Citrus Sinensis ID: 041741

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------75
Protein Sequence
KKAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYSLG
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHHccccHHHHHHHHHHHHccccccccHHHHHHHHHccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccHHHHHHHcccccccccHHHHHHHHHHcccccHHHHHHHHHHHHcccccccEEHHHHHHHHHcccccccccHHHcccccccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHcccccccEEHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHHHcHHHccccccccHHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHcHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccccc
Coil and Loop (DISEMBL)
KKAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQhlfdkmphkdiyswNAILSAQCKSDDLEFAYKLFdempernvVSWNNLISALVRNGLEEKALSVYNKmsnegfvpTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKcgwtkhavpvfeemsepnevTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVcaregcgvesdvfaqsdnkfsrnvhgqqvhcLTIKLGFEADLHLSNSLLDMyakngdmdsaEVIFsnlpersvVSWNVMIAGYGQKYQSTKAIELLQRMkscgfepdevTSINMLVACVrsgdiktgremfdsmpspsvssWNAMLSSYSQSENHKEAIKLFREMqfrgvkpdrTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERvfhripeldivCWNSMiaglslnsLDIEAFMFFKQMrqnemyptqfSFATVLSSCAKLSSSFQGRQVHAQIekdgyvndIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIasgvkpddiTFVAILTACSHSGLVDVGVEIFNSmqldhgvepildHYTCMIdclgraghfheaemlidempckddpVIWEVLLSSCRLHANVRLAKRAAEELfrldpknsapySLLANIYSSLGRWDDLRAVRELMSencivkdpayslg
Flexible Loop (DISEMBL)
KKAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELfrldpknsapySLLANIYSSLGRWDDLRAVRELMsencivkdpayslg
Low Complexity Region (SEG)
KKAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAvsidsvslssvlgvCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYSLG
Disordered region (IsUnstruct)
****VAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDI**********************************IKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVK*******
Disordered Region (DISOPRED)
*KAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYSL*
Disordered Region (DISEMBL)
KKAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYSLG
Disordered Region (DISPRO)
*KAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDP*YSLG
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
KKAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYSLG
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	748	2.2.26 [Sep-21-2011]
Q9SVH0	774	Pentatricopeptide repeat-	yes	no	0.986	0.953	0.548	0.0
Q9FWA6	903	Pentatricopeptide repeat-	no	no	0.966	0.800	0.334	1e-130
Q9SS83	1028	Pentatricopeptide repeat-	no	no	0.965	0.702	0.329	1e-122
Q9SVP7	1064	Pentatricopeptide repeat-	no	no	0.922	0.648	0.312	1e-116
Q9SMZ2	990	Pentatricopeptide repeat-	no	no	0.939	0.710	0.308	1e-114
Q9CA56	895	Pentatricopeptide repeat-	no	no	0.895	0.748	0.324	1e-113
Q9SVA5	834	Pentatricopeptide repeat-	no	no	0.913	0.818	0.316	1e-113
Q7Y211	890	Pentatricopeptide repeat-	no	no	0.856	0.720	0.333	1e-111
Q9LFL5	850	Pentatricopeptide repeat-	no	no	0.889	0.782	0.327	1e-110
Q0WN60	970	Pentatricopeptide repeat-	no	no	0.909	0.701	0.305	1e-108

>sp|Q9SVH0|PP329_ARATH Pentatricopeptide repeat-containing protein At4g20770 OS=Arabidopsis thaliana GN=PCMP-E35 PE=3 SV=2

 Score =  872 bits (2254), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 411/750 (54%), Positives = 560/750 (74%), Gaps = 12/750 (1%)

Query: 1   KKAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAI 60
           ++  ++GK++H  I+R G+  DT+LCNRL++LY +C +   A+ +FD+M  +D+YSWNA 
Sbjct: 19  ERCKLSGKVIHGFIVRMGMKSDTYLCNRLLDLYIECGDGDYARKVFDEMSVRDVYSWNAF 78

