..+|+.-...+.+.| .++++++.++++++.++. |..+|+.....+.+.      
T Consensus       120 l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          120 LPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             CSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCS
T ss_pred             cccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhcccccc
Confidence            89  669999999999998655 7888988888888888 899999999999988665 888898888777663      


Q ss_pred             --------CChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHh
Q 004744          324 --------GRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMS  362 (732)
Q Consensus       324 --------g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  362 (732)
                              +.++++.+.+.+++... +-|..+|+-+...+.+.++.+
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCS
T ss_pred             cccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCcc
Confidence                    44577777777777653 445667776666666665533

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.18  E-value=1.1e-05  Score=68.02  Aligned_cols=98  Identities=10%  Similarity=0.077  Sum_probs=76.9

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHHHH
Q 004744          593 CNTIIKGYCRSGDASKADEFLSKMVSEGVDPDS---ISYNTLINGFVREENMDKAFALVSKMENQGLVPD----VITYNV  665 (732)
Q Consensus       593 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~  665 (732)
                      +..+...+...|++++|.+.|+++.+.... +.   ..+..+..++.+.|++++|...++++.+.  .|+    ...+..
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~   81 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSR--YPTHDKAAGGLLK   81 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSTTHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHH--CCCCcccHHHHHH
Confidence            345667788899999999999998875321 22   47777888889999999999999998884  443    566788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          666 ILTGFCRQGRMHDSELILWRMIEKGLNPDR  695 (732)
Q Consensus       666 l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  695 (732)
                      ++.++...|++++|...|+++++  ..|+.
T Consensus        82 la~~~~~~g~~~~A~~~~~~~~~--~~p~~  109 (129)
T 2xev_A           82 LGLSQYGEGKNTEAQQTLQQVAT--QYPGS  109 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HSTTS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH--HCCCC
Confidence            88888999999999999999988  55654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.15  E-value=4.8e-05  Score=63.93  Aligned_cols=95  Identities=15%  Similarity=0.012  Sum_probs=67.6

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCccCH---HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC---HHHHHHH
Q 004744          173 FDLVIRTYVQARKLREGSEVFRLLRNKGICFSI---NACNSLLGGLVKIGWVDLAREVYAEVVRSGIELN---VYTLNIM  246 (732)
Q Consensus       173 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l  246 (732)
                      +..++..+.+.|++++|+..|+++.+..+. +.   ..+..+..++.+.|++++|...|+++++.. +.+   ..++..+
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~l   82 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHH
Confidence            334566777888888888888888776544 23   466777777788888888888888877654 333   5556667


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhC
Q 004744          247 VNALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       247 ~~~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      ..++.+.|++++|...|+++.+.
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            77777777777777777777765

>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=98.13  E-value=3.2e-05  Score=66.43  Aligned_cols=97  Identities=10%  Similarity=-0.111  Sum_probs=62.1

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCcc------CH-----HHHHHHHHHHHHcCChHHHHHHHHHHHHc----
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICF------SI-----NACNSLLGGLVKIGWVDLAREVYAEVVRS----  234 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~------~~-----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----  234 (732)
                      ...+...+..+.+.|++++|+..|+++++..+..      +.     .+|+.+..++.+.|++++|+..|+++++.    
T Consensus        11 a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~   90 (159)
T 2hr2_A           11 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            3456677888899999999999999998875441      22     27777777777777777777777777654    


Q ss_pred             ---CCCCCHHHH----HHHHHHHHhcCChhHHHHHHHHHH
Q 004744          235 ---GIELNVYTL----NIMVNALCKDHKIDSAKMFLCEME  267 (732)
Q Consensus       235 ---~~~~~~~~~----~~l~~~~~~~g~~~~A~~~~~~~~  267 (732)
                         . |.+...|    .....++...|++++|+..|++..
T Consensus        91 ~e~~-pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           91 GELN-QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             CCTT-STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccCC-CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence               2 2233344    444444444444444444444443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.11  E-value=1.7e-05  Score=69.78  Aligned_cols=132  Identities=14%  Similarity=0.081  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCC----HH
Q 004744          557 SYGILINGYCSMGHVTEAFRLWYEMVGKGIK-PT----LVSCNTIIKGYCRSGDASKADEFLSKMVSEGV-DPD----SI  626 (732)
Q Consensus       557 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~----~~  626 (732)
                      ++..+...|...|++++|+..+++..+.... ++    ..++..+...+...|++++|.+.+++..+... .++    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            3445555555666666666666555432100 11    13556666677777777777777777654210 011    34


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          627 SYNTLINGFVREENMDKAFALVSKMENQ----GLVP-DVITYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       627 ~~~~li~~~~~~g~~~~A~~~~~~~~~~----g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      .+..+...+...|++++|.+.+++..+.    +..+ ....+..+...+...|++++|...+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            5666777778888888888888877651    1111 134567778888888999999988888876

>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=98.11  E-value=2.3e-06  Score=90.66  Aligned_cols=124  Identities=10%  Similarity=-0.001  Sum_probs=101.4

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCC
Q 004744          121 LSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKG  200 (732)
Q Consensus       121 ~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  200 (732)
                      |..+...+.+.|++++|...+.++++.                  .+.+..+|..++.+|.+.|++++|+..|+++.+..
T Consensus         9 ~~~lg~~~~~~g~~~~A~~~~~~Al~~------------------~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~   70 (477)
T 1wao_1            9 LKTQANDYFKAKDYENAIKFYSQAIEL------------------NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD   70 (477)
T ss_dssp             SSSSSSSTTTTTCHHHHHHHHHHHHHH------------------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHh------------------CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            334455667899999999999999854                  34568899999999999999999999999999987


Q ss_pred             CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH--HHhcCChhHHHHHHH
Q 004744          201 ICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA--LCKDHKIDSAKMFLC  264 (732)
Q Consensus       201 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~  264 (732)
                      +. +..+|..+..+|.+.|++++|.+.|+++++.. +.+...+..+..+  +.+.|++++|.+.++
T Consensus        71 p~-~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           71 KK-YIKGYYRRAASNMALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             TT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            66 78999999999999999999999999999875 4455566666666  888899999999988

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.09  E-value=9.6e-06  Score=67.11  Aligned_cols=88  Identities=8%  Similarity=-0.085  Sum_probs=50.9

Q ss_pred             CCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHH
Q 004744          131 GRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNS  210 (732)
Q Consensus       131 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  210 (732)
                      .|++++|...|.+++....               ..+.++.+|..++..|.+.|++++|+..|+++++..+. +...+..
T Consensus         3 ~g~~~~A~~~~~~al~~~~---------------~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~   66 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGL---------------QGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVF   66 (117)
T ss_dssp             ----CCCHHHHHHHHSSCC---------------CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCC---------------CCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHH
Confidence            4566666666666653110               01233556666666666666666776666666666554 5666666


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Q 004744          211 LLGGLVKIGWVDLAREVYAEVVRS  234 (732)
Q Consensus       211 ll~~~~~~g~~~~a~~~~~~~~~~  234 (732)
                      +..++.+.|++++|.+.|+++++.
T Consensus        67 l~~~~~~~g~~~~A~~~~~~al~~   90 (117)
T 3k9i_A           67 YAMVLYNLGRYEQGVELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh
Confidence            666666666666666666666554

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.09  E-value=3.7e-05  Score=67.86  Aligned_cols=99  Identities=17%  Similarity=0.090  Sum_probs=68.0

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHC--------CC---------ccCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNK--------GI---------CFSINACNSLLGGLVKIGWVDLAREVYAEVV  232 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~~---------~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  232 (732)
                      ...+...+..|.+.|++++|+..|.+.++.        .+         ..+...|..+..++.+.|++++|+..++.++
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            456777889999999999999999998875        11         0123456666666666677777777666666


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 004744          233 RSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       233 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      +.+ +.+..+|..+..+|...|++++|...|++..+.
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            654 455566666666666666666666666666655

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.09  E-value=2.7e-05  Score=79.20  Aligned_cols=139  Identities=7%  Similarity=-0.104  Sum_probs=68.4

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      ...+..++..|.+.|++++|+..|+++++.-..  .   .       .....       .+..+. .+.+..+|..+..+
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~--~---~-------~~~~~-------~~~~~~-~~~~~~~~~nla~~  282 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEG--S---R-------AAAED-------ADGAKL-QPVALSCVLNIGAC  282 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH--H---H-------HHSCH-------HHHGGG-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhc--C---c-------cccCh-------HHHHHH-HHHHHHHHHHHHHH
Confidence            345677788888999999999999888762000  0   0       00000       000000 01223344444555


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHH
Q 004744          250 LCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRA  329 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  329 (732)
                      |.+.|++++|+..+++.++.... +..+|..+..+|.+.|++++|++.|+++.+.... +...+..+...+.+.++.+++
T Consensus       283 ~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~-~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          283 KLKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555544321 3444555555555555555555555555443221 344444444444444444444


Q ss_pred             H
Q 004744          330 K  330 (732)
Q Consensus       330 ~  330 (732)
                      .
T Consensus       361 ~  361 (370)
T 1ihg_A          361 E  361 (370)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.08  E-value=0.00011  Score=79.19  Aligned_cols=177  Identities=7%  Similarity=-0.050  Sum_probs=147.6

Q ss_pred             hCCCh-HHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCC----------hHHHHHHHHHHHH
Q 004744          130 RGRRI-SDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARK----------LREGSEVFRLLRN  198 (732)
Q Consensus       130 ~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~  198 (732)
                      +.|.+ ++|...+.+++..                  .+.+..+|+--...+.+.|+          +++|++.++.+.+
T Consensus        40 ~~~~~~eeal~~~~~~l~~------------------nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~  101 (567)
T 1dce_A           40 QAGELDESVLELTSQILGA------------------NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLR  101 (567)
T ss_dssp             HTTCCSHHHHHHHHHHHHH------------------CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHH------------------CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHH
Confidence            34444 6789999999854                  45567788877777777777          9999999999999


Q ss_pred             CCCccCHHHHHHHHHHHHHcC--ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHHHHHhCCCCCCH
Q 004744          199 KGICFSINACNSLLGGLVKIG--WVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDH-KIDSAKMFLCEMEQKGVYPDT  275 (732)
Q Consensus       199 ~~~~~~~~~~~~ll~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~g~~p~~  275 (732)
                      .+++ +..+|+.-..++.+.|  +++++++.++.+++.+ +.+..+|+--...+.+.| .++++.+.++++.+..+. |.
T Consensus       102 ~~pK-~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~  178 (567)
T 1dce_A          102 VNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NY  178 (567)
T ss_dssp             HCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CH
T ss_pred             hCCC-CHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-Cc
Confidence            9888 8999999999999999  6799999999999986 778899998888888889 899999999999988665 88


Q ss_pred             HHHHHHHHHHHHc--------------CCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhH
Q 004744          276 VTYNTLINAYCRE--------------GFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDR  328 (732)
Q Consensus       276 ~~~~~li~~~~~~--------------g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  328 (732)
                      .+|+.....+.+.              +.++++++.++.+....+. |..+|+.+...+.+.++.++
T Consensus       179 saW~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          179 SSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             HHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCCCSC
T ss_pred             cHHHHHHHHHHhhcccccccccccccHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCCccc
Confidence            8899888877763              5679999999999886544 78889988888877777554

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.08  E-value=6.5e-06  Score=82.90  Aligned_cols=150  Identities=7%  Similarity=-0.032  Sum_probs=82.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004744          555 YISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLING  634 (732)
Q Consensus       555 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~  634 (732)
                      ...+..+...+.+.|++++|+..|++.+..  .|+...       +...|+.+++...+.          ...|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHH
Confidence            455667777777888888888888887765  333321       122333333332221          1367788889


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHH-HHhcCCH
Q 004744          635 FVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-RSTYTTLING-HVSQNNL  711 (732)
Q Consensus       635 ~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~-~~~~g~~  711 (732)
                      |.+.|++++|+..++++++  +.| +...|..++.+|...|++++|...|+++++  +.|+ ...+..+..+ ....+..
T Consensus       240 ~~~~g~~~~A~~~~~~al~--~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~--l~p~~~~a~~~L~~l~~~~~~~~  315 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLT--EEEKNPKALFRRGKAKAELGQMDSARDDFRKAQK--YAPDDKAIRRELRALAEQEKALY  315 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999988  445 567888999999999999999999999988  6774 4666666666 3445778


Q ss_pred             HHHHHHHHHHHHCCCCCC
Q 004744          712 KEAFRFHDEMLQRGFVPD  729 (732)
Q Consensus       712 ~~A~~~~~~m~~~g~~pd  729 (732)
                      +++.+.+++|+  +..|+
T Consensus       316 ~~a~~~~~~~l--~~~p~  331 (338)
T 2if4_A          316 QKQKEMYKGIF--KGKDE  331 (338)
T ss_dssp             ------------------
T ss_pred             HHHHHHHHHhh--CCCCC
Confidence            88888999887  44444

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.07  E-value=2.5e-05  Score=68.97  Aligned_cols=114  Identities=12%  Similarity=0.003  Sum_probs=90.5

Q ss_pred             hHHHHHHHHHHHhCCChHHHHHHHHHHHHhcC-------CChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHH
Q 004744          118 SMSLSAMIHFLVRGRRISDAQALILRMVRKSG-------VSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGS  190 (732)
Q Consensus       118 ~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  190 (732)
                      ...+......+.+.|++++|...|.+++....       ...... ..      ..+.+..+|..+..+|.+.|++++|+
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~-~~------~~~~~~~~~~nla~~~~~~~~~~~A~   83 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEW-VE------LDRKNIPLYANMSQCYLNIGDLHEAE   83 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHH-HH------HHHTHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHH-HH------HHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            45677888899999999999999999986410       000000 00      01234678999999999999999999


Q ss_pred             HHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH
Q 004744          191 EVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNV  240 (732)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~  240 (732)
                      ..++++++..+. +..+|..+..++...|++++|...|+.+++.. |.+.
T Consensus        84 ~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~-p~~~  131 (162)
T 3rkv_A           84 ETSSEVLKREET-NEKALFRRAKARIAAWKLDEAEEDLKLLLRNH-PAAA  131 (162)
T ss_dssp             HHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-GGGH
T ss_pred             HHHHHHHhcCCc-chHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC-CCCH
Confidence            999999998766 88999999999999999999999999999874 3344

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.03  E-value=3.7e-05  Score=78.21  Aligned_cols=139  Identities=8%  Similarity=-0.109  Sum_probs=87.5

Q ss_pred             hHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 004744          118 SMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLR  197 (732)
Q Consensus       118 ~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  197 (732)
                      ...|..+...+.+.|++++|...|.++++.....+...  .........+.+..+|..+..+|.+.|++++|+..+++++
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~--~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al  300 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAA--EDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEAL  300 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHS--CHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCcccc--ChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            35678889999999999999999999985211000000  0000000112335667777777777777777777777777


Q ss_pred             HCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHH
Q 004744          198 NKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAK  260 (732)
Q Consensus       198 ~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  260 (732)
                      +..+. +..+|..+..+|.+.|++++|.+.|+++++.. +.+...+..+...+.+.++.+++.
T Consensus       301 ~~~p~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          301 EIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             TTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhCch-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            76554 66677777777777777777777777776653 445555555555555555555443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.02  E-value=1.3e-05  Score=66.33  Aligned_cols=87  Identities=10%  Similarity=-0.037  Sum_probs=61.5

Q ss_pred             HcCChHHHHHHHHHHHHCCC--ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHH
Q 004744          182 QARKLREGSEVFRLLRNKGI--CFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSA  259 (732)
Q Consensus       182 ~~g~~~~A~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  259 (732)
                      ..|++++|+..|+++++.++  ..+..++..+..++.+.|++++|...|+++++.. |.+..++..+..++.+.|++++|
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            35778888888888887641  2245677777788888888888888888887764 55667777777788888888888


Q ss_pred             HHHHHHHHhC
Q 004744          260 KMFLCEMEQK  269 (732)
Q Consensus       260 ~~~~~~~~~~  269 (732)
                      ...+++..+.
T Consensus        81 ~~~~~~al~~   90 (117)
T 3k9i_A           81 VELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            8888777665

>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=0.0002  Score=61.05  Aligned_cols=109  Identities=10%  Similarity=-0.034  Sum_probs=54.1

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHH
Q 004744          570 HVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVR----EENMDKAF  645 (732)
Q Consensus       570 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~  645 (732)
                      ++++|++.|++..+.| .++..    +...|...+.+++|.+.|++..+.|   +...+..|...|..    .+++++|+
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            4555555555555554 22222    4444444445555555555555532   34444455555544    45555555


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHc
Q 004744          646 ALVSKMENQGLVPDVITYNVILTGFCR----QGRMHDSELILWRMIEK  689 (732)
Q Consensus       646 ~~~~~~~~~g~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~  689 (732)
                      ++|++..+.|   ++..+..|...|..    .++.++|..+|+++.+.
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence            5555555532   34444445555544    45555555555555553

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.90  E-value=2.8e-05  Score=78.17  Aligned_cols=149  Identities=10%  Similarity=-0.086  Sum_probs=76.1

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      ...+..++..|.+.|++++|+..|+++++..+  +...       +...|+.+++...+.          ...|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p--~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMG--DDFM-------FQLYGKYQDMALAVK----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSC--HHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhc--cchh-------hhhcccHHHHHHHHH----------HHHHHHHHHH
Confidence            45577778888888889999998888877532  2211       112222333322211          1256667777


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHH-HHhcCChhH
Q 004744          250 LCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLING-LCKKGRCDR  328 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~-~~~~g~~~~  328 (732)
                      |.+.|++++|+..+++.++.... +..+|..+..+|...|++++|.+.|++..+.... +...+..+... ....+..++
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~~~~~~~~~  317 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEEEK-NPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQEKALYQK  317 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888887776432 5677777888888888888888888887765322 44455555544 334566677


Q ss_pred             HHHHHHHHHHC
Q 004744          329 AKEVLDEMLQM  339 (732)
Q Consensus       329 A~~~~~~~~~~  339 (732)
                      +...|.+|...
T Consensus       318 a~~~~~~~l~~  328 (338)
T 2if4_A          318 QKEMYKGIFKG  328 (338)
T ss_dssp             -----------
T ss_pred             HHHHHHHhhCC
Confidence            77777777654

>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=97.87  E-value=0.00034  Score=59.59  Aligned_cols=111  Identities=14%  Similarity=0.040  Sum_probs=68.7

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHH
Q 004744          605 DASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCR----QGRMHDSE  680 (732)
Q Consensus       605 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~----~g~~~~A~  680 (732)
                      ++++|.+.|++..+.| .++..    |...|...+.+++|++.|++..+.|   +...+..|...|..    .++.++|.
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            4566666676666655 22322    5555555566666777777766643   45556666666665    56677777


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCC
Q 004744          681 LILWRMIEKGLNPDRSTYTTLINGHVS----QNNLKEAFRFHDEMLQRGF  726 (732)
Q Consensus       681 ~~~~~~~~~g~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~g~  726 (732)
                      .+|+++.+.|   +...+..|...|..    .++.++|.+++++..+.|.
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            7777766643   45566666666666    6667777777776666553

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.87  E-value=1.2e-05  Score=65.48  Aligned_cols=93  Identities=9%  Similarity=0.036  Sum_probs=70.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-------H
Q 004744          624 DSISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-------R  695 (732)
Q Consensus       624 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-------~  695 (732)
                      +...+..+...+...|++++|++.++++.+.  .| +...|..++.++...|++++|...++++++  +.|+       .
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~   78 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITA--QPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR--YTSTAEHVAIRS   78 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--SCSSTTSHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCCCccHHHHHH
Confidence            4456777778888888888888888888873  44 567788888888888888888888888887  6664       5


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHH
Q 004744          696 STYTTLINGHVSQNNLKEAFRFHDE  720 (732)
Q Consensus       696 ~~~~~l~~~~~~~g~~~~A~~~~~~  720 (732)
                      ..+..++.++...|+.++|.+.+++
T Consensus        79 ~~~~~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           79 KLQYRLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHHHHHhHhhhHhHHHH
Confidence            5677777777777777776655443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.87  E-value=0.00021  Score=74.94  Aligned_cols=89  Identities=12%  Similarity=0.042  Sum_probs=40.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHhC---CCCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----CC-CCC-HHHHH
Q 004744          564 GYCSMGHVTEAFRLWYEMVGK---GIKP----TLVSCNTIIKGYCRSGDASKADEFLSKMVSE-----GV-DPD-SISYN  629 (732)
Q Consensus       564 ~~~~~g~~~~A~~~~~~~~~~---~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~-~~~-~~~~~  629 (732)
                      .+..+|++++|+.++++.++.   -+.+    -..+++.++.+|...|++++|+.++++.++.     |. .|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            344556666666555554432   0111    1234555555555555555555555554431     10 111 23344


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHH
Q 004744          630 TLINGFVREENMDKAFALVSKME  652 (732)
Q Consensus       630 ~li~~~~~~g~~~~A~~~~~~~~  652 (732)
                      .|...|...|++++|..+++++.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al  420 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAY  420 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHH
Confidence            44555555555555555555444

>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=97.77  E-value=5.8e-05  Score=64.62  Aligned_cols=96  Identities=7%  Similarity=0.010  Sum_probs=60.4

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHh
Q 004744          604 GDASKADEFLSKMVSEGVDPDSISYNTLINGFVREEN----------MDKAFALVSKMENQGLVPD-VITYNVILTGFCR  672 (732)
Q Consensus       604 g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~  672 (732)
                      +.+++|++.+++.++.. +.+...|..+..++...++          +++|+..|+++++  +.|+ ...|..++.+|..
T Consensus        16 ~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~--ldP~~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALL--IDPKKDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHH--hCcCcHHHHHHHHHHHHH
Confidence            34455555555555432 1234444444444444443          4578888888877  5553 4577778888776


Q ss_pred             c-----------CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          673 Q-----------GRMHDSELILWRMIEKGLNPDRSTYTTLING  704 (732)
Q Consensus       673 ~-----------g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~  704 (732)
                      .           |++++|...|+++++  +.|+...|..-+..
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~~  133 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEM  133 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHH
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHHH
Confidence            6           478899999999988  88877666555443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.74  E-value=0.0001  Score=77.41  Aligned_cols=127  Identities=13%  Similarity=0.013  Sum_probs=84.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC---CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CCC-CHHH
Q 004744          527 IDGFCKVGEMEKANKLWADMISR---KISP----NYISYGILINGYCSMGHVTEAFRLWYEMVGK-----G-IKP-TLVS  592 (732)
Q Consensus       527 i~~~~~~g~~~~A~~~~~~~~~~---~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~-~~~-~~~~  592 (732)
                      +..+...|++++|+.++++.++.   -+.+    -..+++.|...|...|++++|..++++.++.     | -.| ...+
T Consensus       316 a~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~  395 (490)
T 3n71_A          316 IDKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMA  395 (490)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHH
Confidence            45567789999999999887753   1111    2346788888999999999999999887642     2 112 2456


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHC-----CCC-CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          593 CNTIIKGYCRSGDASKADEFLSKMVSE-----GVD-PD-SISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       593 ~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~-~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      ++.|...|...|++++|+.++++.++.     |.. |+ ..+.+.+..++...+.+++|..++.++.+
T Consensus       396 l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          396 VMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888999999999999999887642     311 11 22233444455555555666666555554

>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=0.00031  Score=54.39  Aligned_cols=82  Identities=18%  Similarity=0.071  Sum_probs=56.7

Q ss_pred             chHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          169 NSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVN  248 (732)
Q Consensus       169 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  248 (732)
                      +...+..+...|.+.|++++|+..|++..+..+. +...+..+..++.+.|++++|...|+++++.. +.+..++..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~   85 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            3556777777778888888888888877776544 56677777777777777777777777777654 445555555555


Q ss_pred             HHHh
Q 004744          249 ALCK  252 (732)
Q Consensus       249 ~~~~  252 (732)
                      ++.+
T Consensus        86 ~~~~   89 (91)
T 1na3_A           86 AKQK   89 (91)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            5543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.73  E-value=0.00015  Score=58.74  Aligned_cols=92  Identities=10%  Similarity=-0.075  Sum_probs=60.2