Query: 61  LSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTH 120
           L+ +CK  DL  A ++FD MPER+VVSWNN+IS LVR G EEKAL VY +M  +GF+P+ 
Sbjct: 79  LTFRCKVGDLGEACEVFDGMPERDVVSWNNMISVLVRKGFEEKALVVYKRMVCDGFLPSR 138

Query: 121 ITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGW-TKHAVPVFE 179
            TLASV  A + +LD   G RCHG+ +K GLDKNI+V NALLS+YAKCG+   + V VFE
Sbjct: 139 FTLASVLSACSKVLDGVFGMRCHGVAVKTGLDKNIFVGNALLSMYAKCGFIVDYGVRVFE 198

Query: 180 EMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCA-REGCGV 238
            +S+PNEV++TA++ GLA+ ++V+EA++MFRLM  K V +DSV LS++L + A REGC  
Sbjct: 199 SLSQPNEVSYTAVIGGLARENKVLEAVQMFRLMCEKGVQVDSVCLSNILSISAPREGCDS 258

Query: 239 ESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNL 298
            S+++         N  G+Q+HCL ++LGF  DLHL+NSLL++YAKN DM+ AE+IF+ +
Sbjct: 259 LSEIYG--------NELGKQIHCLALRLGFGGDLHLNNSLLEIYAKNKDMNGAELIFAEM 310

Query: 299 PERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGR 358
           PE +VVSWN+MI G+GQ+Y+S K++E L RM+  GF+P+EVT I++L AC RSGD++TGR
Sbjct: 311 PEVNVVSWNIMIVGFGQEYRSDKSVEFLTRMRDSGFQPNEVTCISVLGACFRSGDVETGR 370

Query: 359 EMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMG 418
            +F S+P PSVS+WNAMLS YS  E+++EAI  FR+MQF+ +KPD+TTL++ILSSCA + 
Sbjct: 371 RIFSSIPQPSVSAWNAMLSGYSNYEHYEEAISNFRQMQFQNLKPDKTTLSVILSSCARLR 430

Query: 419 ILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHR-IPELDIVCWNSMI 477
            LE GKQ+H   ++T    ++++ SGLI +YS+C++ E++E +F   I ELDI CWNSMI
Sbjct: 431 FLEGGKQIHGVVIRTEISKNSHIVSGLIAVYSECEKMEISECIFDDCINELDIACWNSMI 490

Query: 478 AGLSLNSLDIEAFMFFKQMRQNE-MYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGY 536
           +G   N LD +A + F++M Q   + P + SFATVLSSC++L S   GRQ H  + K GY
Sbjct: 491 SGFRHNMLDTKALILFRRMHQTAVLCPNETSFATVLSSCSRLCSLLHGRQFHGLVVKSGY 550

Query: 537 VNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKD 596
           V+D FV +AL +MYCKCG+I  ARQFFD +  KNTV WNEMIHGY  NG GDEAV LY+ 
Sbjct: 551 VSDSFVETALTDMYCKCGEIDSARQFFDAVLRKNTVIWNEMIHGYGHNGRGDEAVGLYRK 610

Query: 597 MIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAG 656
           MI+SG KPD ITFV++LTACSHSGLV+ G+EI +SMQ  HG+EP LDHY C++DCLGRAG
Sbjct: 611 MISSGEKPDGITFVSVLTACSHSGLVETGLEILSSMQRIHGIEPELDHYICIVDCLGRAG 670

Query: 657 HFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLAN 716
              +AE L +  P K   V+WE+LLSSCR+H +V LA+R AE+L RLDP++SA Y LL+N
Sbjct: 671 RLEDAEKLAEATPYKSSSVLWEILLSSCRVHGDVSLARRVAEKLMRLDPQSSAAYVLLSN 730

Query: 717 IYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
            YSSL +WDD  A++ LM++N + K P  S
Sbjct: 731 TYSSLRQWDDSAALQGLMNKNRVHKTPGQS 760

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FWA6|PP207_ARATH Pentatricopeptide repeat-containing protein At3g02330 OS=Arabidopsis thaliana GN=PCMP-E90 PE=2 SV=2

 Score =  466 bits (1200), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 266/796 (33%), Positives = 432/796 (54%), Gaps = 73/796 (9%)

Query: 7   GKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCK 66
           GK  HAH++ +G    TF+ N L+++Y+   +  SA  +FDKMP +D+ SWN +++   K
Sbjct: 67  GKQAHAHMIISGFRPTTFVLNCLLQVYTNSRDFVSASMVFDKMPLRDVVSWNKMINGYSK 126

Query: 67  SDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASV 126
           S+D+  A   F+ MP R+VVSWN+++S  ++NG   K++ V+  M  EG      T A +
Sbjct: 127 SNDMFKANSFFNMMPVRDVVSWNSMLSGYLQNGESLKSIEVFVDMGREGIEFDGRTFAII 186

Query: 127 FKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNE 186
            K  + L D   G + HG+V+++G D ++  A+ALL +YAK      ++ VF+ + E N 
Sbjct: 187 LKVCSFLEDTSLGMQIHGIVVRVGCDTDVVAASALLDMYAKGKRFVESLRVFQGIPEKNS 246

Query: 187 VTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQS 246
           V+++A+++G  + + +  AL+ F+ M +    +     +SVL  CA           A S
Sbjct: 247 VSWSAIIAGCVQNNLLSLALKFFKEMQKVNAGVSQSIYASVLRSCA-----------ALS 295

Query: 247 DNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSW 306
           + +      G Q+H   +K  F AD  +  + LDMYAK  +M  A+++F N    +  S+
Sbjct: 296 ELRL-----GGQLHAHALKSDFAADGIVRTATLDMYAKCDNMQDAQILFDNSENLNRQSY 350

Query: 307 NVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREM------ 360
           N MI GY Q+    KA+ L  R+ S G   DE++   +  AC     +  G ++      
Sbjct: 351 NAMITGYSQEEHGFKALLLFHRLMSSGLGFDEISLSGVFRACALVKGLSEGLQIYGLAIK 410

Query: 361 -----------------------------FDSMPSPSVSSWNAMLSSYSQSENHKEAIKL 391
                                        FD M      SWNA+++++ Q+    E + L
Sbjct: 411 SSLSLDVCVANAAIDMYGKCQALAEAFRVFDEMRRRDAVSWNAIIAAHEQNGKGYETLFL 470

Query: 392 FREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSK 451
           F  M    ++PD  T   IL +C   G L  G ++H++ +K+    ++ V   LI +YSK
Sbjct: 471 FVSMLRSRIEPDEFTFGSILKACTG-GSLGYGMEIHSSIVKSGMASNSSVGCSLIDMYSK 529

Query: 452 CQRNELAERVFHR----------IPELD----------IVCWNSMIAGLSLNSLDIEAFM 491
           C   E AE++  R          + EL+           V WNS+I+G  +     +A M
Sbjct: 530 CGMIEEAEKIHSRFFQRANVSGTMEELEKMHNKRLQEMCVSWNSIISGYVMKEQSEDAQM 589

Query: 492 FFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYC 551
            F +M +  + P +F++ATVL +CA L+S+  G+Q+HAQ+ K    +D+++ S L++MY 
Sbjct: 590 LFTRMMEMGITPDKFTYATVLDTCANLASAGLGKQIHAQVIKKELQSDVYICSTLVDMYS 649

Query: 552 KCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVA 611
           KCGD++ +R  F+    ++ VTWN MI GYA +G G+EA++L++ MI   +KP+ +TF++
Sbjct: 650 KCGDLHDSRLMFEKSLRRDFVTWNAMICGYAHHGKGEEAIQLFERMILENIKPNHVTFIS 709