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC------HHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELN------VYTL  243 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~  243 (732)
                      ...|..++..+.+.|++++|+..|+++++..+. +...|..+..++.+.|++++|.+.|+++++.. +.+      ...+
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~   81 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQ-NPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT-STAEHVAIRSKLQ   81 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-SSTTSHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCccHHHHHHHHH
Confidence            455666777777777777777777777776554 66777777777777777777777777777653 222      3444


Q ss_pred             HHHHHHHHhcCChhHHHHHH
Q 004744          244 NIMVNALCKDHKIDSAKMFL  263 (732)
Q Consensus       244 ~~l~~~~~~~g~~~~A~~~~  263 (732)
                      ..+..++...|+++.|...+
T Consensus        82 ~~~~~~~~~~~~~~~a~~~~  101 (111)
T 2l6j_A           82 YRLELAQGAVGSVQIPVVEV  101 (111)
T ss_dssp             HHHHHHHHHHHCCCCCSSSS
T ss_pred             HHHHHHHHHHHhHhhhHhHH
Confidence            45555555555555554433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.70  E-value=0.00019  Score=58.86  Aligned_cols=80  Identities=9%  Similarity=-0.095  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHH
Q 004744          188 EGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEME  267 (732)
Q Consensus       188 ~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  267 (732)
                      +|+..|+++.+..+. +...+..+...+.+.|++++|...|+++++.. +.+..++..+..+|...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQGTD-NMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTTCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            466667776666554 56677777777777777777777777776654 4455666666777777777777777777665


Q ss_pred             hC
Q 004744          268 QK  269 (732)
Q Consensus       268 ~~  269 (732)
                      +.
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            53

>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=97.68  E-value=9.7e-05  Score=63.25  Aligned_cols=87  Identities=10%  Similarity=-0.021  Sum_probs=63.9

Q ss_pred             HHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCCh----------HHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 004744          181 VQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWV----------DLAREVYAEVVRSGIELNVYTLNIMVNAL  250 (732)
Q Consensus       181 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~----------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  250 (732)
                      .+.+.+++|+..|+...+.++. +...|..+..++.+.+++          ++|+..|+++++.+ |.+..+|..+..+|
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 DRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            4556788999999999888777 888888888888887765          47777777777765 55666777777777


Q ss_pred             HhcC-----------ChhHHHHHHHHHHhC
Q 004744          251 CKDH-----------KIDSAKMFLCEMEQK  269 (732)
Q Consensus       251 ~~~g-----------~~~~A~~~~~~~~~~  269 (732)
                      ...|           ++++|.+.|++.++.
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh
Confidence            7654           566666666666655

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.67  E-value=0.00023  Score=58.28  Aligned_cols=79  Identities=15%  Similarity=0.151  Sum_probs=66.4

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004744          607 SKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWR  685 (732)
Q Consensus       607 ~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~  685 (732)
                      ++|++.|++.++.. +.+...+..+...|...|++++|+..++++.+.  .| +...|..++.++...|++++|...|++
T Consensus         2 ~~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~   78 (115)
T 2kat_A            2 QAITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDF--DPTYSVAWKWLGKTLQGQGDRAGARQAWES   78 (115)
T ss_dssp             CCHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            35788888888753 336778888999999999999999999999884  44 567888899999999999999999999


Q ss_pred             HHH
Q 004744          686 MIE  688 (732)
Q Consensus       686 ~~~  688 (732)
                      +++
T Consensus        79 al~   81 (115)
T 2kat_A           79 GLA   81 (115)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            987

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.64  E-value=0.00041  Score=53.66  Aligned_cols=82  Identities=16%  Similarity=0.252  Sum_probs=58.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHH
Q 004744          625 SISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTLIN  703 (732)
Q Consensus       625 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~  703 (732)
                      ...+..+...+...|++++|+..+++..+.. +.+...|..++.++...|++++|...++++.+  +.| +...+..++.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~--~~p~~~~~~~~l~~   85 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE--LDPNNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh--cCCCCHHHHHHHHH
Confidence            4456667777777888888888888877632 22556777777888888888888888888877  555 4566777776


Q ss_pred             HHHhcC
Q 004744          704 GHVSQN  709 (732)
Q Consensus       704 ~~~~~g  709 (732)
                      ++...|
T Consensus        86 ~~~~~g   91 (91)
T 1na3_A           86 AKQKQG   91 (91)
T ss_dssp             HHHHHC
T ss_pred             HHHhcC
Confidence            665543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.50  E-value=0.00042  Score=55.04  Aligned_cols=67  Identities=10%  Similarity=0.055  Sum_probs=57.6

Q ss_pred             CCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHc
Q 004744          167 GSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRS  234 (732)
Q Consensus       167 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  234 (732)
                      +.++.+|..++..|.+.|++++|+..|+++++.++. +..+|..+..+|.+.|++++|.+.|+++++.
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            456788889999999999999999999999988766 6778889999999999999999999988753

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.49  E-value=0.00045  Score=54.88  Aligned_cols=83  Identities=19%  Similarity=0.215  Sum_probs=61.4

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCCHHHHHH
Q 004744          623 PDSISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKG-LNPDRSTYTT  700 (732)
Q Consensus       623 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g-~~p~~~~~~~  700 (732)
                      .+...+..+...|.+.|++++|+..|+++++.  .| +...|..++.+|...|++++|...+++.++.. -.++......
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~   82 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVET--DPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKDLSE   82 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCchhHHHH
Confidence            35677888889999999999999999999884  45 45688889999999999999999999988721 1224444444


Q ss_pred             HHHHHHh
Q 004744          701 LINGHVS  707 (732)
Q Consensus       701 l~~~~~~  707 (732)
                      +...+..
T Consensus        83 l~~~l~~   89 (100)
T 3ma5_A           83 LQDAKLK   89 (100)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444433

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.22  E-value=0.004  Score=61.36  Aligned_cols=74  Identities=12%  Similarity=0.133  Sum_probs=57.8

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 004744          622 DPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYT  699 (732)
Q Consensus       622 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~  699 (732)
                      +.+..+|..+...+...|++++|...+++++..  .|+...|..+...+...|++++|...++++..  +.|...+|.
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~L--n~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr--L~P~~~t~~  347 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDL--EMSWLNYVLLGKVYEMKGMNREAADAYLTAFN--LRPGANTLY  347 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSCSHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCcChHH
Confidence            456777777777777778888888888888884  47777777777888888888888888888888  777766654

>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=97.16  E-value=0.0014  Score=67.52  Aligned_cols=87  Identities=9%  Similarity=-0.039  Sum_probs=50.6

Q ss_pred             HcCCHHHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CC-CCCCH-HHHHHHH
Q 004744          602 RSGDASKADEFLSKMVSE---GVDPD----SISYNTLINGFVREENMDKAFALVSKMEN-----QG-LVPDV-ITYNVIL  667 (732)
Q Consensus       602 ~~g~~~~A~~~~~~~~~~---~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~g-~~p~~-~~~~~l~  667 (732)
                      ..|++++|+.++++.++.   -..|+    ..+++.|...|...|++++|+.+++++.+     .| -.|+. .+++.|+
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            456677777777666542   11122    34566666666666666666666666654     12 12332 3566666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 004744          668 TGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       668 ~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      ..|..+|++++|+.+++++++
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            666666666666666666665

>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=96.93  E-value=0.0047  Score=63.56  Aligned_cols=87  Identities=13%  Similarity=-0.005  Sum_probs=69.5

Q ss_pred             hcCCHHHHHHHHHHHHhC---CCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----CC-CCC-HHHHHHHH
Q 004744          567 SMGHVTEAFRLWYEMVGK---GIKPT----LVSCNTIIKGYCRSGDASKADEFLSKMVSE-----GV-DPD-SISYNTLI  632 (732)
Q Consensus       567 ~~g~~~~A~~~~~~~~~~---~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~-~~~-~~~~~~li  632 (732)
                      ..|++++|+.++++.++.   -+.|+    ..+++.+..+|...|++++|+.+++++++.     |. .|+ ..+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            458999999999987753   12222    367889999999999999999999998752     31 233 46789999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 004744          633 NGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       633 ~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      ..|...|++++|..+++++.+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999999887

>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=96.93  E-value=0.0027  Score=65.47  Aligned_cols=92  Identities=8%  Similarity=-0.036  Sum_probs=66.0

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CC-CCCCH-HH
Q 004744          597 IKGYCRSGDASKADEFLSKMVSE---GVDPD----SISYNTLINGFVREENMDKAFALVSKMEN-----QG-LVPDV-IT  662 (732)
Q Consensus       597 ~~~~~~~g~~~~A~~~~~~~~~~---~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~g-~~p~~-~~  662 (732)
                      +..+.+.|++++|++++++.++.   -..|+    ..+++.|+..|...|++++|+.++++++.     .| ..|+. .+
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            45566778888888888888753   12222    45677788888888888888888887765     22 23333 46


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          663 YNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       663 ~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      ++.|+..|..+|++++|+.+++++++
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            77888888888888888888888877

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.90  E-value=0.00077  Score=53.24  Aligned_cols=60  Identities=18%  Similarity=0.328  Sum_probs=40.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 004744          631 LINGFVREENMDKAFALVSKMENQGLVP-DVI-TYNVILTGFCRQGRMHDSELILWRMIEKGLNPD  694 (732)
Q Consensus       631 li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  694 (732)
                      .+..+.+.|++++|+..++++.+.  .| +.. .|..++.++...|++++|...|+++++  +.|+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~   67 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE--LNPD   67 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCC
Confidence            344566677777777777777763  34 445 667777777777777777777777777  5554

>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=96.86  E-value=0.011  Score=60.88  Aligned_cols=95  Identities=6%  Similarity=-0.011  Sum_probs=67.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----C-CCCC-
Q 004744          559 GILINGYCSMGHVTEAFRLWYEMVGKG---IKPT----LVSCNTIIKGYCRSGDASKADEFLSKMVSE-----G-VDPD-  624 (732)
Q Consensus       559 ~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~-~~~~-  624 (732)
                      ...+..+.+.|++++|+.++++.++..   +.|+    ..+++.++.+|...|++++|+.++++++..     | ..|+ 
T Consensus       291 l~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~  370 (429)
T 3qwp_A          291 LKKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVR  370 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHH
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHH
Confidence            334555667788888888888877541   2222    356777888888888888888888877642     2 1222 


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          625 SISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       625 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      ..+++.|...|...|++++|..+++++.+
T Consensus       371 a~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          371 GVQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            45677888888888888888888888776

>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=96.84  E-value=0.02  Score=56.38  Aligned_cols=73  Identities=16%  Similarity=0.134  Sum_probs=51.9

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHH
Q 004744          273 PDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYN  349 (732)
Q Consensus       273 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~  349 (732)
                      .+..+|..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|.+.|++....  .|...+|.
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~  347 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLY  347 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHH
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHH
Confidence            356677776666666788888888888877764  56666767777777788888888888777765  45555543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.79  E-value=0.009  Score=46.26  Aligned_cols=64  Identities=9%  Similarity=0.074  Sum_probs=36.9

Q ss_pred             CCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          623 PDSISYNTLINGFVREEN---MDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       623 ~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      .+...+..+..++...++   .++|..+++++.+  ..| +......++..+.+.|++++|+..|+++++
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~--~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQ--LEPYNEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH--HCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            345555555555543333   4666666666666  344 344555556666666666666666666665

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.75  E-value=0.012  Score=45.97  Aligned_cols=66  Identities=9%  Similarity=0.046  Sum_probs=54.0

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCccCHH-HHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH
Q 004744          176 VIRTYVQARKLREGSEVFRLLRNKGICFSIN-ACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTL  243 (732)
Q Consensus       176 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  243 (732)
                      .+..+.+.|++++|+..|+++.+..+. +.. .+..+..++.+.|++++|.+.|+++++.. +.+..++
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~   72 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN-PDSPALQ   72 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHH
Confidence            466788899999999999999887655 677 88999999999999999999999998875 3344443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.75  E-value=0.0061  Score=51.51  Aligned_cols=87  Identities=13%  Similarity=0.136  Sum_probs=68.8

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHH
Q 004744          605 DASKADEFLSKMVSEGVDPDSISYNTLINGFVREE---NMDKAFALVSKMENQGLVP--DVITYNVILTGFCRQGRMHDS  679 (732)
Q Consensus       605 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~~g~~p--~~~~~~~l~~~~~~~g~~~~A  679 (732)
                      ....+++.|.+....+. ++..+.-.+..++++.+   ++++++.++++..+.. .|  +...+..+.-+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            45677788887777654 67888888888999988   6679999999998853 25  345666778888999999999


Q ss_pred             HHHHHHHHHcCCCCCH
Q 004744          680 ELILWRMIEKGLNPDR  695 (732)
Q Consensus       680 ~~~~~~~~~~g~~p~~  695 (732)
                      .++++.+++  ++|+.
T Consensus        91 ~~y~~~lL~--ieP~n  104 (152)
T 1pc2_A           91 LKYVRGLLQ--TEPQN  104 (152)
T ss_dssp             HHHHHHHHH--HCTTC
T ss_pred             HHHHHHHHh--cCCCC
Confidence            999999999  88854

>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=96.65  E-value=0.29  Score=46.17  Aligned_cols=105  Identities=13%  Similarity=0.103  Sum_probs=75.1

Q ss_pred             HHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhc-C
Q 004744          606 ASKADEFLSKMVSEGVDPD---SISYNTLINGFVRE-----ENMDKAFALVSKMENQGLVPD--VITYNVILTGFCRQ-G  674 (732)
Q Consensus       606 ~~~A~~~~~~~~~~~~~~~---~~~~~~li~~~~~~-----g~~~~A~~~~~~~~~~g~~p~--~~~~~~l~~~~~~~-g  674 (732)
                      ..+|...+++.++.  .|+   ...|..|+..|.+.     |+.++|.++|++.++  +.|+  ..++......++.. |
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~--LnP~~~id~~v~YA~~l~~~~g  254 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTR--YCSAHDPDHHITYADALCIPLN  254 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHH--HCCTTCSHHHHHHHHHTTTTTT
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHH--hCCCCCchHHHHHHHHHHHhcC
Confidence            56778888888773  566   56788888888884     899999999999998  5663  66777788888874 8


Q ss_pred             CHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          675 RMHDSELILWRMIEKGLN--PDRSTYTTLINGHVSQNNLKEAFRFHDEML  722 (732)
Q Consensus       675 ~~~~A~~~~~~~~~~g~~--p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  722 (732)
                      +.++|.+++++.+.....  |+....+        .+.-++|..+++++-
T Consensus       255 d~~~a~~~L~kAL~a~p~~~P~~~lan--------~~~q~eA~~LL~~~~  296 (301)
T 3u64_A          255 NRAGFDEALDRALAIDPESVPHNKLLV--------ILSQKRARWLKAHVQ  296 (301)
T ss_dssp             CHHHHHHHHHHHHHCCGGGCSSCHHHH--------HHHHHHHHHHHHTHH
T ss_pred             CHHHHHHHHHHHHcCCCCCCCChhHHH--------HHHHHHHHHHHHHhH
Confidence            999999999999984443  4332222        233456666666543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.63  E-value=7.5e-07  Score=88.68  Aligned_cols=205  Identities=11%  Similarity=0.106  Sum_probs=141.8

Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMV  247 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  247 (732)
                      ..+.+|..|++++.+.|++.+|++.|-+..      |+..|..++.+..+.|.+++-..++.-+.+.  ..++..=+.|+
T Consensus        52 n~p~VWs~LgkAqL~~~~v~eAIdsyIkA~------Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~--~ke~~IDteLi  123 (624)
T 3lvg_A           52 NEPAVWSQLAKAQLQKGMVKEAIDSYIKAD------DPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELI  123 (624)
T ss_dssp             CCCCCSSSHHHHTTTSSSCTTTTTSSCCCS------CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT--CCSTTTTHHHH
T ss_pred             CCccHHHHHHHHHHccCchHHHHHHHHhCC------ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccHHHHH
Confidence            457899999999999999999999886543      5667889999999999999999998876654  44556667889


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCC--------------------CC
Q 004744          248 NALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKG--------------------LK  307 (732)
Q Consensus       248 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--------------------~~  307 (732)
                      -+|.+.+++.+-++++.       .||+.-...+.+-|...|.++.|.-+|..+....                    -.
T Consensus       124 ~ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKA  196 (624)
T 3lvg_A          124 FALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKA  196 (624)
T ss_dssp             HHHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTC
T ss_pred             HHHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            99999999877544331       3677667788888888898888887777653211                    01


Q ss_pred             CCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHH
Q 004744          308 PGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLI  387 (732)
Q Consensus       308 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~  387 (732)
                      -+..||..+-.+|...+.+.-|.-.--.++-   .+|.  ...++..|-..|.+++-+.+++.-.... ......++-|.
T Consensus       197 ns~ktWKeV~~ACvd~~EfrLAqicGLniIv---hade--L~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELa  270 (624)
T 3lvg_A          197 NSTRTWKEVCFACVDGKEFRLAQMCGLHIVV---HADE--LEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELA  270 (624)
T ss_dssp             CSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC---CSSC--CSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHH
T ss_pred             CChhHHHHHHHHHhCchHHHHHHHhcchhcc---cHHH--HHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHH
Confidence            2456677777777777776666555444442   1221  1234555667777777777776665321 23556666666


Q ss_pred             HHHHhC
Q 004744          388 GIFSRN  393 (732)
Q Consensus       388 ~~~~~~  393 (732)
                      -.|++-
T Consensus       271 ILYsKY  276 (624)
T 3lvg_A          271 ILYSKF  276 (624)
T ss_dssp             HHHHSS
T ss_pred             HHHHhc
Confidence            666654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.57  E-value=0.013  Score=49.46  Aligned_cols=87  Identities=16%  Similarity=0.105  Sum_probs=61.4

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHH
Q 004744          570 HVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSG---DASKADEFLSKMVSEGVDP--DSISYNTLINGFVREENMDKA  644 (732)
Q Consensus       570 ~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~A  644 (732)
                      ....+.+.|.+....+ +++..+...+..++++.+   ++++++.++++..+.. .|  +...+-.|.-+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            3556667777766665 467777777888888877   5668888888887753 23  345555666777888888888


Q ss_pred             HHHHHHHHHCCCCCCH
Q 004744          645 FALVSKMENQGLVPDV  660 (732)
Q Consensus       645 ~~~~~~~~~~g~~p~~  660 (732)
                      .++++.+.+  ++|+.
T Consensus        91 ~~y~~~lL~--ieP~n  104 (152)
T 1pc2_A           91 LKYVRGLLQ--TEPQN  104 (152)
T ss_dssp             HHHHHHHHH--HCTTC
T ss_pred             HHHHHHHHh--cCCCC
Confidence            888888887  56643

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.33  E-value=0.026  Score=43.63  Aligned_cols=68  Identities=10%  Similarity=-0.069  Sum_probs=42.3

Q ss_pred             CCchHHHHHHHHHHHHcCC---hHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 004744          167 GSNSLIFDLVIRTYVQARK---LREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSG  235 (732)
Q Consensus       167 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  235 (732)
                      +.++..+..+..++...+.   .++|...|+++++..+. ++.+...+...+.+.|++++|+..|+.+++..
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            3455566666666554433   56677777776666555 56666666666666666666666666666543

>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=96.30  E-value=0.019  Score=54.20  Aligned_cols=83  Identities=14%  Similarity=0.113  Sum_probs=72.4

Q ss_pred             HHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhc-C
Q 004744          641 MDKAFALVSKMENQGLVPD---VITYNVILTGFCRQ-----GRMHDSELILWRMIEKGLNPD--RSTYTTLINGHVSQ-N  709 (732)
Q Consensus       641 ~~~A~~~~~~~~~~g~~p~---~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~~~g~~p~--~~~~~~l~~~~~~~-g  709 (732)
                      ..+|...++++++  +.|+   ...|..++..|.+.     |+.++|.++|+++++  +.|+  ..++...++.++.. |
T Consensus       179 l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~--LnP~~~id~~v~YA~~l~~~~g  254 (301)
T 3u64_A          179 VHAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTR--YCSAHDPDHHITYADALCIPLN  254 (301)
T ss_dssp             HHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHH--HCCTTCSHHHHHHHHHTTTTTT
T ss_pred             HHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHH--hCCCCCchHHHHHHHHHHHhcC
Confidence            5788888999998  7887   46888899888884     999999999999999  8883  78888899999885 9


Q ss_pred             CHHHHHHHHHHHHHCCCC
Q 004744          710 NLKEAFRFHDEMLQRGFV  727 (732)
Q Consensus       710 ~~~~A~~~~~~m~~~g~~  727 (732)
                      +.++|.+.+++.++....
T Consensus       255 d~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          255 NRAGFDEALDRALAIDPE  272 (301)
T ss_dssp             CHHHHHHHHHHHHHCCGG
T ss_pred             CHHHHHHHHHHHHcCCCC
Confidence            999999999999987665

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.20  E-value=0.14  Score=58.08  Aligned_cols=128  Identities=11%  Similarity=0.049  Sum_probs=74.1

Q ss_pred             HHHHHcCChHHHHH-HHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004744          178 RTYVQARKLREGSE-VFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKI  256 (732)
Q Consensus       178 ~~~~~~g~~~~A~~-~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  256 (732)
                      ......+++++|.+ ++..+.      +......++..+.+.|..++|.++.+...        .-    .......|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~i~------~~~~~~~~~~~l~~~~~~~~a~~~~~~~~--------~~----f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPNVE------GKDSLTKIARFLEGQEYYEEALNISPDQD--------QK----FELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGGCC------CHHHHHHHHHHHHHTTCHHHHHHHCCCHH--------HH----HHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhcCC------chHHHHHHHHHHHhCCChHHheecCCCcc--------hh----eehhhhcCCH
Confidence            33445677777766 442111      12233666677777777777776553211        11    2234556788


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHH
Q 004744          257 DSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEM  336 (732)
Q Consensus       257 ~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  336 (732)
                      ++|.++.+.+      .+...|..+...+.+.|+++.|.+.|..+..         |..+...|...|+.+...++-+..
T Consensus       669 ~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a  733 (814)
T 3mkq_A          669 TLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDA  733 (814)
T ss_dssp             HHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHH
Confidence            8777765432      2567778888888888888888887776643         344445555566555555444444


Q ss_pred             HH
Q 004744          337 LQ  338 (732)
Q Consensus       337 ~~  338 (732)
                      ..
T Consensus       734 ~~  735 (814)
T 3mkq_A          734 ET  735 (814)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.12  E-value=0.45  Score=41.23  Aligned_cols=98  Identities=13%  Similarity=0.193  Sum_probs=44.4

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004744          567 SMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFA  646 (732)
Q Consensus       567 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  646 (732)
                      +.|+++.|.++.+++      .+...|..+.......|+++-|++.|.+...         +..+.-.|.-.|+.+.-.+
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            445555555554443      1444555555555555555555555554321         2223333444455544444


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 004744          647 LVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWR  685 (732)
Q Consensus       647 ~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  685 (732)
                      +-+.....|   +   ++.-...+...|+++++.++|.+
T Consensus        82 la~iA~~~g---~---~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           82 MQNIAQTRE---D---FGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHTT---C---HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHCc---c---HHHHHHHHHHcCCHHHHHHHHHH
Confidence            444443322   1   22222333345555555555533

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.92  E-value=0.033  Score=44.20  Aligned_cols=70  Identities=14%  Similarity=0.154  Sum_probs=57.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          624 DSISYNTLINGFVREENMDKAFALVSKMENQG------LVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDR  695 (732)
Q Consensus       624 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g------~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  695 (732)
                      +..-+..|+..+.+.|+++.|...++++.+.-      -.+...++..++.++.+.|++++|..+++++.+  +.|+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~--l~P~~   79 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPEH   79 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh--cCCCC
Confidence            44556678889999999999999999987731      123456889999999999999999999999998  78854