Query: 612 ILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCK 671
           IL AC+H GL+D G+E F  M+ D+G++P L HY+ M+D LG++G    A  LI EMP +
Sbjct: 710 ILRACAHMGLIDKGLEYFYMMKRDYGLDPQLPHYSNMVDILGKSGKVKRALELIREMPFE 769

Query: 672 DDPVIWEVLLSSCRLHA-NVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAV 730
            D VIW  LL  C +H  NV +A+ A   L RLDP++S+ Y+LL+N+Y+  G W+ +  +
Sbjct: 770 ADDVIWRTLLGVCTIHRNNVEVAEEATAALLRLDPQDSSAYTLLSNVYADAGMWEKVSDL 829

Query: 731 RELMSENCIVKDPAYS 746
           R  M    + K+P  S
Sbjct: 830 RRNMRGFKLKKEPGCS 845

Arabidopsis thaliana (taxid: 3702)

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

 Score =  439 bits (1130), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 268/814 (32%), Positives = 411/814 (50%), Gaps = 92/814 (11%)

Query: 7   GKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCK 66
           G+ +H  +++ GL  +++    L+++Y+KC+    A+ +F+ +   +   W  + S   K
Sbjct: 179 GRQIHCSMIKMGLERNSYCGGALVDMYAKCDRISDARRVFEWIVDPNTVCWTCLFSGYVK 238

Query: 67  S--------------------DDLEF---------------AYKLFDEMPERNVVSWNNL 91
           +                    D L F               A  LF EM   +VV+WN +
Sbjct: 239 AGLPEEAVLVFERMRDEGHRPDHLAFVTVINTYIRLGKLKDARLLFGEMSSPDVVAWNVM 298

Query: 92  ISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGL 151
           IS   + G E  A+  +  M       T  TL SV  A   + +++ G   H   IK+GL
Sbjct: 299 ISGHGKRGCETVAIEYFFNMRKSSVKSTRSTLGSVLSAIGIVANLDLGLVVHAEAIKLGL 358

Query: 152 DKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRL 211
             NIYV ++L+S+Y+KC   + A  VFE + E N+V + AM+ G A      + +E+F  
Sbjct: 359 ASNIYVGSSLVSMYSKCEKMEAAAKVFEALEEKNDVFWNAMIRGYAHNGESHKVMELFMD 418

Query: 212 MIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEAD 271
           M     +ID  + +S+L  CA           A  D +      G Q H + IK     +
Sbjct: 419 MKSSGYNIDDFTFTSLLSTCA-----------ASHDLEM-----GSQFHSIIIKKKLAKN 462

Query: 272 LHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKS 331
           L + N+L+DMYAK G ++ A  IF  + +R  V+WN +I  Y Q    ++A +L +RM  
Sbjct: 463 LFVGNALVDMYAKCGALEDARQIFERMCDRDNVTWNTIIGSYVQDENESEAFDLFKRMNL 522

Query: 332 CGFEPDEVTSINMLVACV-----------------------------------RSGDIKT 356
           CG   D     + L AC                                    + G IK 
Sbjct: 523 CGIVSDGACLASTLKACTHVHGLYQGKQVHCLSVKCGLDRDLHTGSSLIDMYSKCGIIKD 582

Query: 357 GREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAA 416
            R++F S+P  SV S NA+++ YSQ+ N +EA+ LF+EM  RGV P   T A I+ +C  
Sbjct: 583 ARKVFSSLPEWSVVSMNALIAGYSQN-NLEEAVVLFQEMLTRGVNPSEITFATIVEACHK 641

Query: 417 MGILESGKQVHAASLKTA-SHIDNYVASGLIGIYSKCQRNELAERVFHRI--PELDIVCW 473
              L  G Q H    K   S    Y+   L+G+Y   +    A  +F  +  P+  IV W
Sbjct: 642 PESLTLGTQFHGQITKRGFSSEGEYLGISLLGMYMNSRGMTEACALFSELSSPK-SIVLW 700

Query: 474 NSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEK 533
             M++G S N    EA  F+K+MR + + P Q +F TVL  C+ LSS  +GR +H+ I  
Sbjct: 701 TGMMSGHSQNGFYEEALKFYKEMRHDGVLPDQATFVTVLRVCSVLSSLREGRAIHSLIFH 760

Query: 534 DGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGK-NTVTWNEMIHGYAQNGYGDEAVR 592
             +  D    + LI+MY KCGD+ G+ Q FD M  + N V+WN +I+GYA+NGY ++A++
Sbjct: 761 LAHDLDELTSNTLIDMYAKCGDMKGSSQVFDEMRRRSNVVSWNSLINGYAKNGYAEDALK 820

Query: 593 LYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCL 652
           ++  M  S + PD+ITF+ +LTACSH+G V  G +IF  M   +G+E  +DH  CM+D L
Sbjct: 821 IFDSMRQSHIMPDEITFLGVLTACSHAGKVSDGRKIFEMMIGQYGIEARVDHVACMVDLL 880

Query: 653 GRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYS 712
           GR G+  EA+  I+    K D  +W  LL +CR+H +    + +AE+L  L+P+NS+ Y 
Sbjct: 881 GRWGYLQEADDFIEAQNLKPDARLWSSLLGACRIHGDDIRGEISAEKLIELEPQNSSAYV 940

Query: 713 LLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
           LL+NIY+S G W+   A+R++M +  + K P YS
Sbjct: 941 LLSNIYASQGCWEKANALRKVMRDRGVKKVPGYS 974

Arabidopsis thaliana (taxid: 3702)

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

 Score =  421 bits (1081), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 241/772 (31%), Positives = 397/772 (51%), Gaps = 82/772 (10%)

Query: 10  LHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDD 69
           +HA IL  GL D T +CN LI+LYS+      A+ +FD +  KD                
Sbjct: 209 IHARILYQGLRDSTVVCNPLIDLYSRNGFVDLARRVFDGLRLKD---------------- 252

Query: 70  LEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKA 129
                            SW  +IS L +N  E +A+ ++  M   G +PT    +SV  A
Sbjct: 253 ---------------HSSWVAMISGLSKNECEAEAIRLFCDMYVLGIMPTPYAFSSVLSA 297

Query: 130 STALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTF 189
              +  +E G + HGLV+K+G   + YV NAL+SLY   G    A  +F  MS+ + VT+
Sbjct: 298 CKKIESLEIGEQLHGLVLKLGFSSDTYVCNALVSLYFHLGNLISAEHIFSNMSQRDAVTY 357

Query: 190 TAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNK 249
             +++GL++     +A+E+F+ M    +  DS +L+S++  C+ +G      +F      
Sbjct: 358 NTLINGLSQCGYGEKAMELFKRMHLDGLEPDSNTLASLVVACSADGT-----LF------ 406

Query: 250 FSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVM 309
                 GQQ+H  T KLGF ++  +  +LL++YAK  D+++A   F      +VV WNVM
Sbjct: 407 -----RGQQLHAYTTKLGFASNNKIEGALLNLYAKCADIETALDYFLETEVENVVLWNVM 461

Query: 310 IAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSM----- 364
           +  YG       +  + ++M+     P++ T  ++L  C+R GD++ G ++   +     
Sbjct: 462 LVAYGLLDDLRNSFRIFRQMQIEEIVPNQYTYPSILKTCIRLGDLELGEQIHSQIIKTNF 521

Query: 365 ------------------------------PSPSVSSWNAMLSSYSQSENHKEAIKLFRE 394
                                             V SW  M++ Y+Q     +A+  FR+
Sbjct: 522 QLNAYVCSVLIDMYAKLGKLDTAWDILIRFAGKDVVSWTTMIAGYTQYNFDDKALTTFRQ 581