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.83  E-value=0.23  Score=56.29  Aligned_cols=76  Identities=13%  Similarity=0.086  Sum_probs=38.9

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 004744          174 DLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKD  253 (732)
Q Consensus       174 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  253 (732)
                      ..+++.+.+.|..++|+++.+...            .-.....+.|++++|.++.+.      ..+...|..+...+.+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~~~------------~~f~~~l~~~~~~~A~~~~~~------~~~~~~W~~la~~al~~  694 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPDQD------------QKFELALKVGQLTLARDLLTD------ESAEMKWRALGDASLQR  694 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCCHH------------HHHHHHHHHTCHHHHHHHHTT------CCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCChHHheecCCCcc------------hheehhhhcCCHHHHHHHHHh------hCcHhHHHHHHHHHHHc
Confidence            344455555666666655442110            002223445666666655432      23455666666666666


Q ss_pred             CChhHHHHHHHHHH
Q 004744          254 HKIDSAKMFLCEME  267 (732)
Q Consensus       254 g~~~~A~~~~~~~~  267 (732)
                      |+++.|+++|.++.
T Consensus       695 ~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          695 FNFKLAIEAFTNAH  708 (814)
T ss_dssp             TCHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHcc
Confidence            66666666666543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.78  E-value=0.082  Score=41.81  Aligned_cols=66  Identities=12%  Similarity=0.026  Sum_probs=36.1

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC------CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 004744          204 SINACNSLLGGLVKIGWVDLAREVYAEVVRSG------IELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       204 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      +..-|-.|...+.+.|++..|..+|+.+++.-      -.+....+..+..++.+.|+++.|...++++.+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            44455566666666666666666666655421      1223344555555555555555555555555544

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.41  E-value=0.92  Score=39.28  Aligned_cols=44  Identities=18%  Similarity=0.187  Sum_probs=22.0

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 004744          252 KDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSM  301 (732)
Q Consensus       252 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  301 (732)
                      ..|+++.|.++.+.+.      +...|..|.....+.|+++-|.+.|...
T Consensus        17 ~lg~l~~A~e~a~~l~------~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~   60 (177)
T 3mkq_B           17 EYGNLDAALDEAKKLN------DSITWERLIQEALAQGNASLAEMIYQTQ   60 (177)
T ss_dssp             HTTCHHHHHHHHHHHC------CHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             hcCCHHHHHHHHHHhC------CHHHHHHHHHHHHHcCChHHHHHHHHHh
Confidence            3455555555544431      4445555555555555555555555543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.29  E-value=0.56  Score=38.03  Aligned_cols=138  Identities=17%  Similarity=0.082  Sum_probs=76.2

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 004744          567 SMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFA  646 (732)
Q Consensus       567 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  646 (732)
                      -.|.+++..++..+.....   +..-+|.++--....-+-+-..+.++.+-+.   -|          ...+|++.....
T Consensus        19 ldG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FD----------is~C~NlKrVi~   82 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FD----------LDKCQNLKSVVE   82 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SC----------GGGCSCTHHHHH
T ss_pred             HhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhh---cC----------cHhhhcHHHHHH
Confidence            3577777777777766542   4444555554444444555555555544321   11          112333333333


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004744          647 LVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGF  726 (732)
Q Consensus       647 ~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  726 (732)
                      .+-.+-     .+....+.-++.+..+|+-++-.+++..++. +.+|++.....+..+|.+.|+..+|.++++++-++|+
T Consensus        83 C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           83 CGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            332221     2333344555666667777777676666432 2556667777777777777777777777777777665

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=95.16  E-value=0.36  Score=40.16  Aligned_cols=103  Identities=15%  Similarity=0.104  Sum_probs=57.8

Q ss_pred             CHHHHHHHHHHHHHcCCh------HHHHHHHHHHHHcCCCCCHH-HHHHHHHH------HHhcCChhHHHHHHHHHHhCC
Q 004744          204 SINACNSLLGGLVKIGWV------DLAREVYAEVVRSGIELNVY-TLNIMVNA------LCKDHKIDSAKMFLCEMEQKG  270 (732)
Q Consensus       204 ~~~~~~~ll~~~~~~g~~------~~a~~~~~~~~~~~~~~~~~-~~~~l~~~------~~~~g~~~~A~~~~~~~~~~g  270 (732)
                      |..+|-..+..+-+.|+.      +..+++|++++.. +||+.. .|...+..      +...++.++|+++|+.+.+.+
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            455565555555555665      5666666666653 344321 11111111      123366777777777775542


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCC
Q 004744          271 VYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKP  308 (732)
Q Consensus       271 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  308 (732)
                      -.- ...|......-.+.|++..|.+++...+..+.+|
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            222 5566666666667777777777777777665553

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=95.10  E-value=0.25  Score=41.05  Aligned_cols=108  Identities=10%  Similarity=-0.014  Sum_probs=77.9

Q ss_pred             CCCchHHHHHHHHHHHHcCCh------HHHHHHHHHHHHCCCccCH-HHHHHHHH------HHHHcCChHHHHHHHHHHH
Q 004744          166 CGSNSLIFDLVIRTYVQARKL------REGSEVFRLLRNKGICFSI-NACNSLLG------GLVKIGWVDLAREVYAEVV  232 (732)
Q Consensus       166 ~~~~~~~~~~l~~~~~~~g~~------~~A~~~~~~~~~~~~~~~~-~~~~~ll~------~~~~~g~~~~a~~~~~~~~  232 (732)
                      .+.|+.+|-..+...-+.|+.      ++.+++|+++...- +|+. ..|...+.      .+...++.++|+++|+.++
T Consensus         9 ~p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~~-Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~   87 (161)
T 4h7y_A            9 MANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEAL-PPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMAR   87 (161)
T ss_dssp             -CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHHS-CGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHcC-CccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            345677777777777777887      88888898887643 2221 11111111      1234489999999999998


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH
Q 004744          233 RSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDT  275 (732)
Q Consensus       233 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  275 (732)
                      +.. ..-...|......=.++|++..|++++.+....+.+|..
T Consensus        88 ~~h-KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~  129 (161)
T 4h7y_A           88 ANC-KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLE  129 (161)
T ss_dssp             HHC-TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHH
T ss_pred             HHh-HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHH
Confidence            763 444888888889999999999999999999999877543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=95.07  E-value=3.1e-05  Score=77.37  Aligned_cols=246  Identities=12%  Similarity=0.107  Sum_probs=152.3

Q ss_pred             ChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHH
Q 004744          117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLL  196 (732)
Q Consensus       117 ~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  196 (732)
                      .+..|+.+..+..+.++..+|++.|-++                       .|+..|..+|....+.|.+++-+..+.-+
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA-----------------------~Dps~y~eVi~~A~~~~~~edLv~yL~Ma  109 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKA-----------------------DDPSSYMEVVQAANTSGNWEELVKYLQMA  109 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCC-----------------------SCCCSSSHHHHHTTTSSCCTTHHHHHHTT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhC-----------------------CChHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            5678999999999999888887654322                       23444555666666677777666666655


Q ss_pred             HHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCC------
Q 004744          197 RNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKG------  270 (732)
Q Consensus       197 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g------  270 (732)
                      ++..-  ++..=+.|+-+|++.++..+-.++..       .||..-...+.+-|...|.++.|.-+|..+....      
T Consensus       110 Rk~~k--e~~IDteLi~ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstL  180 (624)
T 3lvg_A          110 RKKAR--ESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTL  180 (624)
T ss_dssp             STTCC--STTTTHHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSS
T ss_pred             HHHhc--ccccHHHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHH
Confidence            44321  33344566667777766655443322       3455445555666666666666665554432211      


Q ss_pred             --------------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHH
Q 004744          271 --------------VYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEM  336 (732)
Q Consensus       271 --------------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  336 (732)
                                    -..++.||..+-.+|...+++.-|.-.--.++-.     ..-...++..|-..|.+++-+.+++..
T Consensus       181 V~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvh-----adeL~elv~~YE~~G~f~ELIsLlEag  255 (624)
T 3lvg_A          181 VHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH-----ADELEELINYYQDRGYFEELITMLEAA  255 (624)
T ss_dssp             SSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC-----SSCCSGGGSSSSTTCCCTTSTTTHHHH
T ss_pred             HHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhccc-----HHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence                          0236778999999999999988776554444321     122334667788999999999999988


Q ss_pred             HHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHh-CCCCC------CHhHHHHHHHHHHhCCCHHHHHH
Q 004744          337 LQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSR-RGVAP------DIVSFSTLIGIFSRNGQLDRALM  401 (732)
Q Consensus       337 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~g~~~------~~~~~~~l~~~~~~~g~~~~A~~  401 (732)
                      +... ....-.++.|.-.|++-. .++-.+.++..-. .+++.      ....|.-++-.|++-.+++.|..
T Consensus       256 lglE-rAHmGmFTELaILYsKY~-PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          256 LGLE-RAHMGMFTELAILYSKFK-PQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             TTST-TCCHHHHHHHHHHHHSSC-TTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             hCCC-chhHHHHHHHHHHHHhcC-HHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            7432 356678888888888763 4544444433221 12211      23457777777777777776643

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.86  E-value=0.13  Score=41.72  Aligned_cols=86  Identities=13%  Similarity=0.109  Sum_probs=56.1

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHH
Q 004744          605 DASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDK---AFALVSKMENQGLVP--DVITYNVILTGFCRQGRMHDS  679 (732)
Q Consensus       605 ~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~---A~~~~~~~~~~g~~p--~~~~~~~l~~~~~~~g~~~~A  679 (732)
                      .+..+.+-|.+....|. ++..+--.+.+++++..+..+   ++.+++.....+ .|  .......|.-++.+.|++++|
T Consensus        16 ~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           16 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHH
Confidence            34455555655554443 566666667777777776555   777777777642 23  223444566678888888888


Q ss_pred             HHHHHHHHHcCCCCC
Q 004744          680 ELILWRMIEKGLNPD  694 (732)
Q Consensus       680 ~~~~~~~~~~g~~p~  694 (732)
                      .++++.+++  ++|+
T Consensus        94 ~~~~~~lL~--~eP~  106 (126)
T 1nzn_A           94 LKYVRGLLQ--TEPQ  106 (126)
T ss_dssp             HHHHHHHHH--HCTT
T ss_pred             HHHHHHHHH--hCCC
Confidence            888888888  7774

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.86  E-value=1.3  Score=35.99  Aligned_cols=140  Identities=11%  Similarity=0.067  Sum_probs=90.8

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHH
Q 004744          180 YVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSA  259 (732)
Q Consensus       180 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  259 (732)
                      ..-.|.+++..++..+.....   +..-+|-++.-....-+-+-..++++.+-+.   -|.          ..+|++...
T Consensus        17 ~ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrV   80 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSV   80 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHH
T ss_pred             HHHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHH
Confidence            445688888888888887653   6677777777777766777667766655331   111          233444444


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 004744          260 KMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQM  339 (732)
Q Consensus       260 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  339 (732)
                      ...+-.+-.     +..-....++.....|.-++-.+++..+.. +.+|++.....+..+|.+.|+..+|.+++.+.-+.
T Consensus        81 i~C~~~~n~-----~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k  154 (172)
T 1wy6_A           81 VECGVINNT-----LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKK  154 (172)
T ss_dssp             HHHHHHTTC-----CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcc-----hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            444433321     333445556667778888888888777544 34567777777888888888888888888887777


Q ss_pred             CC
Q 004744          340 GL  341 (732)
Q Consensus       340 g~  341 (732)
                      |+
T Consensus       155 G~  156 (172)
T 1wy6_A          155 GE  156 (172)
T ss_dssp             TC
T ss_pred             hh
Confidence            74

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.80  E-value=6.6  Score=43.93  Aligned_cols=266  Identities=12%  Similarity=0.094  Sum_probs=123.9

Q ss_pred             HHHhCCCHHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-------CcCHHHHHHHHHH
Q 004744          389 IFSRNGQLDRALMYFREMKSAGLVPDNV--LYTIIINGYCRNGFVLEALKMRDEMLEKGC-------VMDVVTYNTILNG  459 (732)
Q Consensus       389 ~~~~~g~~~~A~~l~~~~~~~~~~~~~~--~~~~li~~~~~~g~~~~A~~~~~~~~~~~~-------~~~~~~~~~li~~  459 (732)
                      +....|+.++++.++......+-..+..  .-..+.-+....|..+++..++...+...-       .+....-..+.-+
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            3455666667766666544321011222  222333344555555566666666554311       0111122233333


Q ss_pred             HHhcCC-HHHHHHHHHHHHHcCCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 004744          460 LCRAKM-LTEADDLFNEMLERGVFPDFYTFT--TLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEM  536 (732)
Q Consensus       460 ~~~~~~-~~~A~~~~~~~~~~~~~~~~~~~~--~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  536 (732)
                      +.-.|. -+++.+.+..+....- +......  +|...+.-.|+-+....++..+.+.. .-+..-...+.-++...|+.
T Consensus       463 la~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~  540 (963)
T 4ady_A          463 LAAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQ  540 (963)
T ss_dssp             HHSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCG
T ss_pred             HHhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCCh
Confidence            333332 2355555555554321 0111112  22333445667666666766665532 11222222223334456777


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHH---HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 004744          537 EKANKLWADMISRKISPNYISYG---ILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFL  613 (732)
Q Consensus       537 ~~A~~~~~~~~~~~~~~~~~~~~---~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  613 (732)
                      +.+..+.+.+... ..|. .-|.   ++.-+|+..|+.....+++..+.... ..+..-...+.-++...|+.+.+.+++
T Consensus       541 e~~~~li~~L~~~-~dp~-vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          541 ELADDLITKMLAS-DESL-LRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             GGGHHHHHHHHHC-SCHH-HHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             HHHHHHHHHHHhC-CCHH-HHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            7777777766653 1112 2222   23345667777666666777766542 223332223333344456655566666


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHCCCCCCHHHH
Q 004744          614 SKMVSEGVDPDSISYNTLINGFVREENM-DKAFALVSKMENQGLVPDVITY  663 (732)
Q Consensus       614 ~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~g~~p~~~~~  663 (732)
                      +.+.+.+ .|....-..+.-+....|.. .+|+..+..+..   .+|..+-
T Consensus       618 ~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~---D~d~~Vr  664 (963)
T 4ady_A          618 QLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK---DPVDFVR  664 (963)
T ss_dssp             TTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT---CSSHHHH
T ss_pred             HHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc---CCCHHHH
Confidence            5555432 34443333344444444443 567777777764   4555443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.74  E-value=0.086  Score=42.71  Aligned_cols=87  Identities=18%  Similarity=0.170  Sum_probs=66.6

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHHcCCCC--CHHHHHHHHHHHHhcCCHHH
Q 004744          639 ENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHD---SELILWRMIEKGLNP--DRSTYTTLINGHVSQNNLKE  713 (732)
Q Consensus       639 g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~g~~p--~~~~~~~l~~~~~~~g~~~~  713 (732)
                      ..+..+.+-+.+....| .++..+-..+.+++.+..+..+   ++.+++...+.+ .|  .......|.-++.+.|++++
T Consensus        15 ~~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~   92 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEK   92 (126)
T ss_dssp             HHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHH
Confidence            34455566666665544 4788888889999999887666   999999988742 24  35677888999999999999


Q ss_pred             HHHHHHHHHHCCCCCC
Q 004744          714 AFRFHDEMLQRGFVPD  729 (732)
Q Consensus       714 A~~~~~~m~~~g~~pd  729 (732)
                      |.++++.+++  +.|+
T Consensus        93 A~~~~~~lL~--~eP~  106 (126)
T 1nzn_A           93 ALKYVRGLLQ--TEPQ  106 (126)
T ss_dssp             HHHHHHHHHH--HCTT
T ss_pred             HHHHHHHHHH--hCCC
Confidence            9999999984  4554

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=93.70  E-value=5.2  Score=38.44  Aligned_cols=80  Identities=18%  Similarity=0.063  Sum_probs=45.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhc---CChhHHHHHHHHHHHCCCCCCHHhHHH
Q 004744          274 DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKK---GRCDRAKEVLDEMLQMGLSPDTATYNT  350 (732)
Q Consensus       274 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~---g~~~~A~~~~~~~~~~g~~~~~~~~~~  350 (732)
                      |......+...|.+.|++.+|...|-.-.    .-+...+..++--+...   |...++--++.+               
T Consensus       133 dp~LH~~~a~~~~~e~~~~~A~~H~i~~~----~~s~~~~a~~l~~w~~~~~~~~~~e~dlf~~R---------------  193 (312)
T 2wpv_A          133 DPYLHNTIGSKLLEGDFVYEAERYFMLGT----HDSMIKYVDLLWDWLCQVDDIEDSTVAEFFSR---------------  193 (312)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHTSC----HHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHH---------------
T ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHhCC----CccHHHHHHHHHHHHHhcCCCCcchHHHHHHH---------------
Confidence            66777888888888888888888765211    11344555444444333   433332222211               


Q ss_pred             HHHHHHcCCCHhHHHHHHHHHH
Q 004744          351 LLVESCRKENMSEAEEIFCEMS  372 (732)
Q Consensus       351 li~~~~~~g~~~~A~~~~~~~~  372 (732)
                      .+-.|.-.|++..|..+++...
T Consensus       194 aVL~yL~l~n~~~A~~~~~~f~  215 (312)
T 2wpv_A          194 LVFNYLFISNISFAHESKDIFL  215 (312)
T ss_dssp             HHHHHHHTTBHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHH
Confidence            1223445677888877777654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.55  E-value=0.62  Score=50.93  Aligned_cols=132  Identities=14%  Similarity=0.040  Sum_probs=85.0

Q ss_pred             hHHHHHHHHHHHHcCC-hHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcC-ChHHHHHHHHHHHHc------CCCC-CH
Q 004744          170 SLIFDLVIRTYVQARK-LREGSEVFRLLRNKGICFSINACNSLLGGLVKIG-WVDLAREVYAEVVRS------GIEL-NV  240 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~------~~~~-~~  240 (732)
                      ...-..|++.+...|+ ++.|+.+|+++.+..+..+......++..+.+.+ +--+|.++..+.++.      ..++ +.
T Consensus       248 N~L~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~  327 (754)
T 4gns_B          248 NYLMYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDA  327 (754)
T ss_dssp             SHHHHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCH
T ss_pred             HHHHHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccc
Confidence            3455666666666666 5889999999988755433333333444433333 233455555555431      1111 11


Q ss_pred             ----------HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 004744          241 ----------YTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMS  302 (732)
Q Consensus       241 ----------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  302 (732)
                                .....-+..+...|+++-|+++-++.....+. +-.+|..|...|.+.|+++.|+-.++.+.
T Consensus       328 ~~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aPs-eF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          328 DSARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELALD-SFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcCch-hhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                      12333345677789999999999988877322 56789999999999999999999888875

>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=92.42  E-value=1.4  Score=35.83  Aligned_cols=71  Identities=8%  Similarity=0.125  Sum_probs=46.3

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 004744          620 GVDPDSISYNTLINGFVREENM---DKAFALVSKMENQGLVP--DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD  694 (732)
Q Consensus       620 ~~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~g~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~  694 (732)
                      +-.|+..+--.+.+++++..+.   .+++.+++++.+.+  |  ....+..|.-++.+.|++++|.++.+.+++  ++|+
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~--~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~--~eP~  110 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERN  110 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TCTT
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC--cchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hCCC
Confidence            3345666655666677766653   45777777777643  4  234555666677778888888888887777  7775

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.24  E-value=1.1  Score=48.90  Aligned_cols=50  Identities=16%  Similarity=0.166  Sum_probs=35.0

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          670 FCRQGRMHDSELILWRMIEKGLNPD-RSTYTTLINGHVSQNNLKEAFRFHDEM  721 (732)
Q Consensus       670 ~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m  721 (732)
                      |...|+++.|..+.++++.  ..|+ ..+|..|..+|...|+++.|+-.++.+
T Consensus       347 Ll~K~~~elAL~~Ak~AV~--~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          347 LLNRGDYELALGVSNTSTE--LALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HhccCcHHHHHHHHHHHHh--cCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            4456777777777777776  5663 577777777777777777777766665

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=92.16  E-value=2.5  Score=34.90  Aligned_cols=73  Identities=7%  Similarity=0.074  Sum_probs=53.4

Q ss_pred             CCCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          621 VDPDSISYNTLINGFVREENM---DKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDR  695 (732)
Q Consensus       621 ~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  695 (732)
                      -.|+..+--.+.+++++..+.   .+++.+++.+...+..-.......|.-++.+.|++++|.++.+.+++  ++|+.
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 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  110 (144)
T ss_dssp             TTSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH--TCCCC
T ss_pred             CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCCCc
Confidence            356777777778888887764   56888888888742111234455677788999999999999999999  88854

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.77  E-value=9.9  Score=38.98  Aligned_cols=190  Identities=11%  Similarity=0.076  Sum_probs=109.4

Q ss_pred             cCCHHHHHHHHHHHHHC-----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----hc
Q 004744          498 DGNMNKALNLFDIMTQK-----SIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYC----SM  568 (732)
Q Consensus       498 ~g~~~~A~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~----~~  568 (732)
                      .|+++.|++.+-.+.+.     +..........++..|.+.|+++...+.+.-+.+.... -......++..+.    ..
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~q-lk~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQ-LKLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTT-SHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHhcC
Confidence            37888888877665542     34445677788889999999999888877666544222 2222333433322    22


Q ss_pred             CCHHHHH--HHHHHHHh--CC-CCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCCCC---HHHHHHHHHHH
Q 004744          569 GHVTEAF--RLWYEMVG--KG-IKP---TLVSCNTIIKGYCRSGDASKADEFLSKMVSE--GVDPD---SISYNTLINGF  635 (732)
Q Consensus       569 g~~~~A~--~~~~~~~~--~~-~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~---~~~~~~li~~~  635 (732)
                      ...+...  .+.+....  .| +-.   .......+...|...|++.+|.+++..+...  +..+.   ...+...+..|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            2222211  11111110  11 111   1123345677788888888888888887643  22211   23455566777


Q ss_pred             HhcCCHHHHHHHHHHHHH----CCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          636 VREENMDKAFALVSKMEN----QGLVPDV--ITYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       636 ~~~g~~~~A~~~~~~~~~----~g~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                      ...+++..|..+++++..    ....|+.  ..+...+..+...+++.+|.+.|.++.+
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            788888888888777642    2122222  3455666666777888888877777765

>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=91.39  E-value=1.9  Score=35.11  Aligned_cols=71  Identities=15%  Similarity=0.073  Sum_probs=39.4

Q ss_pred             CCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 004744          587 KPTLVSCNTIIKGYCRSGD---ASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPD  659 (732)
Q Consensus       587 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~  659 (732)
                      .|+..+--.+..++.+..+   ..+++.+++++.+.+..-....+-.|.-++.+.|++++|.++.+.+.+  +.|+
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~--~eP~  110 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERN  110 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TCTT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hCCC
Confidence            4555555555556665554   335666666665543111234444555566666666666666666666  4554

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=91.08  E-value=23  Score=39.69  Aligned_cols=261  Identities=11%  Similarity=0.030  Sum_probs=145.2

Q ss_pred             HHHHcCCCHhHHHHHHHHHHhCC--CCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCC--C-----CCHHHHHHHHH
Q 004744          353 VESCRKENMSEAEEIFCEMSRRG--VAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGL--V-----PDNVLYTIIIN  423 (732)
Q Consensus       353 ~~~~~~g~~~~A~~~~~~~~~~g--~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~--~-----~~~~~~~~li~  423 (732)
                      -+....|+.++++.+++.....+  -.+....-..+.-+....|..+++..++.......-  .     +....-..+.-
T Consensus       382 LGlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGL  461 (963)
T 4ady_A          382 LGVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGI  461 (963)
T ss_dssp             HHHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHH
T ss_pred             hhhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHH
Confidence            44567788888888887765421  112233333444555666666678887777654311  0     11111222323


Q ss_pred             HHHHcCC-HHHHHHHHHHHHHCCCCcCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 004744          424 GYCRNGF-VLEALKMRDEMLEKGCVMDV--VTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGN  500 (732)
Q Consensus       424 ~~~~~g~-~~~A~~~~~~~~~~~~~~~~--~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  500 (732)
                      +++-.|. -+++.+.+..++..... ..  ..--.+...++-.|+.+....++..+.+.. .-+..-...+.-++...|+
T Consensus       462 Gla~~GS~~eev~e~L~~~L~dd~~-~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~  539 (963)
T 4ady_A          462 GLAAMGSANIEVYEALKEVLYNDSA-TSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGR  539 (963)
T ss_dssp             HHHSTTCCCHHHHHHHHHHHHTCCH-HHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTC
T ss_pred             HHHhcCCCCHHHHHHHHHHHhcCCH-HHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCC
Confidence            3333333 24666767766654211 11  111233344556778887788888776642 1122222333444557899


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 004744          501 MNKALNLFDIMTQKSIKPDIVTYN--TLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLW  578 (732)
Q Consensus       501 ~~~A~~~~~~~~~~~~~~~~~~~~--~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  578 (732)
                      .+.+..+.+.+... ..|....-.  ++.-+|+..|+.....+++..+.+. ...++.....+.-++...|+.+.+.+++
T Consensus       540 ~e~~~~li~~L~~~-~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d-~~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          540 QELADDLITKMLAS-DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD-SNDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             GGGGHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             hHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC-CcHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            99888888888764 222322222  2334567788988777799888865 2223333333444555567777777777


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHH
Q 004744          579 YEMVGKGIKPTLVSCNTIIKGYCRSGDA-SKADEFLSKMVS  618 (732)
Q Consensus       579 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~  618 (732)
                      ..+.+.+ .|...--..+.-+....|.. .++...+..+..
T Consensus       618 ~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          618 QLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             TTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            6666554 44444444444455555553 678888888875

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=91.03  E-value=4.5  Score=33.36  Aligned_cols=72  Identities=15%  Similarity=0.062  Sum_probs=51.0

Q ss_pred             CCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 004744          587 KPTLVSCNTIIKGYCRSGD---ASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDV  660 (732)
Q Consensus       587 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~  660 (732)
                      .|+..+--.+..++.+..+   ..+++.+++.+...+..-.....-.|.-++.+.|++++|.++.+.+.+  ++|+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~--~eP~n  110 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  110 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH--TCCCC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCCCc
Confidence            5666776677777777765   456788888877754322344555667788888888888888888888  56753

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=90.60  E-value=5.5  Score=46.69  Aligned_cols=124  Identities=13%  Similarity=0.060  Sum_probs=68.6

Q ss_pred             CCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCcc-----------------------CHHHHHHHHHHHHHcCChH
Q 004744          166 CGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICF-----------------------SINACNSLLGGLVKIGWVD  222 (732)
Q Consensus       166 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-----------------------~~~~~~~ll~~~~~~g~~~  222 (732)
                      |+.++..--.++++|...|++++|.+.|+++.. |+..                       -..-|..++..+-+.|.++
T Consensus       838 ~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~  916 (1139)
T 4fhn_B          838 LNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYI  916 (1139)
T ss_dssp             SCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCH
T ss_pred             ccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHcCCHH
Confidence            445555556678888889999999988876531 1100                       1123455555666666666


Q ss_pred             HHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHH
Q 004744          223 LAREVYAEVVRSGIELNV----YTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLE  292 (732)
Q Consensus       223 ~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~  292 (732)
                      .+.+.-..+++...+.+.    ..|..+.+.+...|++++|...+-.+.....  -......||...|..|..+
T Consensus       917 ~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r~~cLr~LV~~lce~~~~~  988 (1139)
T 4fhn_B          917 DALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--KKSCLLDFVNQLTKQGKIN  988 (1139)
T ss_dssp             HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--CHHHHHHHHHHHHHHCCHH
T ss_pred             HHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--HHHHHHHHHHHHHhCCChh
Confidence            666665555543222221    1355556666666666666666655554422  2334444555555555433

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.32  E-value=18  Score=37.10  Aligned_cols=190  Identities=10%  Similarity=0.043  Sum_probs=122.7

Q ss_pred             cCCHHHHHHHHHHHHHc-----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH----Hhc
Q 004744          463 AKMLTEADDLFNEMLER-----GVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGF----CKV  533 (732)
Q Consensus       463 ~~~~~~A~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~----~~~  533 (732)
                      .|++++|++.+..+.+.     +..........++..|...|+++...+.+..+.+.... -......+++.+    ...
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~q-lk~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQ-LKLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTT-SHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHhcC
Confidence            37788998888776643     23445677888999999999999998888766654322 222333444333    233


Q ss_pred             CCHHHHHH--HHHHHHH--CC-CCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCC---HHHHHHHHHHH
Q 004744          534 GEMEKANK--LWADMIS--RK-ISP---NYISYGILINGYCSMGHVTEAFRLWYEMVGK--GIKPT---LVSCNTIIKGY  600 (732)
Q Consensus       534 g~~~~A~~--~~~~~~~--~~-~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~---~~~~~~l~~~~  600 (732)
                      ...+....  +.+....  .| .-.   .......|...|...|++.+|.+++.++...  |....   ...+...++.|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            33332211  1111111  01 111   1123456888999999999999999998753  32222   24566677889


Q ss_pred             HHcCCHHHHHHHHHHHHH----CCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          601 CRSGDASKADEFLSKMVS----EGVDPD--SISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       601 ~~~g~~~~A~~~~~~~~~----~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      ...+++.+|..+++++..    ....|+  ...+...+..+...+++.+|.+.|.++.+
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            999999999999998753    222222  34567778888899999999888877765

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=89.27  E-value=16  Score=35.24  Aligned_cols=81  Identities=15%  Similarity=0.071  Sum_probs=44.6

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHH
Q 004744          273 PDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLL  352 (732)
Q Consensus       273 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li  352 (732)
                      -|......+...|.+.+++.+|...|-  .  |-.+....+..++--+...+...++--++              -. .+
T Consensus       134 Gdp~LH~~ig~~~~~e~~~~~Ae~H~i--l--g~~~s~~~~a~mL~ew~~~~~~~e~dlfi--------------aR-aV  194 (336)
T 3lpz_A          134 GDPELHHVVGTLYVEEGEFEAAEKHLV--L--GTKESPEVLARMEYEWYKQDESHTAPLYC--------------AR-AV  194 (336)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHT--T--SCTTHHHHHHHHHHHHHHTSCGGGHHHHH--------------HH-HH
T ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHH--h--cCCchHHHHHHHHHHHHHhcCCccHHHHH--------------HH-HH
Confidence            366677778888888888888887773  2  22333356655544444333322222111              11 22


Q ss_pred             HHHHcCCCHhHHHHHHHHHH
Q 004744          353 VESCRKENMSEAEEIFCEMS  372 (732)
Q Consensus       353 ~~~~~~g~~~~A~~~~~~~~  372 (732)
                      -.|.-.+++..|..+++...
T Consensus       195 L~yL~l~n~~~A~~~~~~f~  214 (336)
T 3lpz_A          195 LPYLLVANVRAANTAYRIFT  214 (336)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHH
Confidence            33455677777777665544

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=88.73  E-value=17  Score=34.80  Aligned_cols=167  Identities=15%  Similarity=0.029  Sum_probs=87.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHH----HHHHHHcCCCCCHHHHHHHH
Q 004744          417 LYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDL----FNEMLERGVFPDFYTFTTLI  492 (732)
Q Consensus       417 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~----~~~~~~~~~~~~~~~~~~li  492 (732)
                      .|.++..-|.+.+++++|++++..-...               +.+.|+...|.++    .+-..+.+.+++......++
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~ga~~---------------ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~   99 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQGALS---------------FLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLV   99 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------HHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHH---------------HHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            3444555566777777777766543321               4555665555443    33344456666766666666


Q ss_pred             HHHHhcCCHH-HHHHHHHHHHH----CC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004744          493 HGHCKDGNMN-KALNLFDIMTQ----KS--IKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGY  565 (732)
Q Consensus       493 ~~~~~~g~~~-~A~~~~~~~~~----~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  565 (732)
                      ..+.....-+ .=.++.+.+++    .|  ..-++.....+...|.+.|++.+|...|-.    +-..+...+..++--+
T Consensus       100 ~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~----~~~~s~~~~a~~l~~w  175 (312)
T 2wpv_A          100 RLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFML----GTHDSMIKYVDLLWDW  175 (312)
T ss_dssp             HHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHT----SCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHh----CCCccHHHHHHHHHHH
Confidence            6655432111 11222333321    11  223677788888888999999888887631    1111334444433333


Q ss_pred             Hhc---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 004744          566 CSM---GHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMV  617 (732)
Q Consensus       566 ~~~---g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  617 (732)
                      ...   |...++-              ......++ .|.-.|+...|..+++...
T Consensus       176 ~~~~~~~~~~e~d--------------lf~~RaVL-~yL~l~n~~~A~~~~~~f~  215 (312)
T 2wpv_A          176 LCQVDDIEDSTVA--------------EFFSRLVF-NYLFISNISFAHESKDIFL  215 (312)
T ss_dssp             HHHTTCCCHHHHH--------------HHHHHHHH-HHHHTTBHHHHHHHHHHHH
T ss_pred             HHhcCCCCcchHH--------------HHHHHHHH-HHHHhcCHHHHHHHHHHHH
Confidence            332   3333321              11111222 3445688888888877664

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=88.73  E-value=14  Score=43.32  Aligned_cols=153  Identities=12%  Similarity=0.060  Sum_probs=102.8

Q ss_pred             cChhHHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChh-------HHHHhhhhhcCCCC
Q 004744           95 DNLQVGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRL-------EIVDSFVSTYSPCG  167 (732)
Q Consensus        95 ~~~~~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~  167 (732)
                      +.++.+..+..|+       ..++.+--.++.++...|++++|...|.++.  .+....       .-...+........
T Consensus       826 ~~~~~~~~l~~~~-------~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa--~~~~~~~~l~~~~~~~~~~~~~~~~~~  896 (1139)
T 4fhn_B          826 KQYNACMQLIGWL-------NSDPIAVYLKALIYLKSKEAVKAVRCFKTTS--LVLYSHTSQFAVLREFQEIAEKYHHQN  896 (1139)
T ss_dssp             SCTTHHHHHHHHS-------CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCC--CSCTTCCCSCSSHHHHHHHHHTTTSCC
T ss_pred             hhHHHHHHHhhhc-------cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHh--hhhcccchhhhhhcccccccccccccc
Confidence            4556666666553       3456666788999999999999999998764  222110       01111222222223


Q ss_pred             CchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCH----HHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH
Q 004744          168 SNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSI----NACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTL  243 (732)
Q Consensus       168 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  243 (732)
                      .-+.-|.-++..+-+.|.++.++++-..+++....-+.    ..|..+.+.....|++++|...+-.+....  .-....
T Consensus       897 ~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~--~r~~cL  974 (1139)
T 4fhn_B          897 LLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTP--LKKSCL  974 (1139)
T ss_dssp             SSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSS--SCHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHH--HHHHHH
Confidence            33456788889999999999999998888764322122    268889999999999999999998876543  234456


Q ss_pred             HHHHHHHHhcCChhH
Q 004744          244 NIMVNALCKDHKIDS  258 (732)
Q Consensus       244 ~~l~~~~~~~g~~~~  258 (732)
                      ..++..+|..|..+.
T Consensus       975 r~LV~~lce~~~~~~  989 (1139)
T 4fhn_B          975 LDFVNQLTKQGKINQ  989 (1139)
T ss_dssp             HHHHHHHHHHCCHHH
T ss_pred             HHHHHHHHhCCChhh
Confidence            667777777665443

>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=88.50  E-value=1.4  Score=44.47  Aligned_cols=73  Identities=11%  Similarity=0.097  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCCCCHHHHHH
Q 004744          627 SYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIE-----KGLNPDRSTYTT  700 (732)
Q Consensus       627 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~g~~p~~~~~~~  700 (732)
                      ....++..+...|+.++|+..+..+..  ..| +...|..++.++.+.|+..+|...|+++.+     .|+.|...+-..
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~--~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l  250 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTF--EHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRAL  250 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence            445566777788888888888888776  344 666788888888888888888888877653     478887765443


Q ss_pred             H
Q 004744          701 L  701 (732)
Q Consensus       701 l  701 (732)
                      .
T Consensus       251 ~  251 (388)
T 2ff4_A          251 N  251 (388)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=87.29  E-value=22  Score=34.36  Aligned_cols=25  Identities=16%  Similarity=0.098  Sum_probs=16.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHH
Q 004744          624 DSISYNTLINGFVREENMDKAFALV  648 (732)
Q Consensus       624 ~~~~~~~li~~~~~~g~~~~A~~~~  648 (732)
                      |+.....+...|.+.+++.+|...|
T Consensus       135 dp~LH~~ig~~~~~e~~~~~Ae~H~  159 (336)
T 3lpz_A          135 DPELHHVVGTLYVEEGEFEAAEKHL  159 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHccCCHHHHHHHH
Confidence            4555556666677777777766655

>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=87.17  E-value=3.7  Score=41.31  Aligned_cols=56  Identities=9%  Similarity=-0.058  Sum_probs=27.8

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 004744          175 LVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEV  231 (732)
Q Consensus       175 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  231 (732)
                      .++..+...|++++|+...+.+....+. +...|..++.+|.+.|+..+|++.|++.
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~~~P~-~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTFEHPY-REPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444444555555555555554444333 4445555555555555555555555544

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=86.78  E-value=3.2  Score=35.27  Aligned_cols=28  Identities=14%  Similarity=0.069  Sum_probs=22.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          694 DRSTYTTLINGHVSQNNLKEAFRFHDEM  721 (732)
Q Consensus       694 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m  721 (732)
                      +.+.-..+..||.+.|++++|+..++.+
T Consensus       121 e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A          121 EIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence            3455566889999999999999988754

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=86.28  E-value=3.8  Score=31.28  Aligned_cols=63  Identities=17%  Similarity=0.195  Sum_probs=46.0

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          640 NMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLIN  703 (732)
Q Consensus       640 ~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~  703 (732)
                      +.=+..+-++.+....+-|++.+..+.+.+|.+.+++..|.++|+-...+ ..+...+|..++.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHH
Confidence            34456666677777778888888888888888888888888888887764 3333456766653

>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=85.03  E-value=44  Score=35.72  Aligned_cols=69  Identities=14%  Similarity=-0.016  Sum_probs=48.1

Q ss_pred             CCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHH--HHHHHHHHHH
Q 004744          164 SPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDL--AREVYAEVVR  233 (732)
Q Consensus       164 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~--a~~~~~~~~~  233 (732)
                      ...+.+...-.....+....|+..+|....+.+-..|.. ....|..++..+.+.|....  .++-++.+..
T Consensus        96 ~~~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~~-~p~~c~~l~~~~~~~g~lt~~~~~~R~~~al~  166 (618)
T 1qsa_A           96 PEKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-QPNACDKLFSVWRASGKQDPLAYLERIRLAMK  166 (618)
T ss_dssp             CSCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-CCTHHHHHHHHHHHTTCSCHHHHHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCCC-CcHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
Confidence            334556677777888888899988888888888776644 66788888888887775433  3333444443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=84.19  E-value=5.6  Score=33.82  Aligned_cols=115  Identities=10%  Similarity=-0.020  Sum_probs=63.8

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCC-CccC-------HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC--CCCCHHHHHHH
Q 004744          177 IRTYVQARKLREGSEVFRLLRNKG-ICFS-------INACNSLLGGLVKIGWVDLAREVYAEVVRSG--IELNVYTLNIM  246 (732)
Q Consensus       177 ~~~~~~~g~~~~A~~~~~~~~~~~-~~~~-------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~l  246 (732)
                      ++.+...|.++.|+-+.+.+.... ..++       ..+...+.+++...|++..|...|+++++..  ++.+..+...+
T Consensus        27 ik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~~  106 (167)
T 3ffl_A           27 VRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPST  106 (167)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC----------
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccccc
Confidence            455677888888888877755321 1222       1256677788999999999999999976421  11111111111


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC
Q 004744          247 VNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGK  304 (732)
Q Consensus       247 ~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  304 (732)
                      ..    ......         ......++..---+...|.+.|++++|+.+++.+..+
T Consensus       107 ~~----~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A          107 GN----SASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             -----------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             cc----cCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            00    000000         0011224444444677788888888888888876543

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=83.17  E-value=9.6  Score=33.57  Aligned_cols=56  Identities=14%  Similarity=0.144  Sum_probs=37.7

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 004744          638 EENMDKAFALVSKMENQGLVPD-VITYNVILTGFCRQGRMHDSELILWRMIEKGLNP  693 (732)
Q Consensus       638 ~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p  693 (732)
                      .+...++..+|..|...|+--. ...|...+..+...|++.+|..+|+.-++.+-.|
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            3446677777777777655443 3456666666777777777777777777766666

>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=82.99  E-value=40  Score=33.61  Aligned_cols=167  Identities=10%  Similarity=-0.062  Sum_probs=85.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCC---CHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHCCCCCCHHHH-
Q 004744          450 VVTYNTILNGLCRAKMLTEADDLFNEMLER-GVFP---DFYTFTTLIHGHCKD-GNMNKALNLFDIMTQKSIKPDIVTY-  523 (732)
Q Consensus       450 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~~~~---~~~~~~~li~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~-  523 (732)
                      ......|...|.+.|+.++..+++.....- +..|   .......++..+... +..+.-.++..+..+..- .+..+| 
T Consensus        19 e~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~-~~~r~fl   97 (394)
T 3txn_A           19 EQGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAK-QEKRTFL   97 (394)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH-HTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH-HHHHHHH
Confidence            345667778888888888888777765432 1111   122345566666553 334444444444433100 011222 


Q ss_pred             -----HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCCHH
Q 004744          524 -----NTLIDGFCKVGEMEKANKLWADMISRKISPN-----YISYGILINGYCSMGHVTEAFRLWYEMVGK--GIKPTLV  591 (732)
Q Consensus       524 -----~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~  591 (732)
                           .-++..|...|++.+|.+++.++.+.-...|     ...+..-+..|...+++.++...+......  .+.+++.
T Consensus        98 r~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~  177 (394)
T 3txn_A           98 RQSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPK  177 (394)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHH
Confidence                 2456667777777777777766665311111     123444455666667777777666665432  1223332


Q ss_pred             HHHH----HHHHHH-HcCCHHHHHHHHHHHH
Q 004744          592 SCNT----IIKGYC-RSGDASKADEFLSKMV  617 (732)
Q Consensus       592 ~~~~----l~~~~~-~~g~~~~A~~~~~~~~  617 (732)
                      +-..    -...+. ..+++.+|...|-+..
T Consensus       178 i~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          178 VQGALDLQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHhccCHHHHHHHHHHHH
Confidence            2211    112334 5666777666665554

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=81.42  E-value=16  Score=37.28  Aligned_cols=97  Identities=16%  Similarity=0.015  Sum_probs=58.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC---CCCCCHHH--HH
Q 004744          557 SYGILINGYCSMGHVTEAFRLWYEMVGKG--IKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSE---GVDPDSIS--YN  629 (732)
Q Consensus       557 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~--~~  629 (732)
                      +...+...|.+.|++++|.+.+.++....  ...-...+-.+++.+...+++..+...+.++...   +..|+...  ..
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            45567777888888888888888877642  2223455666777777778888888777776542   22222211  11


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          630 TLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       630 ~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      .-+-.+...+++.+|.+.|-++..
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhc
Confidence            112223456777777777666554

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=81.08  E-value=9.8  Score=35.31  Aligned_cols=112  Identities=14%  Similarity=0.155  Sum_probs=62.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH----HHHHHHHHHHhcC
Q 004744          564 GYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSI----SYNTLINGFVREE  639 (732)
Q Consensus       564 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~----~~~~li~~~~~~g  639 (732)
                      ...+.|++++|++....-++.. |-|...-..++..+|-.|++++|.+-++.+.+.  .|+..    .|..+|.+     
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l--~p~~~~~a~~yr~lI~a-----   77 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKA-----   77 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHH-----
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CchhhHHHHHHHHHHHH-----
Confidence            3456677777777777777664 666666677777777777777777777776663  34422    22233222     


Q ss_pred             CHHHHHHHHHHHHHCCCCC-----CHHHHHHHHHHHH--hcCCHHHHHHHHHHHHH
Q 004744          640 NMDKAFALVSKMENQGLVP-----DVITYNVILTGFC--RQGRMHDSELILWRMIE  688 (732)
Q Consensus       640 ~~~~A~~~~~~~~~~g~~p-----~~~~~~~l~~~~~--~~g~~~~A~~~~~~~~~  688 (732)
                           ...=.+...-+-.|     ...-...++.+..  ..|+.++|..+-.++.+
T Consensus        78 -----E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e  128 (273)
T 1zbp_A           78 -----AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  128 (273)
T ss_dssp             -----HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Confidence                 11112222211122     2223344444443  45777777777777765

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	732
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.94
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.93
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.62
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.61
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.39
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.34
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.28
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.23
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.17
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.17
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.17
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.17
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.12
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.09
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.7
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.68
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.65
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.64
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.61
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.59
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.59
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.58
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.58
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.55
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.5
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.43
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.42
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.35
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.29
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.26
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.24
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.17
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.15
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.1
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.08
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.06
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.06
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.05
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.03
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.03
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.02
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.01
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.01
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.92
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.91
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.85
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.79
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.74
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.66
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.64
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.58
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.3
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.26
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.2
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.7
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.58
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.16
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.51
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.58
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.56
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	92.49
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	86.3
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	86.11

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=3e-22  Score=206.41  Aligned_cols=380  Identities=13%  Similarity=0.093  Sum_probs=270.2

Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHH
Q 004744          318 NGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLD  397 (732)
Q Consensus       318 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~  397 (732)
                      ..+.+.|++++|.+.++++++.. +-+..++..+...|.+.|++++|.+.++++.+.... +..+|..+...+.+.|+++
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~l~~~~~~~g~~~   84 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-LAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHhhhhcccc
Confidence            34445555555555555555432 223445555555555666666666666655554322 4555666666666666666


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          398 RALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEML  477 (732)
Q Consensus       398 ~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  477 (732)
                      +|...+....+.... +..............+....+............. ...............+....+...+....
T Consensus        85 ~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (388)
T d1w3ba_          85 EAIEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             ccccccccccccccc-cccccccccccccccccccccccccccccccccc-cccccccccccccccchhhhhHHHHHHhh
Confidence            666666666554322 3333333444444444444444444444433322 33444445555666777777777777776


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 004744          478 ERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYIS  557 (732)
Q Consensus       478 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  557 (732)
                      ...+. +...+..+...+...|++++|...++...+... .+...+..+...+...|++++|...+++...... .+...
T Consensus       163 ~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~  239 (388)
T d1w3ba_         163 ETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVV  239 (388)
T ss_dssp             HHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHH
T ss_pred             ccCcc-hhHHHHhhcccccccCcHHHHHHHHHHHHHhCc-ccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHH
Confidence            65433 566777778888888888888888888777543 2567778888888889999999999988887643 36677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 004744          558 YGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVR  637 (732)
Q Consensus       558 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~  637 (732)
                      +..+...+.+.|++++|+..|++.++.. +.+..++..+...+...|++++|++.++...... +.+...+..+...+.+
T Consensus       240 ~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  317 (388)
T d1w3ba_         240 HGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKRE  317 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHH
Confidence            8888888999999999999999988874 5567888899999999999999999999888753 4567788889999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHhcCC
Q 004744          638 EENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-RSTYTTLINGHVSQNN  710 (732)
Q Consensus       638 ~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~  710 (732)
                      .|++++|++.++++++  +.| +..+|..++.+|.+.|++++|...|+++++  +.|+ ..+|..++.+|.+.||
T Consensus       318 ~~~~~~A~~~~~~al~--~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         318 QGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TTCHHHHHHHHHHHTT--SCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCC
Confidence            9999999999999988  456 466888999999999999999999999998  8885 6889999999988886

>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=99.93  E-value=9.6e-22  Score=202.55  Aligned_cols=384  Identities=13%  Similarity=0.038  Sum_probs=207.1

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 004744          176 VIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHK  255 (732)
Q Consensus       176 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  255 (732)
                      +...+.+.|++++|++.|+++.+..+. +..++..+..++.+.|++++|...|+++++.. |.+..++..++.+|.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPD-NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            455667778888888888887776554 66777777777777777777777777777654 5556677777777777777


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHH
Q 004744          256 IDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDE  335 (732)
Q Consensus       256 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  335 (732)
                      +++|...+....+.... +...+..........+....+............. ...............+....+...+.+
T Consensus        83 ~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             ccccccccccccccccc-cccccccccccccccccccccccccccccccccc-cccccccccccccccchhhhhHHHHHH
Confidence            77777777776665332 3333444444444445555554444444333222 333344444445555555555555555


Q ss_pred             HHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCH
Q 004744          336 MLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDN  415 (732)
Q Consensus       336 ~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~  415 (732)
                      ..... +.+...+..+...+...|+.++|...+.+..+.... +...|..+...+...|++++|...+.+....+. .+.
T Consensus       161 ~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~  237 (388)
T d1w3ba_         161 AIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHA  237 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCH
T ss_pred             hhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHH
Confidence            54432 223445555555555566666666655555543211 344555555555555555555555555544321 233


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 004744          416 VLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGH  495 (732)
Q Consensus       416 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  495 (732)
                      ..+..+...+.+.|++++|+..+++.++..+. +..                                   ++..+...+
T Consensus       238 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~-----------------------------------~~~~l~~~~  281 (388)
T d1w3ba_         238 VVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPD-----------------------------------AYCNLANAL  281 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHH-----------------------------------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHH-----------------------------------HHHHHHHHH
Confidence            34444444455555555555555544443322 344                                   444444444


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 004744          496 CKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAF  575 (732)
Q Consensus       496 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  575 (732)
                      ...|++++|...++...... +.+...+..+...+.+.|++++|++.|++.++.. +.+..++..+...|.+.|++++|+
T Consensus       282 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~  359 (388)
T d1w3ba_         282 KEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEAL  359 (388)
T ss_dssp             HHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHH
T ss_pred             HHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            55555555555554444332 2244444445555555555555555555554432 123444555555555555555555


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 004744          576 RLWYEMVGKGIKPTLVSCNTIIKGYCRSGD  605 (732)
Q Consensus       576 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  605 (732)
                      ..|++.++.. |.+...|..+..+|.+.||
T Consensus       360 ~~~~~al~l~-P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         360 MHYKEAIRIS-PTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHTTC-TTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            5555555442 2334455555555555443

>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=99.62  E-value=1.9e-13  Score=135.83  Aligned_cols=228  Identities=14%  Similarity=0.002  Sum_probs=149.3

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 004744          175 LVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDH  254 (732)
Q Consensus       175 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  254 (732)
                      ..+..|.+.|++++|+..|+++++..+. +..+|..+..++...|++++|...|.++++.. |.+...+..++..|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            4577799999999999999999998877 78999999999999999999999999999875 667888999999999999


Q ss_pred             ChhHHHHHHHHHHhCCCCCCHHHH----------------HHHHHHHHHcCCHHHHHHHHHHHhhCCC-CCCHhhHHHHH
Q 004744          255 KIDSAKMFLCEMEQKGVYPDTVTY----------------NTLINAYCREGFLEEAFQLMNSMSGKGL-KPGVFTYNSLI  317 (732)
Q Consensus       255 ~~~~A~~~~~~~~~~g~~p~~~~~----------------~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~li  317 (732)
                      ++++|.+.++++....  |+....                ...+..+.+.+.+.+|.+.|.+...... ..+..++..+.
T Consensus       102 ~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~  179 (323)
T d1fcha_         102 LQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLG  179 (323)
T ss_dssp             CHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHH
T ss_pred             cccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            9999999999988763  221110                0111222333445555555555543321 12344455555


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHH
Q 004744          318 NGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLD  397 (732)
Q Consensus       318 ~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~  397 (732)
                      ..+...|++++|...|++.+... +-+..+|..+...+...|++++|.+.|++..+.... +..+|..+..+|.+.|+++
T Consensus       180 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~  257 (323)
T d1fcha_         180 VLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPG-YIRSRYNLGISCINLGAHR  257 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhhc-cHHHHHHHHHHHHHCCCHH
Confidence            55555566666665555555432 223445555555555555555555555555543211 3445555555555555555


Q ss_pred             HHHHHHHHHHH
Q 004744          398 RALMYFREMKS  408 (732)
Q Consensus       398 ~A~~l~~~~~~  408 (732)
                      +|+..|++.++
T Consensus       258 ~A~~~~~~al~  268 (323)
T d1fcha_         258 EAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555443

>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=99.61  E-value=1.2e-13  Score=137.43  Aligned_cols=228  Identities=12%  Similarity=0.027  Sum_probs=135.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 004744          455 TILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVG  534 (732)
Q Consensus       455 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  534 (732)
                      .....+.+.|++++|+..|+++++..+. +..+|..+...+...|++++|...+.++.+.... +...+..+...|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccccc
Confidence            4556677888888888888888877554 6777888888888888888888888887765432 5667777777888888


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHH---------------HHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHH
Q 004744          535 EMEKANKLWADMISRKISPNYIS---------------YGILINGYCSMGHVTEAFRLWYEMVGKG-IKPTLVSCNTIIK  598 (732)
Q Consensus       535 ~~~~A~~~~~~~~~~~~~~~~~~---------------~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~l~~  598 (732)
                      ++++|.+.++++...... ....               ....+..+...+.+.+|.+.|.+.++.. -..+..++..+..
T Consensus       102 ~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~  180 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGV  180 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHH
T ss_pred             cccccccchhhHHHhccc-hHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            888888888887765321 0000               0011122233344555555555554431 1223444555555


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHH
Q 004744          599 GYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMH  677 (732)
Q Consensus       599 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~  677 (732)
                      .+...|++++|+..+++.+... +-+...|..++..|.+.|++++|++.++++++  +.| +..+|..++.+|.+.|+++
T Consensus       181 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~~~a~~~lg~~~~~~g~~~  257 (323)
T d1fcha_         181 LFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALE--LQPGYIRSRYNLGISCINLGAHR  257 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHH--HhhccHHHHHHHHHHHHHCCCHH
Confidence            5555555555555555555432 12344555555555555555555555555555  233 3345555555555555555


Q ss_pred             HHHHHHHHHHH
Q 004744          678 DSELILWRMIE  688 (732)
Q Consensus       678 ~A~~~~~~~~~  688 (732)
                      +|+..|+++++
T Consensus       258 ~A~~~~~~al~  268 (323)
T d1fcha_         258 EAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555555

>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=99.39  E-value=7.7e-11  Score=115.43  Aligned_cols=217  Identities=7%  Similarity=0.013  Sum_probs=176.6

Q ss_pred             chHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcC-ChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004744          169 NSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIG-WVDLAREVYAEVVRSGIELNVYTLNIMV  247 (732)
Q Consensus       169 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~  247 (732)
                      ...+++.+...+.+.++.++|++.++++++.+|. +..+|+....++...| ++++|...++.+++.. +.+..+|..+.
T Consensus        42 ~~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~  119 (315)
T d2h6fa1          42 FRDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  119 (315)
T ss_dssp             HHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHh
Confidence            3667888888899999999999999999999888 8999999999999877 4899999999999876 77888999999


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCC--
Q 004744          248 NALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGR--  325 (732)
Q Consensus       248 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~--  325 (732)
                      ..+.+.|++++|+..++++.+..+. +..+|..+...+.+.|++++|++.++.+++.++. +..+|+.+...+.+.+.  
T Consensus       120 ~~~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~  197 (315)
T d2h6fa1         120 VLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYN  197 (315)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccc
Confidence            9999999999999999999998654 7889999999999999999999999999987554 77889888887777665  


Q ss_pred             ----hhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCC-CHhHHHHHHHHHH
Q 004744          326 ----CDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAP-DIVSFSTLIGIFS  391 (732)
Q Consensus       326 ----~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~-~~~~~~~l~~~~~  391 (732)
                          +++|...+.+.++.. +.+...|+.+...+.. ...+++.+.+....+....+ +...+..++..|.
T Consensus       198 ~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~  266 (315)
T d2h6fa1         198 DRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYE  266 (315)
T ss_dssp             SHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHH
T ss_pred             hhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHH
Confidence                568888888888764 4467777777665544 44677888877776543222 3445555555543

>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=99.34  E-value=9.9e-11  Score=114.61  Aligned_cols=216  Identities=12%  Similarity=0.008  Sum_probs=177.5

Q ss_pred             hHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCC-hHHHHHHHHHH
Q 004744          118 SMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARK-LREGSEVFRLL  196 (732)
Q Consensus       118 ~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~  196 (732)
                      ..+++.+..++.+.+++++|+.++.+++..                  .|.+..+|+..+.++...|+ +++|+..++++
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~l------------------nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~a  104 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIEL------------------NAANYTVWHFRRVLLKSLQKDLHEEMNYITAI  104 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHH------------------CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHH------------------CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHH
Confidence            356677778888999999999999999954                  46678899999999988775 89999999999


Q ss_pred             HHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH
Q 004744          197 RNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTV  276 (732)
Q Consensus       197 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  276 (732)
                      ++..+. +..+|+.+...+.+.|++++|++.+..+++.. +.+..+|..+...+.+.|++++|...++.+++..+. +..
T Consensus       105 l~~~p~-~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~  181 (315)
T d2h6fa1         105 IEEQPK-NYQVWHHRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNS  181 (315)
T ss_dssp             HHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHH
T ss_pred             HHHHHh-hhhHHHHHhHHHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHH
Confidence            998877 89999999999999999999999999999976 778999999999999999999999999999998654 778


Q ss_pred             HHHHHHHHHHHcCC------HHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC-CCHHhHH
Q 004744          277 TYNTLINAYCREGF------LEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLS-PDTATYN  349 (732)
Q Consensus       277 ~~~~li~~~~~~g~------~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~-~~~~~~~  349 (732)
                      +|+.+...+.+.+.      +++|++.+..+++..+. +...|+.+...+. ....+++.+.++...+.... .+...+.
T Consensus       182 a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~P~-~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~  259 (315)
T d2h6fa1         182 VWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIA  259 (315)
T ss_dssp             HHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHH
T ss_pred             HHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhCCC-chHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHH
Confidence            89888887777665      67899999998887543 7788888776654 44568888888888764322 2344555


Q ss_pred             HHHHHHH
Q 004744          350 TLLVESC  356 (732)
Q Consensus       350 ~li~~~~  356 (732)
                      .++..|.
T Consensus       260 ~l~~~y~  266 (315)
T d2h6fa1         260 FLVDIYE  266 (315)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555543

>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=99.28  E-value=1.9e-09  Score=107.69  Aligned_cols=293  Identities=12%  Similarity=0.073  Sum_probs=167.5

Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCcC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----HHHHHHHHHHH
Q 004744          425 YCRNGFVLEALKMRDEMLEKGCVMD----VVTYNTILNGLCRAKMLTEADDLFNEMLERGVF-PD----FYTFTTLIHGH  495 (732)
Q Consensus       425 ~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~-~~----~~~~~~li~~~  495 (732)
                      +...|++++|++++++.++..+..+    ...+..+...+...|++++|...|++..+.... ++    ..++..+...+
T Consensus        22 ~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  101 (366)
T d1hz4a_          22 AINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEIL  101 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHH
Confidence            3444455555555444444322211    123444445555555555555555554432100 01    12334445556


Q ss_pred             HhcCCHHHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC----CCCHHHHHHHHHH
Q 004744          496 CKDGNMNKALNLFDIMTQK----SIK--P-DIVTYNTLIDGFCKVGEMEKANKLWADMISRKI----SPNYISYGILING  564 (732)
Q Consensus       496 ~~~g~~~~A~~~~~~~~~~----~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~~~~li~~  564 (732)
                      ...|++..+...+......    ...  + ....+..+...+...|+++.+...+........    ......+......
T Consensus       102 ~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (366)
T d1hz4a_         102 FAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQC  181 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHH
Confidence            6666666666666554431    111  1 112344555667777777777777776665321    1223344555566


Q ss_pred             HHhcCCHHHHHHHHHHHHhC----CCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHH
Q 004744          565 YCSMGHVTEAFRLWYEMVGK----GIKP--TLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDP---DSISYNTLINGF  635 (732)
Q Consensus       565 ~~~~g~~~~A~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~~~~li~~~  635 (732)
                      +...++..++...+.+....    +..+  ....+......+...|+.++|...+++........   ....+..+...+
T Consensus       182 ~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~  261 (366)
T d1hz4a_         182 SLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQ  261 (366)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHH
T ss_pred             HHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHH
Confidence            67777777777777665432    1111  12344555667778888888888888776542222   234556677888


Q ss_pred             HhcCCHHHHHHHHHHHHH----CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCC----CHHHHHHHH
Q 004744          636 VREENMDKAFALVSKMEN----QGLVPD-VITYNVILTGFCRQGRMHDSELILWRMIEK----GLNP----DRSTYTTLI  702 (732)
Q Consensus       636 ~~~g~~~~A~~~~~~~~~----~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----g~~p----~~~~~~~l~  702 (732)
                      ...|++++|...++++..    .+..|+ ...+..+..+|.+.|++++|...++++++.    |...    ....+..++
T Consensus       262 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~  341 (366)
T d1hz4a_         262 ILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQL  341 (366)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHH
Confidence            888888888888888764    234443 346777888888899999999988887651    2211    123455566


Q ss_pred             HHHHhcCCHHHHHHH
Q 004744          703 NGHVSQNNLKEAFRF  717 (732)
Q Consensus       703 ~~~~~~g~~~~A~~~  717 (732)
                      ..+...|+.+++.+.
T Consensus       342 ~~l~~~~~l~e~e~~  356 (366)
T d1hz4a_         342 RQLIQLNTLPELEQH  356 (366)
T ss_dssp             HHHHHTTCSCHHHHH
T ss_pred             HHHHhcCCChHHHHH
Confidence            677777888777654

>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=105.75  Aligned_cols=270  Identities=13%  Similarity=-0.009  Sum_probs=200.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC----C-CCHHHHH
Q 004744          454 NTILNGLCRAKMLTEADDLFNEMLERGVFPD----FYTFTTLIHGHCKDGNMNKALNLFDIMTQKSI----K-PDIVTYN  524 (732)
Q Consensus       454 ~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~----~-~~~~~~~  524 (732)
                      ......+...|++++|++++++.++.....+    ..++..+...+...|++++|+..+++..+...    . .....+.
T Consensus        16 ~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   95 (366)
T d1hz4a_          16 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   95 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHH
Confidence            3345667899999999999999988644322    24567788899999999999999998865311    1 1123455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC----CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CCCCHHHH
Q 004744          525 TLIDGFCKVGEMEKANKLWADMISR----KISP---NYISYGILINGYCSMGHVTEAFRLWYEMVGKG----IKPTLVSC  593 (732)
Q Consensus       525 ~li~~~~~~g~~~~A~~~~~~~~~~----~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----~~~~~~~~  593 (732)
                      .+...+...|++..+...+.+....    ....   ....+..+...+...|+++.+...+.......    .......+
T Consensus        96 ~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  175 (366)
T d1hz4a_          96 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  175 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHH
Confidence            6677888999999999999887642    1111   12355667788999999999999999887642    22234556


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHC--CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---CHHHHH
Q 004744          594 NTIIKGYCRSGDASKADEFLSKMVSE--GVDPD----SISYNTLINGFVREENMDKAFALVSKMENQGLVP---DVITYN  664 (732)
Q Consensus       594 ~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p---~~~~~~  664 (732)
                      ......+...|+..++...+.+....  .....    ...+..+...+...|++++|...+++........   ....+.
T Consensus       176 ~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  255 (366)
T d1hz4a_         176 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  255 (366)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            66777788899999999988877653  11111    2345666778889999999999999887632222   234566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH----cCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          665 VILTGFCRQGRMHDSELILWRMIE----KGLNPD-RSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       665 ~l~~~~~~~g~~~~A~~~~~~~~~----~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                      .++.++...|++++|...++++..    .+..|+ ..++..++.+|.+.|++++|.+.+++.++
T Consensus       256 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         256 NIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            788899999999999999999874    345554 46889999999999999999999998764

>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=99.17  E-value=1.4e-10  Score=115.30  Aligned_cols=274  Identities=6%  Similarity=-0.092  Sum_probs=182.7

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHH----------cCChHHHHHHHHHHHHcCCCCCHHHHH
Q 004744          175 LVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVK----------IGWVDLAREVYAEVVRSGIELNVYTLN  244 (732)
Q Consensus       175 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~----------~g~~~~a~~~~~~~~~~~~~~~~~~~~  244 (732)
                      .++....+.+..++|+++++++++.+|. +...|+..-..+..          .|++++|+.+++.+++.. |.+...|.
T Consensus        34 ~~~~~~~~~~~~~~al~~~~~~l~~~P~-~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~  111 (334)
T d1dcea1          34 AVFQKRQAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWH  111 (334)
T ss_dssp             HHHHHHHTTCCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHHhcccccHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHH
Confidence            3444444445568999999999998776 66677654444332          344788999999988875 66777888


Q ss_pred             HHHHHHHhcCC--hhHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHH
Q 004744          245 IMVNALCKDHK--IDSAKMFLCEMEQKGVYPDTVTYN-TLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLC  321 (732)
Q Consensus       245 ~l~~~~~~~g~--~~~A~~~~~~~~~~g~~p~~~~~~-~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~  321 (732)
                      .+..++...++  +++|...++++.+.... +...+. .....+...|.+++|++.++.+...++. +..+|+.+...+.
T Consensus       112 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~~~  189 (334)
T d1dcea1         112 HRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLP  189 (334)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHH
T ss_pred             HhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHHHH
Confidence            77777777664  78899999998877433 455554 4446667788999999999988887654 7888888889999


Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHH
Q 004744          322 KKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALM  401 (732)
Q Consensus       322 ~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~  401 (732)
                      +.|++++|...+.+..+.  .|+.   ......+...+..+++...+........ ++...+..++..+...|+.++|..
T Consensus       190 ~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~~~-~~~~~~~~l~~~~~~~~~~~~a~~  263 (334)
T d1dcea1         190 QLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWLLGRA-EPLFRCELSVEKSTVLQSELESCK  263 (334)
T ss_dssp             HHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHHHSCC-CCSSSCCCCHHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHHHHhCc-chhhHHHHHHHHHHHHhhHHHHHH
Confidence            999888877666554432  1111   1223334455666677777776665532 244555666666777777777777


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 004744          402 YFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGL  460 (732)
Q Consensus       402 l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~  460 (732)
                      .+.+..+..+ .+..++..+...|...|+.++|++.+++..+..+. +...|+.+...+
T Consensus       264 ~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~-~~~y~~~L~~~~  320 (334)
T d1dcea1         264 ELQELEPENK-WCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPM-RAAYLDDLRSKF  320 (334)
T ss_dssp             HHHHHCTTCH-HHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGG-GHHHHHHHHHHH
T ss_pred             HHHHHHhhCc-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcc-cHHHHHHHHHHH
Confidence            7777665421 13456666677777777777777777777765332 334455454433

>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=99.17  E-value=5.3e-09  Score=102.01  Aligned_cols=220  Identities=10%  Similarity=0.013  Sum_probs=93.2

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC--------------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004744          466 LTEADDLFNEMLERGVFPDFYTFTTLIHGHCKDGN--------------MNKALNLFDIMTQKSIKPDIVTYNTLIDGFC  531 (732)
Q Consensus       466 ~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~--------------~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  531 (732)
                      .+.+..+|++++...+. +...|...+..+...++              .++|..+|+..++...+.+...|...+..+.
T Consensus        32 ~~Rv~~vyerAl~~~~~-~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLVLGH-HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            34566667666654322 44555554444333221              2444444444443322233334444444444


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHHcCCHHHHH
Q 004744          532 KVGEMEKANKLWADMISRKISPNYISYGILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKG-YCRSGDASKAD  610 (732)
Q Consensus       532 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~  610 (732)
                      +.|+++.|..+|+++++.........|...+..+.+.|++++|.++|+.+++.+ +.+...|...+.. +...|+.+.|.
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHH
Confidence            444555555555444443222222334444444444444444544444444432 2222223222222 12234444444


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 004744          611 EFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQG-LVPD--VITYNVILTGFCRQGRMHDSELILWRMI  687 (732)
Q Consensus       611 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g-~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~  687 (732)
                      .+|+.+++. .+.+...|...++.+...|+++.|..+|++.+... ..|+  ...|...+.--...|+.+.+..+++++.
T Consensus       190 ~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~  268 (308)
T d2onda1         190 KIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            444444442 12233444444444444444444444444444421 1111  2234444443334444444444444444


Q ss_pred             H
Q 004744          688 E  688 (732)
Q Consensus       688 ~  688 (732)
                      +
T Consensus       269 ~  269 (308)
T d2onda1         269 T  269 (308)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.17  E-value=1.4e-10  Score=115.14  Aligned_cols=275  Identities=9%  Similarity=-0.045  Sum_probs=204.8

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHH----------HHHHHcCChHHHHH
Q 004744          122 SAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVI----------RTYVQARKLREGSE  191 (732)
Q Consensus       122 ~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~----------~~~~~~g~~~~A~~  191 (732)
                      ..++....+.+..++|+.++.+++..++                  .+..+|+...          ..+...|.+++|+.
T Consensus        33 ~~~~~~~~~~~~~~~al~~~~~~l~~~P------------------~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~   94 (334)
T d1dcea1          33 QAVFQKRQAGELDESVLELTSQILGANP------------------DFATLWNCRREVLQHLETEKSPEESAALVKAELG   94 (334)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHCT------------------TCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHCC------------------CcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHH
Confidence            3344444444556899999999986543                  3344443322          23445566899999


Q ss_pred             HHHHHHHCCCccCHHHHHHHHHHHHHcCC--hHHHHHHHHHHHHcCCCCCHHHHH-HHHHHHHhcCChhHHHHHHHHHHh
Q 004744          192 VFRLLRNKGICFSINACNSLLGGLVKIGW--VDLAREVYAEVVRSGIELNVYTLN-IMVNALCKDHKIDSAKMFLCEMEQ  268 (732)
Q Consensus       192 ~~~~~~~~~~~~~~~~~~~ll~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~  268 (732)
                      .|+.+.+.++. +...|..+..++...++  +++|...+..++... +++...+. .....+...+.+++|+..++.+.+
T Consensus        95 ~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~  172 (334)
T d1dcea1          95 FLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLIT  172 (334)
T ss_dssp             HHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTT
T ss_pred             HHHHHHHhCCC-cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHH
Confidence            99999998776 88899888888887764  889999999999875 55566654 455777788999999999999998


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhH
Q 004744          269 KGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATY  348 (732)
Q Consensus       269 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~  348 (732)
                      ..+. +..+|+.+...+.+.|++++|...++.....    .. ....+...+...+..+++...+....... +++...+
T Consensus       173 ~~p~-~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~-~~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~  245 (334)
T d1dcea1         173 RNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENV----LL-KELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRC  245 (334)
T ss_dssp             TTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH----HH-HHHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSC
T ss_pred             cCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh----HH-HHHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHH
Confidence            8654 7889999999999999999887766654442    11 12234455667788889999999888764 4555666


Q ss_pred             HHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHH
Q 004744          349 NTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDN-VLYTIIINGYC  426 (732)
Q Consensus       349 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~-~~~~~li~~~~  426 (732)
                      ..++..+...|+.++|.+.+.+..+..+. +..+|..+...+...|+.++|.+.|+++.+.  .|+. .-|..+...+.
T Consensus       246 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L~~~~~  321 (334)
T d1dcea1         246 ELSVEKSTVLQSELESCKELQELEPENKW-CLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLRSKFL  321 (334)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhhCch-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHHHHHHh
Confidence            77778888889999999999998876432 5678888999999999999999999999886  4543 44555544443

>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=99.17  E-value=4.8e-09  Score=102.30  Aligned_cols=218  Identities=9%  Similarity=-0.023  Sum_probs=111.6

Q ss_pred             HHHHHHHHHHHHCCCccCHHHHHHHHHHHHHc--------------CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004744          187 REGSEVFRLLRNKGICFSINACNSLLGGLVKI--------------GWVDLAREVYAEVVRSGIELNVYTLNIMVNALCK  252 (732)
Q Consensus       187 ~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~--------------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  252 (732)
                      +.+..+|++++..-+. +...|...+.-+.+.              +..++|..+|+++++...+.+...|...+..+.+
T Consensus        33 ~Rv~~vyerAl~~~~~-~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~  111 (308)
T d2onda1          33 KRVMFAYEQCLLVLGH-HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            4455667777664333 556665555433222              2345566666666554344455555555666666


Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHH-HHhcCChhHHHH
Q 004744          253 DHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLING-LCKKGRCDRAKE  331 (732)
Q Consensus       253 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~-~~~~g~~~~A~~  331 (732)
                      .|+++.|..+|+++.+........+|...+....+.|+++.|.++|+.+...+.. +...|...+.. +...|+.+.|..
T Consensus       112 ~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~  190 (308)
T d2onda1         112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHH
Confidence            6666666666666655432222335556666666666666666666666554322 23333333322 223455555555


Q ss_pred             HHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCC-CCC--CHhHHHHHHHHHHhCCCHHHHHHHHHHHH
Q 004744          332 VLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRG-VAP--DIVSFSTLIGIFSRNGQLDRALMYFREMK  407 (732)
Q Consensus       332 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g-~~~--~~~~~~~l~~~~~~~g~~~~A~~l~~~~~  407 (732)
                      +|+.+++.. +.+...|...+..+.+.|+++.|+.+|++..+.. ..|  ....|...+..-...|+.+.+.++++++.
T Consensus       191 i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~  268 (308)
T d2onda1         191 IFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            555555431 2334455555555555555555555555554432 121  12345555555555555555555555543

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.12  E-value=1.7e-09  Score=102.82  Aligned_cols=131  Identities=15%  Similarity=-0.096  Sum_probs=103.5

Q ss_pred             hHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          170 SLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       170 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      ..++..++..|.+.|++++|+..|+++++..+. ++.+|+.+..++.+.|++++|++.|+++++.. |.+..++..+..+
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~  114 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIA  114 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHH
Confidence            567778899999999999999999999988776 88899999999999999999999999998875 5567788888888


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhh
Q 004744          250 LCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSG  303 (732)
Q Consensus       250 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  303 (732)
                      |...|++++|...|++..+..+. +......+...+.+.+..+.+..+......
T Consensus       115 ~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (259)
T d1xnfa_         115 LYYGGRDKLAQDDLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  167 (259)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhhc
Confidence            99999999999999998877432 444444455555666666555555555544

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.09  E-value=2e-09  Score=102.28  Aligned_cols=199  Identities=9%  Similarity=-0.049  Sum_probs=108.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 004744          487 TFTTLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYC  566 (732)
Q Consensus       487 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~  566 (732)
                      ++..+...|.+.|++++|+..|++.++.... ++.+|..+..+|.+.|++++|++.|+++++..+. +..++..+...|.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHHHHH
Confidence            4555556666666666666666666654322 5566666666677777777777777766665322 4555666666677


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc----CCHH
Q 004744          567 SMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVRE----ENMD  642 (732)
Q Consensus       567 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~----g~~~  642 (732)
                      ..|++++|+..|+..++.. +.+......+...+.+.+..+.+..+........  ++...++ ++..+...    +..+
T Consensus       117 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~~~~~~~~~~  192 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD--KEQWGWN-IVEFYLGNISEQTLME  192 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC--CCSTHHH-HHHHHTTSSCHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc--hhhhhhh-HHHHHHHHHHHHHHHH
Confidence            7777777777777666653 3344443334444445554444444444444321  1211221 11122111    1122


Q ss_pred             HHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          643 KAFALVSKMENQGLVPD-VITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDR  695 (732)
Q Consensus       643 ~A~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  695 (732)
                      .+...+.....  ..|+ ..+|..++..+...|++++|...|++++.  ..|+.
T Consensus       193 ~~~~~~~~~~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~  242 (259)
T d1xnfa_         193 RLKADATDNTS--LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA--NNVHN  242 (259)
T ss_dssp             HHHHHCCSHHH--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCCTT
T ss_pred             HHHHHHHHhhh--cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--cCCCC
Confidence            22222222221  1222 23566677788888888888888888887  66653

>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=98.70  E-value=6.6e-07  Score=79.50  Aligned_cols=130  Identities=8%  Similarity=-0.051  Sum_probs=101.7

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 004744          172 IFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALC  251 (732)
Q Consensus       172 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  251 (732)
                      .|+. +..+...|++++|++.|.++.    .++..+|..+..++.+.|++++|.+.|+++++.+ +.+...|..+..++.
T Consensus         8 l~~~-g~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~   81 (192)
T d1hh8a_           8 LWNE-GVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   81 (192)
T ss_dssp             HHHH-HHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHH-HHHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHH
Confidence            3443 556788999999999998653    4578889999999999999999999999999876 677888999999999


Q ss_pred             hcCChhHHHHHHHHHHhCCCC--------------CC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCC
Q 004744          252 KDHKIDSAKMFLCEMEQKGVY--------------PD-TVTYNTLINAYCREGFLEEAFQLMNSMSGKGLK  307 (732)
Q Consensus       252 ~~g~~~~A~~~~~~~~~~g~~--------------p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  307 (732)
                      +.|++++|.+.|++.......              ++ ..++..+...+.+.|++++|.+.++........
T Consensus        82 ~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          82 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             hhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            999999999999988754111              01 244556677788888888888888887765443

>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=98.68  E-value=4.6e-05  Score=71.36  Aligned_cols=224  Identities=14%  Similarity=0.011  Sum_probs=103.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 004744          449 DVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFYTFTTLIHGHCK----DGNMNKALNLFDIMTQKSIKPDIVTYN  524 (732)
Q Consensus       449 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~  524 (732)
                      |+..+..|...+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...|...+......+   +.....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            34455566666666677777777777666654   44555555555544    445666666666655543   223333


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 004744          525 TLIDGFCK----VGEMEKANKLWADMISRKISPNYISYGILINGYCS----MGHVTEAFRLWYEMVGKGIKPTLVSCNTI  596 (732)
Q Consensus       525 ~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  596 (732)
                      .+...+..    ..+.+.|...++...+.|.   ......+...+..    ......|...+......+   +...+..+
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~L  148 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  148 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhccc---ccchhhhh
Confidence            33333322    3345556666655555432   2222222222221    233444444444444332   34444444


Q ss_pred             HHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 004744          597 IKGYCR----SGDASKADEFLSKMVSEGVDPDSISYNTLINGFVR----EENMDKAFALVSKMENQGLVPDVITYNVILT  668 (732)
Q Consensus       597 ~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~  668 (732)
                      ...|..    ..+...+...++...+.|   +......+...|..    ..++++|+.+|++..+.|   ++..+..|+.
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~  222 (265)
T d1ouva_         149 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  222 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             hhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHH
Confidence            444443    223444444444444422   33333334333332    334555555555554433   2333334444


Q ss_pred             HHHh----cCCHHHHHHHHHHHHHcC
Q 004744          669 GFCR----QGRMHDSELILWRMIEKG  690 (732)
Q Consensus       669 ~~~~----~g~~~~A~~~~~~~~~~g  690 (732)
                      .|.+    ..+.++|.++|+++.+.|
T Consensus       223 ~y~~G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         223 MQYNGEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHHCc
Confidence            4432    124444555555554433

>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=98.65  E-value=4.2e-07  Score=73.28  Aligned_cols=93  Identities=11%  Similarity=-0.110  Sum_probs=72.5

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 004744          176 VIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHK  255 (732)
Q Consensus       176 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  255 (732)
                      -++.+.+.|++++|+..|+++++..+. +...|..+..++.+.|++++|++.+..+++.+ +.+...|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccC
Confidence            466677888888888888888877666 77778888888888888888888888887765 6677777777778888888


Q ss_pred             hhHHHHHHHHHHhCC
Q 004744          256 IDSAKMFLCEMEQKG  270 (732)
Q Consensus       256 ~~~A~~~~~~~~~~g  270 (732)
                      +++|+..|++..+..
T Consensus        87 ~~~A~~~~~~a~~~~  101 (117)
T d1elwa_          87 FEEAKRTYEEGLKHE  101 (117)
T ss_dssp             HHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhC
Confidence            888888888877763

>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=98.64  E-value=4e-05  Score=71.82  Aligned_cols=224  Identities=10%  Similarity=-0.001  Sum_probs=134.0

Q ss_pred             chHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHH----cCChHHHHHHHHHHHHcCCCCCHHHHH
Q 004744          169 NSLIFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVK----IGWVDLAREVYAEVVRSGIELNVYTLN  244 (732)
Q Consensus       169 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~  244 (732)
                      ||..+..|+..+.+.|++++|++.|++..+.|   +..++..|...|..    ..++..|...+....+.+   +.....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            45667778888888899999999999988876   67777777777776    557888888888877654   334444


Q ss_pred             HHHHHHHh----cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHhhCCCCCCHhhHHHH
Q 004744          245 IMVNALCK----DHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCR----EGFLEEAFQLMNSMSGKGLKPGVFTYNSL  316 (732)
Q Consensus       245 ~l~~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  316 (732)
                      .+...+..    ..+.+.|...++...+.|.   ......+...+..    ......|...+......   .+...+..|
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L  148 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTIL  148 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhh
Confidence            44444433    4566777777877777652   2233333333332    34566666666665553   255566666


Q ss_pred             HHHHHh----cCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHc----CCCHhHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 004744          317 INGLCK----KGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCR----KENMSEAEEIFCEMSRRGVAPDIVSFSTLIG  388 (732)
Q Consensus       317 i~~~~~----~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~  388 (732)
                      ...|..    ..+...+...++...+.|   +..+...+...|..    ..+.++|...|.+..+.|   ++..+..|..
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~  222 (265)
T d1ouva_         149 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  222 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             hhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHH
Confidence            666654    334455555555555543   44444444444443    345666666666665554   3445555555


Q ss_pred             HHHh----CCCHHHHHHHHHHHHHCC
Q 004744          389 IFSR----NGQLDRALMYFREMKSAG  410 (732)
Q Consensus       389 ~~~~----~g~~~~A~~l~~~~~~~~  410 (732)
                      .|..    ..+.++|.++|++..+.|
T Consensus       223 ~y~~G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         223 MQYNGEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHHCc
Confidence            5543    224555666665555444

>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=98.61  E-value=5.3e-07  Score=86.46  Aligned_cols=194  Identities=10%  Similarity=-0.049  Sum_probs=121.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----C-CCCCHHHHHHH
Q 004744          527 IDGFCKVGEMEKANKLWADMISR----KISP-NYISYGILINGYCSMGHVTEAFRLWYEMVGK----G-IKPTLVSCNTI  596 (732)
Q Consensus       527 i~~~~~~g~~~~A~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~-~~~~~~~~~~l  596 (732)
                      ...|...|++++|.+.|.++.+.    +.++ -..+|..+..+|.+.|++++|++.+++..+.    | ......++..+
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            44577778888888888777652    1111 2346777778888888888888888876542    1 01113445566


Q ss_pred             HHHHHH-cCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-----CH-HHHH
Q 004744          597 IKGYCR-SGDASKADEFLSKMVSE----GVDPD-SISYNTLINGFVREENMDKAFALVSKMENQGLVP-----DV-ITYN  664 (732)
Q Consensus       597 ~~~~~~-~g~~~~A~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-----~~-~~~~  664 (732)
                      ...|.. .|++++|++.+++..+.    +..+. ..++..++..+...|++++|++.++++.......     .. ..+.
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHH
Confidence            666644 58888888888877642    11111 3456777888888888888888888887732111     11 2233


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCC------HHHHHHHHHHHHh--cCCHHHHHHHHHHHH
Q 004744          665 VILTGFCRQGRMHDSELILWRMIEKGLNPD------RSTYTTLINGHVS--QNNLKEAFRFHDEML  722 (732)
Q Consensus       665 ~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~------~~~~~~l~~~~~~--~g~~~~A~~~~~~m~  722 (732)
                      ..+..+...|+++.|...++++.+  +.|.      ......++.++..  .+.+++|++.|+++.
T Consensus       204 ~~~~~~l~~~d~~~A~~~~~~~~~--~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         204 KKGLCQLAATDAVAAARTLQEGQS--EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGC--C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHH--hCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            444556677888888888888877  4442      1234555666554  345778877776543

>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=98.59  E-value=1.6e-06  Score=76.85  Aligned_cols=124  Identities=10%  Similarity=-0.099  Sum_probs=95.8

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCH
Q 004744          212 LGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFL  291 (732)
Q Consensus       212 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~  291 (732)
                      ...+...|+++.|++.|.++    .+++..+|..+..+|.+.|++++|+..|++.++.... +...|..+..+|.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccH
Confidence            55667889999999998864    3677888888899999999999999999999887644 677888899999999999


Q ss_pred             HHHHHHHHHHhhCCCC--------------C-CHhhHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 004744          292 EEAFQLMNSMSGKGLK--------------P-GVFTYNSLINGLCKKGRCDRAKEVLDEMLQMG  340 (732)
Q Consensus       292 ~~A~~~~~~m~~~g~~--------------p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g  340 (732)
                      ++|++.|++.......              . ...++..+..++.+.|++++|.+.+....+..
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            9999999887653111              0 02345566777778888888888887777653

>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=98.59  E-value=1.2e-06  Score=83.81  Aligned_cols=167  Identities=10%  Similarity=-0.090  Sum_probs=94.9

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHC----CC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC-----CCCHHH
Q 004744          173 FDLVIRTYVQARKLREGSEVFRLLRNK----GI-CFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGI-----ELNVYT  242 (732)
Q Consensus       173 ~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-----~~~~~~  242 (732)
                      |...+..|...|++++|++.|.++.+.    +- ..-..+|..+..+|.+.|++++|.+.|+++++...     .....+
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            334466788899999999999988753    11 11235778888888888888888888887764210     111233


Q ss_pred             HHHHHHHHHh-cCChhHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCH------
Q 004744          243 LNIMVNALCK-DHKIDSAKMFLCEMEQK----GVYP-DTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGV------  310 (732)
Q Consensus       243 ~~~l~~~~~~-~g~~~~A~~~~~~~~~~----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~------  310 (732)
                      +..+...|.. .|++++|...+++..+.    +..+ -..++..++..|.+.|++++|++.|+++.........      
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~  199 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLK  199 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHH
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHH
Confidence            4444444533 46677777666665432    1111 1233555666666666666666666665543211110      


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 004744          311 FTYNSLINGLCKKGRCDRAKEVLDEMLQM  339 (732)
Q Consensus       311 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~  339 (732)
                      ..+...+..+...|+++.|...+++..+.
T Consensus       200 ~~~~~~~~~~l~~~d~~~A~~~~~~~~~~  228 (290)
T d1qqea_         200 DYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            11223333444556666666666655543

>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=98.58  E-value=6.3e-07  Score=72.20  Aligned_cols=106  Identities=10%  Similarity=-0.026  Sum_probs=91.8

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCC
Q 004744          122 SAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGI  201 (732)
Q Consensus       122 ~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  201 (732)
                      ..-...+.+.|++++|...|.+++..                  +|.++.+|..++.+|.+.|++++|+..|.++++.++
T Consensus         7 ~~~g~~~~~~g~~~eAi~~~~~al~~------------------~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p   68 (117)
T d1elwa_           7 KEKGNKALSVGNIDDALQCYSEAIKL------------------DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP   68 (117)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH------------------CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhc------------------CCcchhhhhcccccccccccccccchhhhhHHHhcc
Confidence            34567788999999999999999854                  567789999999999999999999999999999887


Q ss_pred             ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004744          202 CFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMV  247 (732)
Q Consensus       202 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  247 (732)
                      . +...|..+..++...|++++|+..|+.+++.. |.+...+..+.
T Consensus        69 ~-~~~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~  112 (117)
T d1elwa_          69 D-WGKGYSRKAAALEFLNRFEEAKRTYEEGLKHE-ANNPQLKEGLQ  112 (117)
T ss_dssp             T-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHH
T ss_pred             c-hhhHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            6 89999999999999999999999999999864 44555554443

>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=98.58  E-value=8.3e-07  Score=76.24  Aligned_cols=106  Identities=6%  Similarity=-0.093  Sum_probs=86.1

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004744          173 FDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCK  252 (732)
Q Consensus       173 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  252 (732)
                      +...++.|.+.|++++|+..|+++++.++. +...|..+..++.+.|++++|.+.|+.+++.. +.+..+|..++.++..
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~   90 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHH
Confidence            344577788999999999999999988776 88889999999999999999999999998875 6677888888899999


Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 004744          253 DHKIDSAKMFLCEMEQKGVYPDTVTYNTL  281 (732)
Q Consensus       253 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~l  281 (732)
                      .|++++|...+++..+..+. +...+..+
T Consensus        91 ~g~~~eA~~~~~~a~~~~p~-~~~~~~~l  118 (159)
T d1a17a_          91 LGKFRAALRDYETVVKVKPH-DKDAKMKY  118 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHSTT-CHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcCCC-CHHHHHHH
Confidence            99999999999988887432 34444443

>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=98.55  E-value=3.8e-07  Score=82.08  Aligned_cols=101  Identities=10%  Similarity=0.032  Sum_probs=85.3

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHH
Q 004744          588 PTLVSCNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVI  666 (732)
Q Consensus       588 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l  666 (732)
                      |+...+......|.+.|++++|+..|+++++.. +.+...|..++.+|.+.|++++|+..++++++  +.| +...|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHHH
Confidence            667777788888999999999999999988754 34677888899999999999999999999987  566 46688889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 004744          667 LTGFCRQGRMHDSELILWRMIEKGLNP  693 (732)
Q Consensus       667 ~~~~~~~g~~~~A~~~~~~~~~~g~~p  693 (732)
                      +.+|.+.|++++|...|+++++  +.|
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~--l~p  103 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYS--LAK  103 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH--HHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH--hCc
Confidence            9999999999999999999887  455

>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=98.50  E-value=1.3e-06  Score=75.03  Aligned_cols=108  Identities=10%  Similarity=0.001  Sum_probs=93.1

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 004744          120 SLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNK  199 (732)
Q Consensus       120 ~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  199 (732)
                      .+......|.+.|++++|...|.+++..                  .+.+...|..++.+|.+.|++++|++.|+++++.
T Consensus        12 ~l~~~gn~~~~~~~y~~A~~~~~~al~~------------------~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~   73 (159)
T d1a17a_          12 ELKTQANDYFKAKDYENAIKFYSQAIEL------------------NPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL   73 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHhhhcccc------------------chhhhhhhhhhHHHHHhccccchHHHHHHHHHHH
Confidence            3455677888999999999999999853                  4567899999999999999999999999999998


Q ss_pred             CCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 004744          200 GICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMV  247 (732)
Q Consensus       200 ~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  247 (732)
                      ++. +..+|..++.++...|++++|...|+++++.. +.+...+..+.
T Consensus        74 ~p~-~~~a~~~~g~~~~~~g~~~eA~~~~~~a~~~~-p~~~~~~~~l~  119 (159)
T d1a17a_          74 DKK-YIKGYYRRAASNMALGKFRAALRDYETVVKVK-PHDKDAKMKYQ  119 (159)
T ss_dssp             CTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHH
T ss_pred             ccc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHH
Confidence            876 88999999999999999999999999999875 44555554443

>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=98.43  E-value=3.9e-07  Score=82.01  Aligned_cols=98  Identities=15%  Similarity=0.038  Sum_probs=59.3

Q ss_pred             ChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHH
Q 004744          117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLL  196 (732)
Q Consensus       117 ~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  196 (732)
                      +...+...+..|.+.|++++|+..|.+++..                  .|.++.+|..++.+|.+.|++++|+..|+++
T Consensus         3 ~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~------------------~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~a   64 (201)
T d2c2la1           3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR------------------NPLVAVYYTNRALCYLKMQQPEQALADCRRA   64 (201)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh------------------CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHH
Confidence            4445555566666666666666666666532                  2345566666666666666666666666666


Q ss_pred             HHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 004744          197 RNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVR  233 (732)
Q Consensus       197 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  233 (732)
                      ++..+. +..+|..+..+|.+.|++++|...|+++++
T Consensus        65 l~l~p~-~~~a~~~lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          65 LELDGQ-SVKAHFFLGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             TTSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            655444 555666666666666666666666666554

>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=98.42  E-value=8.8e-07  Score=70.62  Aligned_cols=88  Identities=14%  Similarity=0.070  Sum_probs=74.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhc
Q 004744          631 LINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTLINGHVSQ  708 (732)
Q Consensus       631 li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~  708 (732)
                      ++..+.+.|++++|+..+++++.  ..| +...|..++.++.+.|++++|+..|+++++  +.| +...|..++.+|...
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~--~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQ--KEPEREEAWRSLGLTQAENEKDGLAIIALNHARM--LDPKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcc--cccccchhhhhhhhhhhhhhhHHHhhcccccccc--cccccccchHHHHHHHHHC
Confidence            45667888999999999999888  455 567888888889999999999999999988  777 468888899999999


Q ss_pred             CCHHHHHHHHHHHH
Q 004744          709 NNLKEAFRFHDEML  722 (732)
Q Consensus       709 g~~~~A~~~~~~m~  722 (732)
                      |++++|.+.+++.+
T Consensus        98 g~~~~A~~~l~~~l  111 (112)
T d1hxia_          98 HNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999888764

>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=98.35  E-value=2e-06  Score=68.44  Aligned_cols=91  Identities=13%  Similarity=-0.043  Sum_probs=71.4

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 004744          175 LVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDH  254 (732)
Q Consensus       175 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  254 (732)
                      .++..+.+.|++++|+..|+++++..+. +..+|..+..++.+.|++++|+..|+++++.. |.+..++..+...|...|
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCC
Confidence            4566778888888888888888887766 77888888888888888888888888887765 566777777778888888


Q ss_pred             ChhHHHHHHHHHH
Q 004744          255 KIDSAKMFLCEME  267 (732)
Q Consensus       255 ~~~~A~~~~~~~~  267 (732)
                      ++++|.+.+++.+
T Consensus        99 ~~~~A~~~l~~~l  111 (112)
T d1hxia_          99 NANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            8888887777653

>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=98.29  E-value=1.1e-05  Score=69.78  Aligned_cols=84  Identities=11%  Similarity=0.018  Sum_probs=66.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHH
Q 004744          626 ISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTLIN  703 (732)
Q Consensus       626 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~  703 (732)
                      .+|+.+..+|.+.|++++|+..+++.++  +.| +...|..++.+|...|++++|...|+++++  +.| |......+..
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~--~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~--l~P~n~~~~~~l~~  138 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALE--LDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQ--LYPNNKAAKTQLAV  138 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhh--ccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH--hCCCCHHHHHHHHH
Confidence            3567788889999999999999999998  456 677888999999999999999999999998  777 5566666666


Q ss_pred             HHHhcCCHHH
Q 004744          704 GHVSQNNLKE  713 (732)
Q Consensus       704 ~~~~~g~~~~  713 (732)
                      +..+.+...+
T Consensus       139 ~~~~~~~~~~  148 (170)
T d1p5qa1         139 CQQRIRRQLA  148 (170)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6555544443

>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=98.26  E-value=1.2e-06  Score=70.63  Aligned_cols=99  Identities=11%  Similarity=0.124  Sum_probs=75.5

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCCC-HHHHHHHHHH
Q 004744          594 NTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREEN---MDKAFALVSKMENQGLVPD-VITYNVILTG  669 (732)
Q Consensus       594 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~  669 (732)
                      ..++..+...+++++|++.|++.+..+ +.+..++..+..++.+.++   +++|+.+++++...+..|+ ..+|..++.+
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            456777888889999999999988854 3467788888888877554   4568888988887432222 2367788888


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          670 FCRQGRMHDSELILWRMIEKGLNPDR  695 (732)
Q Consensus       670 ~~~~g~~~~A~~~~~~~~~~g~~p~~  695 (732)
                      |.+.|++++|+..|+++++  +.|+.
T Consensus        82 y~~~g~~~~A~~~~~~aL~--~~P~~  105 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQ--TEPQN  105 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             HHHHhhhHHHHHHHHHHHH--hCcCC
Confidence            8899999999999999998  77864

>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=98.24  E-value=3.5e-06  Score=67.86  Aligned_cols=98  Identities=14%  Similarity=0.102  Sum_probs=56.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHCCCCCC-HHHHHHHHHHH
Q 004744          560 ILINGYCSMGHVTEAFRLWYEMVGKGIKPTLVSCNTIIKGYCRSGD---ASKADEFLSKMVSEGVDPD-SISYNTLINGF  635 (732)
Q Consensus       560 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~  635 (732)
                      .+++.+...+++++|.+.|++.+..+ +.+..++..+..++.+.++   +++|++++++++..+..|+ ..+|..++.+|
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            45555666666666666666666654 4555666666666655433   3456666666655332222 22455566666


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCH
Q 004744          636 VREENMDKAFALVSKMENQGLVPDV  660 (732)
Q Consensus       636 ~~~g~~~~A~~~~~~~~~~g~~p~~  660 (732)
                      .+.|++++|++.|+++++  +.|+.
T Consensus        83 ~~~g~~~~A~~~~~~aL~--~~P~~  105 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQ--TEPQN  105 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             HHHhhhHHHHHHHHHHHH--hCcCC
Confidence            666666666666666666  45543

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.17  E-value=2.6e-05  Score=67.25  Aligned_cols=98  Identities=13%  Similarity=-0.020  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCccC--------------HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCC
Q 004744          171 LIFDLVIRTYVQARKLREGSEVFRLLRNKGICFS--------------INACNSLLGGLVKIGWVDLAREVYAEVVRSGI  236 (732)
Q Consensus       171 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  236 (732)
                      ..+...+..|.+.|++++|+..|.++++......              ..+|+.+..+|.+.|++++|+..++.+++.+ 
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-   92 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-   92 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-
Confidence            4455667889999999999999998876422100              1223333344444444444444444444432 


Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 004744          237 ELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       237 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      |.++.++..+..+|...|++++|...|+...+.
T Consensus        93 p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          93 SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            333444444444444444444444444444443

>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=98.15  E-value=0.0032  Score=59.67  Aligned_cols=135  Identities=14%  Similarity=0.098  Sum_probs=64.1

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 004744          204 SINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLIN  283 (732)
Q Consensus       204 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~  283 (732)
                      |..--..++..|.+.|.++.|..+|..+.         -|..++..+.+.++++.|.+++.+..      +..+|..+..
T Consensus        13 n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~   77 (336)
T d1b89a_          13 NNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCF   77 (336)
T ss_dssp             ----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHH
Confidence            43444445555666666666666665432         13445555666666666665554332      4556666666


Q ss_pred             HHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCC
Q 004744          284 AYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKE  359 (732)
Q Consensus       284 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g  359 (732)
                      .+.+..+..-|     .+...+...+......++..|-..|.+++...+++...... ..+...++.++..|++.+
T Consensus        78 ~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          78 ACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC
T ss_pred             HHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC
Confidence            66655544332     12222222344445566666666666666666666654321 345555666666666543

>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=98.10  E-value=0.003  Score=59.84  Aligned_cols=135  Identities=12%  Similarity=0.069  Sum_probs=63.9

Q ss_pred             CHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHH
Q 004744          309 GVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIG  388 (732)
Q Consensus       309 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~  388 (732)
                      |..-...++..|.+.|.++.|..++..+..         |..++..+.+.+++..|.+.+.+..      +..+|..+..
T Consensus        13 n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~   77 (336)
T d1b89a_          13 NNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCF   77 (336)
T ss_dssp             ----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHH
Confidence            444444455555566666666666654321         3345555556666666666554431      4456666666


Q ss_pred             HHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 004744          389 IFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAK  464 (732)
Q Consensus       389 ~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  464 (732)
                      .+.+......|     .+.......+......++..|-..|.+++...+++...... ..+...++.++..|++.+
T Consensus        78 ~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          78 ACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC
T ss_pred             HHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC
Confidence            66655554433     11122223344445556666666666666666666654332 235556666666666543

>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=98.08  E-value=2.5e-05  Score=63.65  Aligned_cols=97  Identities=9%  Similarity=0.080  Sum_probs=56.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--------HHHHHHH
Q 004744          595 TIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDKAFALVSKMENQGLVPD--------VITYNVI  666 (732)
Q Consensus       595 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~--------~~~~~~l  666 (732)
                      .+...+.+.|++++|++.|++.++.+ +.+...+..+..+|.+.|++++|++.++++++  +.|+        ..+|..+
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~--l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIE--VGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHH
Confidence            44555666666666666666666543 22455566666666666666666666666655  1211        1345556


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHH
Q 004744          667 LTGFCRQGRMHDSELILWRMIEKGLNPDRS  696 (732)
Q Consensus       667 ~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~  696 (732)
                      +..+...+++++|+..|++.+.  ..|+..
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~--~~~~~~  113 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLA--EHRTPD  113 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH--HCCCHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHh--cCCCHH
Confidence            6666666777777777776665  344443

>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=2.5e-05  Score=63.57  Aligned_cols=96  Identities=10%  Similarity=0.060  Sum_probs=70.3

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-------HHHH
Q 004744          172 IFDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNV-------YTLN  244 (732)
Q Consensus       172 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-------~~~~  244 (732)
                      .+-.++..|.+.|++++|+..|.++++.++. +..++..+..+|.+.|++++|.+.++++++.. +.+.       .+|.
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~-~~~~~~~~~~a~~~~   83 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVG-RENREDYRQIAKAYA   83 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            4556788888889999999999888888766 78888888888888888888888888887642 1111       2455


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhC
Q 004744          245 IMVNALCKDHKIDSAKMFLCEMEQK  269 (732)
Q Consensus       245 ~l~~~~~~~g~~~~A~~~~~~~~~~  269 (732)
                      .+...+...+++++|...|+.....
T Consensus        84 ~lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            5556666666777777777665543

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.06  E-value=7.1e-05  Score=64.28  Aligned_cols=95  Identities=9%  Similarity=0.068  Sum_probs=72.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHHHHH
Q 004744          626 ISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-RSTYTTLING  704 (732)
Q Consensus       626 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l~~~  704 (732)
                      ..|+.+..+|.+.|++++|+..+++.++.. +.+...|..++.++...|++++|...|+++++  +.|+ ..++..+..+
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~--l~P~n~~~~~~l~~~  141 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQIFMC  141 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            346667888899999999999999999842 33667888999999999999999999999998  7774 5666666666


Q ss_pred             HHhcCCHH-HHHHHHHHHHH
Q 004744          705 HVSQNNLK-EAFRFHDEMLQ  723 (732)
Q Consensus       705 ~~~~g~~~-~A~~~~~~m~~  723 (732)
                      ....+... ...+.+.+|.+
T Consensus       142 ~~~~~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         142 QKKAKEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHh
Confidence            66555443 34555555543

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.05  E-value=1.2e-06  Score=90.89  Aligned_cols=227  Identities=8%  Similarity=-0.088  Sum_probs=121.9

Q ss_pred             HHHHHHHhHHhhCCCCCCChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHH
Q 004744           99 VGQRFIDFIALNFPNVKHSSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIR  178 (732)
Q Consensus        99 ~a~~~f~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~  178 (732)
                      .|.++|..+....|++   ..++..+..++...|++++|   +++++....    ..              ....+..  
T Consensus         4 eA~q~~~qA~~l~p~~---a~a~~~la~~~~~~~~l~ea---ye~~i~~dp----~~--------------a~~~~~e--   57 (497)
T d1ya0a1           4 QSAQYLRQAEVLKADM---TDSKLGPAEVWTSRQALQDL---YQKMLVTDL----EY--------------ALDKKVE--   57 (497)
T ss_dssp             HHHHHHHHHHHHHGGG---TCSSSCSSSSHHHHHHHHHH---HHHHHHHCH----HH--------------HHHHTHH--
T ss_pred             HHHHHHHHHHHcCCCC---HHHHhhHHHHHHHHchHHHH---HHHHHHcCh----hh--------------HHHHhHH--
Confidence            3667787777666664   34556667777777777776   666653211    00              0011110  


Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHH--HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCh
Q 004744          179 TYVQARKLREGSEVFRLLRNKGICFSINACNSLLGG--LVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKI  256 (732)
Q Consensus       179 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~--~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  256 (732)
                      ...-...+..+++.++...+....++..-....+..  ....+.++.|+..+....+.. +++...+..+...+.+.|+.
T Consensus        58 ~~Lw~~~y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~  136 (497)
T d1ya0a1          58 QDLWNHAFKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHT  136 (497)
T ss_dssp             HHHHHHHTHHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------
T ss_pred             HHHHHHHHHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCH
Confidence            000111245677777777655433333222222212  223455666666555554432 45556677778888888888


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHH
Q 004744          257 DSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEM  336 (732)
Q Consensus       257 ~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  336 (732)
                      ++|...+.......   ...++..+...+...|++++|...|++..+..+. +..+|+.|...+...|+..+|...|.+.
T Consensus       137 ~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~-~~~~~~~Lg~~~~~~~~~~~A~~~y~ra  212 (497)
T d1ya0a1         137 SAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPS-NGQPYNQLAILASSKGDHLTTIFYYCRS  212 (497)
T ss_dssp             ------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-BSHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            88888777766531   1346777888888899999999999998876433 6678899999999999999999999888


Q ss_pred             HHCCCCCCHHhHHHHHHHHHc
Q 004744          337 LQMGLSPDTATYNTLLVESCR  357 (732)
Q Consensus       337 ~~~g~~~~~~~~~~li~~~~~  357 (732)
                      +... +|...++..|...+.+
T Consensus       213 l~~~-~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         213 IAVK-FPFPAASTNLQKALSK  232 (497)
T ss_dssp             HSSS-BCCHHHHHHHHHHHHH
T ss_pred             HhCC-CCCHHHHHHHHHHHHH
Confidence            8765 5677777777776654

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.03  E-value=1.5e-05  Score=67.42  Aligned_cols=119  Identities=9%  Similarity=-0.025  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChh----HHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHH
Q 004744          119 MSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRL----EIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFR  194 (732)
Q Consensus       119 ~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  194 (732)
                      ..+...+..+.+.|++.+|...|.++++.......    .......      .....++..++.+|.+.|++++|++.++
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~------~~~~~~~~Nla~~~~~l~~~~~Al~~~~   91 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKK------NIEISCNLNLATCYNKNKDYPKAIDHAS   91 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHH------HHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhh------hHHHHHHhhHHHHHHHhcccchhhhhhh
Confidence            34556677788999999999999999863221110    0000000      0112355666677777777777777777


Q ss_pred             HHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 004744          195 LLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNI  245 (732)
Q Consensus       195 ~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  245 (732)
                      ++++.++. +..+|..+..++...|++++|...|+.+++.. |.|..+...
T Consensus        92 ~al~~~p~-~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~-P~n~~~~~~  140 (153)
T d2fbna1          92 KVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNS  140 (153)
T ss_dssp             HHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHH
T ss_pred             ccccccch-hhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            77766554 66677777777777777777777777776654 334444433

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.03  E-value=2.9e-05  Score=66.90  Aligned_cols=85  Identities=11%  Similarity=0.042  Sum_probs=67.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHH
Q 004744          624 DSISYNTLINGFVREENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQGRMHDSELILWRMIEKGLNP-DRSTYTTL  701 (732)
Q Consensus       624 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l  701 (732)
                      ....|..+..++.+.|++++|+..++++++  +.| +...|..++.++...|++++|...|+++++  +.| +..++..+
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~--~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~--l~p~n~~~~~~l  151 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALE--IDPSNTKALYRRAQGWQGLKEYDQALADLKKAQE--IAPEDKAIQAEL  151 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhh--hhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            345677788889999999999999999998  455 567899999999999999999999999999  777 45666666


Q ss_pred             HHHHHhcCCHH
Q 004744          702 INGHVSQNNLK  712 (732)
Q Consensus       702 ~~~~~~~g~~~  712 (732)
                      ..+..+.....
T Consensus       152 ~~~~~~l~~~~  162 (169)
T d1ihga1         152 LKVKQKIKAQK  162 (169)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66554443333

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.02  E-value=1.7e-06  Score=89.63  Aligned_cols=228  Identities=10%  Similarity=0.002  Sum_probs=119.5

Q ss_pred             HHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCChhHHHHHHHHH
Q 004744          188 EGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNV-YTLNIMVNALCKDHKIDSAKMFLCEM  266 (732)
Q Consensus       188 ~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~  266 (732)
                      +|.+.|+++.+..+. ...++..+..++...|++++|   |++++..+  |+. ...+...  ..-...+..+.+.++..
T Consensus         4 eA~q~~~qA~~l~p~-~a~a~~~la~~~~~~~~l~ea---ye~~i~~d--p~~a~~~~~e~--~Lw~~~y~~~ie~~r~~   75 (497)
T d1ya0a1           4 QSAQYLRQAEVLKAD-MTDSKLGPAEVWTSRQALQDL---YQKMLVTD--LEYALDKKVEQ--DLWNHAFKNQITTLQGQ   75 (497)
T ss_dssp             HHHHHHHHHHHHHGG-GTCSSSCSSSSHHHHHHHHHH---HHHHHHHC--HHHHHHHTHHH--HHHHHHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCC-CHHHHhhHHHHHHHHchHHHH---HHHHHHcC--hhhHHHHhHHH--HHHHHHHHHHHHHHHHh
Confidence            677888888765333 344566667777777777765   66666542  211 1121111  11111244566666666


Q ss_pred             HhCCCCCCHHHHHHHH--HHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 004744          267 EQKGVYPDTVTYNTLI--NAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQMGLSPD  344 (732)
Q Consensus       267 ~~~g~~p~~~~~~~li--~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~  344 (732)
                      .+....++..-.....  ..+...+.++.|+..+....... .++...+..+...+.+.|+.++|...+.+.....   .
T Consensus        76 ~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~  151 (497)
T d1ya0a1          76 AKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---C  151 (497)
T ss_dssp             HSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHH---H
T ss_pred             cccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---H
Confidence            6543333322222111  12223455666665555444332 2255667777788888888888888777766421   1


Q ss_pred             HHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 004744          345 TATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDNVLYTIIING  424 (732)
Q Consensus       345 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~~~~~~li~~  424 (732)
                      ..++..+...+...|++++|...|.+..+.... +...|+.+...+...|+..+|...|.+..... +|-..++..|...
T Consensus       152 ~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~-~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~  229 (497)
T d1ya0a1         152 QHCLVHLGDIARYRNQTSQAESYYRHAAQLVPS-NGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKA  229 (497)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-BSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHH
Confidence            346677788888888888888888888876432 66788888888888888888888888887653 4566777777777


Q ss_pred             HHHcC
Q 004744          425 YCRNG  429 (732)
Q Consensus       425 ~~~~g  429 (732)
                      +.+..
T Consensus       230 ~~~~~  234 (497)
T d1ya0a1         230 LSKAL  234 (497)
T ss_dssp             HHHHT
T ss_pred             HHHhh
Confidence            65543

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.01  E-value=2.5e-05  Score=67.31  Aligned_cols=125  Identities=6%  Similarity=-0.125  Sum_probs=78.7

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHHHHCCC
Q 004744          122 SAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLLRNKGI  201 (732)
Q Consensus       122 ~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  201 (732)
                      ......+.+.|++.+|+..|.+++.........  ..........+.+...|..+..+|.+.|++++|+..|.++++..+
T Consensus        31 ~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~--~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p  108 (169)
T d1ihga1          31 KNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAA--AEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP  108 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHH--SCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhh--hhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhhh
Confidence            445566778899999999998887421100000  000000001123455667777778888888888888888877766


Q ss_pred             ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 004744          202 CFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNAL  250 (732)
Q Consensus       202 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  250 (732)
                      . ++.+|..+..++.+.|++++|++.|+.+++.. |.+..+...+..+.
T Consensus       109 ~-~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~~  155 (169)
T d1ihga1         109 S-NTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVK  155 (169)
T ss_dssp             T-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             h-hhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            5 77777778888888888888888888777764 44555555544443

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.01  E-value=6.3e-05  Score=63.36  Aligned_cols=109  Identities=11%  Similarity=-0.018  Sum_probs=64.9

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCc----cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 004744          171 LIFDLVIRTYVQARKLREGSEVFRLLRNKGIC----FSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIM  246 (732)
Q Consensus       171 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  246 (732)
                      ..+...+..+.+.|++++|+..|.++++.-..    ++...+                  ....      .....+++.+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~------------------~~~~------~~~~~~~~Nl   73 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILL------------------DKKK------NIEISCNLNL   73 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHH------------------HHHH------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHH------------------Hhhh------hHHHHHHhhH
Confidence            44566678889999999999999998864211    111100                  0000      0112344555


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC
Q 004744          247 VNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGK  304 (732)
Q Consensus       247 ~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  304 (732)
                      ..+|.+.|++++|+..++.+++..+. ++.+|..++.+|...|++++|+..|+...+.
T Consensus        74 a~~~~~l~~~~~Al~~~~~al~~~p~-~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          74 ATCYNKNKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcccchhhhhhhccccccch-hhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            66666666666666666666665422 5566666666666666666666666666654

>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=97.92  E-value=0.00026  Score=60.54  Aligned_cols=122  Identities=8%  Similarity=-0.048  Sum_probs=70.9

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCCh---hHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHH
Q 004744          119 MSLSAMIHFLVRGRRISDAQALILRMVRKSGVSR---LEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRL  195 (732)
Q Consensus       119 ~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  195 (732)
                      ..+...+..+.+.|++.+|...|.+++.......   .......-      .....+|+.+..+|.+.|++++|+..++.
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~------~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~   89 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASE------SFLLAAFLNLAMCYLKLREYTKAVECCDK   89 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHH------HHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcc------hhHHHHHHhHHHHHHHhhhcccchhhhhh
Confidence            3455667788899999999999999885321100   00000000      00123445566666666666666666666


Q ss_pred             HHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          196 LRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVN  248 (732)
Q Consensus       196 ~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  248 (732)
                      +++.++. +..+|..+..++...|++++|...|.++++.. |.+..+...+..
T Consensus        90 al~l~p~-~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l~~  140 (168)
T d1kt1a1          90 ALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIFM  140 (168)
T ss_dssp             HHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHH
T ss_pred             hhhcccc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            6666544 56666666666666666666666666666543 344444444333

>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=97.91  E-value=7.2e-05  Score=64.66  Aligned_cols=109  Identities=16%  Similarity=0.096  Sum_probs=54.5

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHC--CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 004744          594 NTIIKGYCRSGDASKADEFLSKMVSE--GVD-PDSISYNTLINGFVREENMDKAFALVSKMENQGLVPDVITYNVILTGF  670 (732)
Q Consensus       594 ~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~  670 (732)
                      ..........|++++|.+.|.+.+..  |.. ++..           .+.+  +...-..+..    -....+..++.++
T Consensus        15 ~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~-----------~~~w--~~~~r~~l~~----~~~~a~~~la~~~   77 (179)
T d2ff4a2          15 KTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLR-----------DFQF--VEPFATALVE----DKVLAHTAKAEAE   77 (179)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGT-----------TSTT--HHHHHHHHHH----HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCcccccccCc-----------chHH--HHHHHHHHHH----HHHHHHHHHHHHH
Confidence            33445678889999999999999875  211 1100           0000  0000000000    0112344455555


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 004744          671 CRQGRMHDSELILWRMIEKGLNP-DRSTYTTLINGHVSQNNLKEAFRFHDEM  721 (732)
Q Consensus       671 ~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m  721 (732)
                      ...|++++|+..++++++  +.| +...|..++.+|.+.|+.++|.+.|+++
T Consensus        78 ~~~g~~~~Al~~~~~al~--~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~  127 (179)
T d2ff4a2          78 IACGRASAVIAELEALTF--EHPYREPLWTQLITAYYLSDRQSDALGAYRRV  127 (179)
T ss_dssp             HHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHCCCchHHHHHHHHHHH--hCCccHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            555555555555555555  444 3455555555555555555555555554

>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=97.85  E-value=3.7e-05  Score=64.10  Aligned_cols=78  Identities=13%  Similarity=0.198  Sum_probs=52.6

Q ss_pred             CCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcC-----------CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 004744          639 ENMDKAFALVSKMENQGLVP-DVITYNVILTGFCRQG-----------RMHDSELILWRMIEKGLNPDRSTYTTLINGHV  706 (732)
Q Consensus       639 g~~~~A~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~g-----------~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~  706 (732)
                      +.+++|+..|+++++  +.| +..+|..++.+|...|           ++++|...|+++++  +.|+...|..-+..+ 
T Consensus        55 ~~~~~Ai~~~~kAl~--l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~-  129 (145)
T d1zu2a1          55 QMIQEAITKFEEALL--IDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT-  129 (145)
T ss_dssp             HHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHH--hcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH-
Confidence            345677777777777  455 4557777777776544           36889999999999  888765554433332 


Q ss_pred             hcCCHHHHHHHHHHHHHCCC
Q 004744          707 SQNNLKEAFRFHDEMLQRGF  726 (732)
Q Consensus       707 ~~g~~~~A~~~~~~m~~~g~  726 (732)
                           ..|.+++.+..+.|+
T Consensus       130 -----~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         130 -----AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             -----HTHHHHHHHHHHSSS
T ss_pred             -----HHHHHHHHHHHHHhc
Confidence                 467777777777664

>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=97.79  E-value=0.00041  Score=59.71  Aligned_cols=119  Identities=12%  Similarity=0.036  Sum_probs=66.7

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhH------HHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHH
Q 004744          120 SLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLE------IVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVF  193 (732)
Q Consensus       120 ~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  193 (732)
                      .+......+...|++++|.+.|.+++.-.......      +......  ...+.....+..++..+.+.|++++|+..+
T Consensus        13 ~~~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~--~l~~~~~~a~~~la~~~~~~g~~~~Al~~~   90 (179)
T d2ff4a2          13 AEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFAT--ALVEDKVLAHTAKAEAEIACGRASAVIAEL   90 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHH--HHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHH--HHHHHHHHHHHHHHHHHHHCCCchHHHHHH
Confidence            44556677889999999999999998532211000      0000000  000011344555666666666666666666


Q ss_pred             HHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHH-----cCCCCCHH
Q 004744          194 RLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVR-----SGIELNVY  241 (732)
Q Consensus       194 ~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~  241 (732)
                      +++++..+. +...|..++.+|.+.|+..+|++.|+++.+     .|+.|...
T Consensus        91 ~~al~~~P~-~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~  142 (179)
T d2ff4a2          91 EALTFEHPY-REPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  142 (179)
T ss_dssp             HHHHHHSTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHH
Confidence            666665554 566666666666666666666666666533     35555543

>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=97.74  E-value=6.7e-05  Score=62.41  Aligned_cols=73  Identities=8%  Similarity=-0.043  Sum_probs=50.4

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcC----------ChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 004744          180 YVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIG----------WVDLAREVYAEVVRSGIELNVYTLNIMVNA  249 (732)
Q Consensus       180 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g----------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  249 (732)
                      |-+.+.+++|+..|+.+++..|. ++.++..+..+|...+          .+++|+..|+++++.+ |.+..+|..+..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~P~-~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhCCc-chHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHH
Confidence            45567789999999999988876 8888888888887543          3456666666666654 5555566666665


Q ss_pred             HHhcC
Q 004744          250 LCKDH  254 (732)
Q Consensus       250 ~~~~g  254 (732)
                      |...|
T Consensus        85 y~~~g   89 (145)
T d1zu2a1          85 YTSFA   89 (145)
T ss_dssp             HHHHH
T ss_pred             HHHcc
Confidence            55443

>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=97.66  E-value=0.00012  Score=61.98  Aligned_cols=92  Identities=12%  Similarity=0.035  Sum_probs=60.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCC-CCC----------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CCCCC-
Q 004744          632 INGFVREENMDKAFALVSKMENQG-LVP----------DVITYNVILTGFCRQGRMHDSELILWRMIEK-----GLNPD-  694 (732)
Q Consensus       632 i~~~~~~g~~~~A~~~~~~~~~~g-~~p----------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----g~~p~-  694 (732)
                      +..+...|++++|++.|++.++.. -.|          ....|+.+..+|...|++++|...+++.++.     ...++ 
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            344556677777777777766510 001          1346777788888888888888888877641     12222 


Q ss_pred             ----HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          695 ----RSTYTTLINGHVSQNNLKEAFRFHDEMLQ  723 (732)
Q Consensus       695 ----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  723 (732)
                          ...|..++.+|...|++++|+..|++.++
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                22567788888888888888888888764

>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=97.64  E-value=5.1e-05  Score=70.23  Aligned_cols=122  Identities=9%  Similarity=-0.061  Sum_probs=66.7

Q ss_pred             HHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHH
Q 004744          181 VQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAK  260 (732)
Q Consensus       181 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  260 (732)
                      .+.|++++|+..|++.++..|. |...+..+...|+..|++++|.+.|+.+.+.. |.+...+..+...+...+..+++.
T Consensus         7 L~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~-P~~~~~~~~l~~ll~a~~~~~~a~   84 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQLRHLVKAAQARKDFA   84 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhccccHHHH
Confidence            4567777777777777777666 77777777777777777777777777777653 333444444443333222222221


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhC
Q 004744          261 MFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGK  304 (732)
Q Consensus       261 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  304 (732)
                      .-.......+..++...+......+.+.|+.++|.+.++++.+.
T Consensus        85 ~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          85 QGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            11111011111112233333445556667777777766666543

>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=6.6e-05  Score=69.44  Aligned_cols=123  Identities=11%  Similarity=0.005  Sum_probs=82.7

Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 004744          215 LVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEA  294 (732)
Q Consensus       215 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A  294 (732)
                      ..+.|++++|+..|++.++.. |.|...+..+...||..|++++|.+.++...+..+. +...+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~-~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE-YLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHhccccHHH
Confidence            456789999999999998876 788888999999999999999999999998887322 344555555554444444433


Q ss_pred             HHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 004744          295 FQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQM  339 (732)
Q Consensus       295 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  339 (732)
                      ..-.......+-+++...+......+.+.|+.++|.+.++++.+.
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            332222111222223344455556677888888888888887764

>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=97.30  E-value=0.00095  Score=50.35  Aligned_cols=83  Identities=8%  Similarity=-0.019  Sum_probs=63.8

Q ss_pred             ChHHHHHHHHHHHhCCChHHHHHHHHHHHHhcCCChhHHHHhhhhhcCCCCCchHHHHHHHHHHHHcCChHHHHHHHHHH
Q 004744          117 SSMSLSAMIHFLVRGRRISDAQALILRMVRKSGVSRLEIVDSFVSTYSPCGSNSLIFDLVIRTYVQARKLREGSEVFRLL  196 (732)
Q Consensus       117 ~~~~~~~l~~~l~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  196 (732)
                      |+..+..+..++.+.|++++|...|.++++......           ........++..|+.+|.+.|++++|+..|+++
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~-----------~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~a   72 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGE-----------ISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKL   72 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-----------CCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhh-----------ccCccHHHHHHHHhhHHHhcCChHHHHHHHHHH
Confidence            456677889999999999999999999986432110           112233677888999999999999999999999


Q ss_pred             HHCCCccCHHHHHHH
Q 004744          197 RNKGICFSINACNSL  211 (732)
Q Consensus       197 ~~~~~~~~~~~~~~l  211 (732)
                      ++..|. +..+++.+
T Consensus        73 L~l~P~-~~~a~~Nl   86 (95)
T d1tjca_          73 LELDPE-HQRANGNL   86 (95)
T ss_dssp             HHHCTT-CHHHHHHH
T ss_pred             HHhCcC-CHHHHHHH
Confidence            998766 56666554

>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=97.26  E-value=0.0033  Score=52.52  Aligned_cols=91  Identities=14%  Similarity=0.126  Sum_probs=61.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCC-CCC----------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CCCCC--
Q 004744          598 KGYCRSGDASKADEFLSKMVSEG-VDP----------DSISYNTLINGFVREENMDKAFALVSKMENQ-----GLVPD--  659 (732)
Q Consensus       598 ~~~~~~g~~~~A~~~~~~~~~~~-~~~----------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----g~~p~--  659 (732)
                      ..+.+.|++++|++.|++.++.. -.|          ....|+.+..+|.+.|++++|.+.+++.+..     ...++  
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            34455566666666666666421 011          1356777788888888888888888877651     11222  


Q ss_pred             ---HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          660 ---VITYNVILTGFCRQGRMHDSELILWRMIE  688 (732)
Q Consensus       660 ---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  688 (732)
                         ...++.++.+|...|++++|...|+++++
T Consensus        97 ~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          97 KLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               12567788899999999999999999876

>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=97.20  E-value=0.0017  Score=48.95  Aligned_cols=71  Identities=17%  Similarity=0.167  Sum_probs=47.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC-----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HHHHHHH
Q 004744          629 NTLINGFVREENMDKAFALVSKMENQ-----GLVPD-VITYNVILTGFCRQGRMHDSELILWRMIEKGLNPD-RSTYTTL  701 (732)
Q Consensus       629 ~~li~~~~~~g~~~~A~~~~~~~~~~-----g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l  701 (732)
                      -.++..+.+.|++++|+..|+++.+.     ...++ ..++..++.++.+.|++++|+..++++++  +.|+ ..++..+
T Consensus         9 ~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~--l~P~~~~a~~Nl   86 (95)
T d1tjca_           9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPEHQRANGNL   86 (95)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH--hCcCCHHHHHHH
Confidence            34566677777777777777776651     11222 35677788888888888888888888887  6774 4555554

>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=96.70  E-value=0.024  Score=45.43  Aligned_cols=81  Identities=14%  Similarity=0.070  Sum_probs=37.5

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCC
Q 004744          639 ENMDKAFALVSKMENQGLVPDVITYNVILTGFCR----QGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVS----QNN  710 (732)
Q Consensus       639 g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~----~g~  710 (732)
                      .+.++|++++++..+.|   ++.....|...|..    ..+.++|.++|++..+.|   ++.....|...|..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCC
Confidence            34455555555555433   23333334333332    234555555555555533   23334444444443    234


Q ss_pred             HHHHHHHHHHHHHCC
Q 004744          711 LKEAFRFHDEMLQRG  725 (732)
Q Consensus       711 ~~~A~~~~~~m~~~g  725 (732)
                      .++|.+++++..+.|
T Consensus       111 ~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         111 EKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCC
Confidence            555555555555444

>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=96.58  E-value=0.023  Score=45.49  Aligned_cols=109  Identities=7%  Similarity=-0.033  Sum_probs=47.9

Q ss_pred             ChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCChhHHH
Q 004744          185 KLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCK----DHKIDSAK  260 (732)
Q Consensus       185 ~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~  260 (732)
                      ++++|++.|++..+.|   +...+..|..  ....+.++|.++|.+..+.|   ++.....|...|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g---~~~a~~~l~~--~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELN---EMFGCLSLVS--NSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTT---CTTHHHHHHT--CTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCC---Chhhhhhhcc--ccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            4566666666666655   2233333321  12234555555555555443   23333333333332    23344455


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHhhC
Q 004744          261 MFLCEMEQKGVYPDTVTYNTLINAYCR----EGFLEEAFQLMNSMSGK  304 (732)
Q Consensus       261 ~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~  304 (732)
                      ++|++..+.|   +..+...|...|..    ..+.++|.++|+...+.
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~  124 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  124 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHC
Confidence            5555544443   23333333333333    23444444444444443

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=95.16  E-value=0.44  Score=36.06  Aligned_cols=64  Identities=17%  Similarity=0.124  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 004744          662 TYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLINGHVSQNNLKEAFRFHDEMLQRGF  726 (732)
Q Consensus       662 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  726 (732)
                      ..+.-++.+.++|+-+.-.++++.+.+. -+|++.....++.+|.+.|...++-+++.++-++|+
T Consensus        88 ~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          88 HVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            3444556666777777666676665552 455666677777777777777777777777777665

>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=94.51  E-value=0.12  Score=39.84  Aligned_cols=70  Identities=7%  Similarity=0.087  Sum_probs=46.5

Q ss_pred             CCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCC-CH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 004744          622 DPDSISYNTLINGFVREEN---MDKAFALVSKMENQGLVP-DV-ITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDR  695 (732)
Q Consensus       622 ~~~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~g~~p-~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~  695 (732)
                      .+...+--....+++++..   .++|+.+++++.+.  .| +. ..+..|.-+|.+.|++++|..+++++++  +.|+.
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~--~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--ieP~n  106 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKE--AESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  106 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTC
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhc--CchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--cCCCc
Confidence            3455555556666666543   56777788777763  33 32 4556677777888888888888888887  77754

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.58  E-value=0.39  Score=36.75  Aligned_cols=63  Identities=16%  Similarity=0.108  Sum_probs=28.7

Q ss_pred             HHHHHHHHHHHHHcCC---HHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 004744          590 LVSCNTIIKGYCRSGD---ASKADEFLSKMVSEGVDPD-SISYNTLINGFVREENMDKAFALVSKMEN  653 (732)
Q Consensus       590 ~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~  653 (732)
                      ..+--.++.++.+..+   .++|+.+++++.+.+ +.+ ...+-.|.-+|.+.|++++|.+.++.+.+
T Consensus        35 ~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          35 IQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            3343344444444332   345555555554422 112 23334444455555555555555555555

>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=93.56  E-value=1.1  Score=33.92  Aligned_cols=140  Identities=11%  Similarity=0.068  Sum_probs=86.3

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCChhHH
Q 004744          180 YVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHKIDSA  259 (732)
Q Consensus       180 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  259 (732)
                      +.-.|.+++..++..+.....   +..-||-++.-....-+-+...++++.+-+.   -|.          .+++++...
T Consensus        12 ~ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDl----------s~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhh---cCc----------hhhhcHHHH
Confidence            455688888888888887652   6667777777776666666666666655331   111          123333333


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 004744          260 KMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDEMLQM  339 (732)
Q Consensus       260 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  339 (732)
                      ...+-.+-.     +....+..++...++|+-++-.++++.+.+. -++++.....+..+|.+.|...++.+++.+.-+.
T Consensus        76 v~C~~~~n~-----~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~  149 (161)
T d1wy6a1          76 VECGVINNT-----LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKK  149 (161)
T ss_dssp             HHHHHHTTC-----CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcc-----hHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH
Confidence            333322221     3334455566667777777777777776553 4556777777777777777777777777777776


Q ss_pred             CC
Q 004744          340 GL  341 (732)
Q Consensus       340 g~  341 (732)
                      |+
T Consensus       150 G~  151 (161)
T d1wy6a1         150 GE  151 (161)
T ss_dssp             TC
T ss_pred             hH
Confidence            64

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=92.49  E-value=5.1  Score=38.82  Aligned_cols=355  Identities=9%  Similarity=-0.007  Sum_probs=177.1

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 004744          173 FDLVIRTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLVKIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCK  252 (732)
Q Consensus       173 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  252 (732)
                      -..-+..+.+.+++++.+..|.    .. ..+...--..+.++.+.|+.+.|......+-..| ......+..       
T Consensus        75 r~~~l~~L~~~~~w~~~~~~~~----~~-p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~-~~~p~~c~~-------  141 (450)
T d1qsaa1          75 QSRFVNELARREDWRGLLAFSP----EK-PGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG-KSQPNACDK-------  141 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHCC----SC-CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS-SCCCTHHHH-------
T ss_pred             HHHHHHHHHhccCHHHHHHhcc----CC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CCCchHHHH-------
Confidence            3334556667777765444332    11 2244444456677777788888777777665554 222222222       


Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHH
Q 004744          253 DHKIDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEV  332 (732)
Q Consensus       253 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  332 (732)
                               +|..+.+.|. .+...+-.-+......|++..|..+...+...    ........+....   +...+...
T Consensus       142 ---------l~~~~~~~~~-lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~----~~~~~~a~~~l~~---~p~~~~~~  204 (450)
T d1qsaa1         142 ---------LFSVWRASGK-QDPLAYLERIRLAMKAGNTGLVTVLAGQMPAD----YQTIASAIISLAN---NPNTVLTF  204 (450)
T ss_dssp             ---------HHHHHHHTTC-SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGG----GHHHHHHHHHHHH---CGGGHHHH
T ss_pred             ---------HHHHHHhcCC-CCHHHHHHHHHHHHHcCChhhHHHHHhhCChh----HHHHHHHHHHHHh---ChHhHHHH
Confidence                     3333343332 23333334455555667777777666543221    1222222222221   22222222


Q ss_pred             HHHHHHCCCCCCHHhHHHHHHHHHc--CCCHhHHHHHHHHHHhCCCCCCHhHHHH----HHHHHHhCCCHHHHHHHHHHH
Q 004744          333 LDEMLQMGLSPDTATYNTLLVESCR--KENMSEAEEIFCEMSRRGVAPDIVSFST----LIGIFSRNGQLDRALMYFREM  406 (732)
Q Consensus       333 ~~~~~~~g~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~~~~~g~~~~~~~~~~----l~~~~~~~g~~~~A~~l~~~~  406 (732)
                      ...   .  .++......+..++.+  ..+.+.|..++......... +...+..    +...+...+..+.+..++...
T Consensus       205 ~~~---~--~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~  278 (450)
T d1qsaa1         205 ART---T--GATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDA  278 (450)
T ss_dssp             HHH---S--CCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHH
T ss_pred             Hhc---C--CCChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhh
Confidence            111   1  1222222222222222  24566777777666543222 2222222    222223455666777776666


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHH
Q 004744          407 KSAGLVPDNVLYTIIINGYCRNGFVLEALKMRDEMLEKGCVMDVVTYNTILNGLCRAKMLTEADDLFNEMLERGVFPDFY  486 (732)
Q Consensus       407 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  486 (732)
                      ...+.  +.....-.+......+++..+...+..|... ........--+..++...|+.++|...|..+...   ++  
T Consensus       279 ~~~~~--~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~---~~--  350 (450)
T d1qsaa1         279 IMRSQ--STSLIERRVRMALGTGDRRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQQ---RG--  350 (450)
T ss_dssp             HHTCC--CHHHHHHHHHHHHHHTCHHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---CS--
T ss_pred             ccccc--chHHHHHHHHHHHHcCChHHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcC---CC--
Confidence            55432  3333344455556677888887777766432 2223444455667777888888888888877542   23  


Q ss_pred             HHHHHHHHHHhcCC-HHHHHHHHHHHHHCCCCCC-HH---HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 004744          487 TFTTLIHGHCKDGN-MNKALNLFDIMTQKSIKPD-IV---TYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGIL  561 (732)
Q Consensus       487 ~~~~li~~~~~~g~-~~~A~~~~~~~~~~~~~~~-~~---~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~l  561 (732)
                       |-..+.+- +.|. +.-..      ......+. ..   .-..-+..+...|+...|...|..+....   +......+
T Consensus       351 -fYG~LAa~-~Lg~~~~~~~------~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~---~~~~~~~l  419 (450)
T d1qsaa1         351 -FYPMVAAQ-RIGEEYELKI------DKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK---SKTEQAQL  419 (450)
T ss_dssp             -HHHHHHHH-HTTCCCCCCC------CCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC---CHHHHHHH
T ss_pred             -hHHHHHHH-HcCCCCCCCc------CCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC---CHHHHHHH
Confidence             32222221 1121 00000      00000000 00   01123455677899999999888877542   45566677


Q ss_pred             HHHHHhcCCHHHHHHHHHHHH
Q 004744          562 INGYCSMGHVTEAFRLWYEMV  582 (732)
Q Consensus       562 i~~~~~~g~~~~A~~~~~~~~  582 (732)
                      .....+.|.++.|+.......
T Consensus       420 a~lA~~~g~~~~aI~a~~~~~  440 (450)
T d1qsaa1         420 ARYAFNNQWWDLSVQATIAGK  440 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHTT
T ss_pred             HHHHHHCCChhHHHHHHHHHH
Confidence            777888899999887766653

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=86.30  E-value=4  Score=29.11  Aligned_cols=63  Identities=17%  Similarity=0.195  Sum_probs=47.3

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 004744          640 NMDKAFALVSKMENQGLVPDVITYNVILTGFCRQGRMHDSELILWRMIEKGLNPDRSTYTTLIN  703 (732)
Q Consensus       640 ~~~~A~~~~~~~~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l~~  703 (732)
                      +.=++.+-++.+....+.|++.+..+-+.+|.+.+++..|.++|+-...+ ..++...|..++.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHH
Confidence            44456666777777778899999999999999999999999999887764 3334566766653

>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=86.11  E-value=15  Score=35.14  Aligned_cols=413  Identities=9%  Similarity=-0.007  Sum_probs=203.8

Q ss_pred             HHHHHcCChHHHHHHHHHHHHCCCccCHHHHHHHHHHHH--HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC
Q 004744          178 RTYVQARKLREGSEVFRLLRNKGICFSINACNSLLGGLV--KIGWVDLAREVYAEVVRSGIELNVYTLNIMVNALCKDHK  255 (732)
Q Consensus       178 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  255 (732)
                      .-..++|+..++......+.+.   | ...|-..-..-.  ......+...++++-.  +.|.........+..+.+.++
T Consensus        14 ~~a~~~~~~~~~~~~~~~L~dy---p-L~pYl~~~~l~~~~~~~~~~~i~~Fl~~~p--~~P~~~~lr~~~l~~L~~~~~   87 (450)
T d1qsaa1          14 KQAWDNRQMDVVEQMMPGLKDY---P-LYPYLEYRQITDDLMNQPAVTVTNFVRANP--TLPPARTLQSRFVNELARRED   87 (450)
T ss_dssp             HHHHHTTCHHHHHHHSGGGTTS---T-THHHHHHHHHHHTGGGCCHHHHHHHHHHCT--TCHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHCCCHHHHHHHHhhhcCC---C-CHHHHHHHHHHhccccCCHHHHHHHHHHCC--CChhHHHHHHHHHHHHHhccC
Confidence            3455677777777766666432   1 222222222111  1223333333332210  111111222334556666666


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhhCCCCCCHhhHHHHHHHHHhcCChhHHHHHHHH
Q 004744          256 IDSAKMFLCEMEQKGVYPDTVTYNTLINAYCREGFLEEAFQLMNSMSGKGLKPGVFTYNSLINGLCKKGRCDRAKEVLDE  335 (732)
Q Consensus       256 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  335 (732)
                      .+.....+.    . ...+...-.....+..+.|+.++|.+.+..+-..|.. ..                +....+|..
T Consensus        88 w~~~~~~~~----~-~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~-~p----------------~~c~~l~~~  145 (450)
T d1qsaa1          88 WRGLLAFSP----E-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-QP----------------NACDKLFSV  145 (450)
T ss_dssp             HHHHHHHCC----S-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-CC----------------THHHHHHHH
T ss_pred             HHHHHHhcc----C-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-Cc----------------hHHHHHHHH
Confidence            655443331    1 1224444445666677778887777777666544322 11                222333444


Q ss_pred             HHHCCCCCCHHhHHHHHHHHHcCCCHhHHHHHHHHHHhCCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCCCCH
Q 004744          336 MLQMGLSPDTATYNTLLVESCRKENMSEAEEIFCEMSRRGVAPDIVSFSTLIGIFSRNGQLDRALMYFREMKSAGLVPDN  415 (732)
Q Consensus       336 ~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~~~~~~~~~l~~~~~~~g~~~~A~~l~~~~~~~~~~~~~  415 (732)
                      +...| ..+...+-.-+......|+...|..+...+...    ........+........+....      ...  ..+.
T Consensus       146 ~~~~~-~lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~----~~~~~~a~~~l~~~p~~~~~~~------~~~--~~~~  212 (450)
T d1qsaa1         146 WRASG-KQDPLAYLERIRLAMKAGNTGLVTVLAGQMPAD----YQTIASAIISLANNPNTVLTFA------RTT--GATD  212 (450)
T ss_dssp             HHHTT-CSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGG----GHHHHHHHHHHHHCGGGHHHHH------HHS--CCCH
T ss_pred             HHhcC-CCCHHHHHHHHHHHHHcCChhhHHHHHhhCChh----HHHHHHHHHHHHhChHhHHHHH------hcC--CCCh
Confidence            44433 233333333444555566777666665543221    2233333333333222222211      111  1233


Q ss_pred             HHHHHHHHHHHH--cCCHHHHHHHHHHHHHCCCCcCHHHHHHHH----HHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHH
Q 004744          416 VLYTIIINGYCR--NGFVLEALKMRDEMLEKGCVMDVVTYNTIL----NGLCRAKMLTEADDLFNEMLERGVFPDFYTFT  489 (732)
Q Consensus       416 ~~~~~li~~~~~--~g~~~~A~~~~~~~~~~~~~~~~~~~~~li----~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  489 (732)
                      .....+..++.+  ..+.+.|...+......... +...+..+-    ..+...+..+.+...+......+.  +.....
T Consensus       213 ~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~  289 (450)
T d1qsaa1         213 FTRQMAAVAFASVARQDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQ--STSLIE  289 (450)
T ss_dssp             HHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCC--CHHHHH
T ss_pred             hhhHHHHHHHHHHhccChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccccc--chHHHH
Confidence            322223333322  24677777777776554322 222222222    222345566777777776665543  334444


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 004744          490 TLIHGHCKDGNMNKALNLFDIMTQKSIKPDIVTYNTLIDGFCKVGEMEKANKLWADMISRKISPNYISYGILINGYCSMG  569 (732)
Q Consensus       490 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  569 (732)
                      ..+......+++..+...+..+... ........--+..++...|+.++|...|..+...   ++  -|..|...  +.|
T Consensus       290 w~~~~al~~~~~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~~---~~--fYG~LAa~--~Lg  361 (450)
T d1qsaa1         290 RRVRMALGTGDRRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQQ---RG--FYPMVAAQ--RIG  361 (450)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---CS--HHHHHHHH--HTT
T ss_pred             HHHHHHHHcCChHHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhcC---CC--hHHHHHHH--HcC
Confidence            4455566678888888888876543 1223333345667788888888888888887643   23  23333221  222


Q ss_pred             CHHHHHHHHHHHHhCCC--CCCH-HH---HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 004744          570 HVTEAFRLWYEMVGKGI--KPTL-VS---CNTIIKGYCRSGDASKADEFLSKMVSEGVDPDSISYNTLINGFVREENMDK  643 (732)
Q Consensus       570 ~~~~A~~~~~~~~~~~~--~~~~-~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  643 (732)
                      ..-.       +.....  .++. ..   -..-+..+...|....|...+..+...   .+......+.....+.|.++.
T Consensus       362 ~~~~-------~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~---~~~~~~~~la~lA~~~g~~~~  431 (450)
T d1qsaa1         362 EEYE-------LKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS---KSKTEQAQLARYAFNNQWWDL  431 (450)
T ss_dssp             CCCC-------CCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CCHHHHHHHHHHHHHTTCHHH
T ss_pred             CCCC-------CCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC---CCHHHHHHHHHHHHHCCChhH
Confidence            1100       000000  0000 00   112345567889999999998888753   245566677788889999999


Q ss_pred             HHHHHHHHH
Q 004744          644 AFALVSKME  652 (732)
Q Consensus       644 A~~~~~~~~  652 (732)
                      |+....+..
T Consensus       432 aI~a~~~~~  440 (450)
T d1qsaa1         432 SVQATIAGK  440 (450)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHHH
Confidence            988777664