Query: 395 MQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQR 454
           M  RG++ D   L   +S+CA +  L+ G+Q+HA +  +    D    + L+ +YS+C +
Sbjct: 582 MLDRGIRSDEVGLTNAVSACAGLQALKEGQQIHAQACVSGFSSDLPFQNALVTLYSRCGK 641

Query: 455 NELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSS 514
            E +   F +    D + WN++++G   +  + EA   F +M +  +    F+F + + +
Sbjct: 642 IEESYLAFEQTEAGDNIAWNALVSGFQQSGNNEEALRVFVRMNREGIDNNNFTFGSAVKA 701

Query: 515 CAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTW 574
            ++ ++  QG+QVHA I K GY ++  V +ALI MY KCG I  A + F  +  KN V+W
Sbjct: 702 ASETANMKQGKQVHAVITKTGYDSETEVCNALISMYAKCGSISDAEKQFLEVSTKNEVSW 761

Query: 575 NEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQL 634
           N +I+ Y+++G+G EA+  +  MI S V+P+ +T V +L+ACSH GLVD G+  F SM  
Sbjct: 762 NAIINAYSKHGFGSEALDSFDQMIHSNVRPNHVTLVGVLSACSHIGLVDKGIAYFESMNS 821

Query: 635 DHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAK 694
           ++G+ P  +HY C++D L RAG    A+  I EMP K D ++W  LLS+C +H N+ + +
Sbjct: 822 EYGLSPKPEHYVCVVDMLTRAGLLSRAKEFIQEMPIKPDALVWRTLLSACVVHKNMEIGE 881

Query: 695 RAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
            AA  L  L+P++SA Y LL+N+Y+   +WD     R+ M E  + K+P  S
Sbjct: 882 FAAHHLLELEPEDSATYVLLSNLYAVSKKWDARDLTRQKMKEKGVKKEPGQS 933

Arabidopsis thaliana (taxid: 3702)

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

 Score =  413 bits (1062), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 259/839 (30%), Positives = 413/839 (49%), Gaps = 136/839 (16%)

Query: 7   GKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCK 66
           GK  HA IL      + FL N LI +YSKC +                            
Sbjct: 58  GKCTHARILTFEENPERFLINNLISMYSKCGS---------------------------- 89

Query: 67  SDDLEFAYKLFDEMPERNVVSWNNLISALVRNG---LE--EKALSVYNKMSNEGFVPTHI 121
              L +A ++FD+MP+R++VSWN++++A  ++    +E  ++A  ++  +  +    + +
Sbjct: 90  ---LTYARRVFDKMPDRDLVSWNSILAAYAQSSECVVENIQQAFLLFRILRQDVVYTSRM 146

Query: 122 TLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEM 181
           TL+ + K       V      HG   KIGLD + +VA AL+++Y K G  K    +FEEM
Sbjct: 147 TLSPMLKLCLHSGYVWASESFHGYACKIGLDGDEFVAGALVNIYLKFGKVKEGKVLFEEM 206

Query: 182 SEPNEVTFTAMMSGLAKTDRVVEALEM---------------FRLMIRK----------- 215
              + V +  M+    +     EA+++                RL+ R            
Sbjct: 207 PYRDVVLWNLMLKAYLEMGFKEEAIDLSSAFHSSGLNPNEITLRLLARISGDDSDAGQVK 266

Query: 216 --AVSIDSVSLSSVL----GVCAREGCG------------VESDV---------FAQSDN 248
             A   D+ S+S ++    G+      G            VESDV            +  
Sbjct: 267 SFANGNDASSVSEIIFRNKGLSEYLHSGQYSALLKCFADMVESDVECDQVTFILMLATAV 326

Query: 249 KFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNV 308
           K      GQQVHC+ +KLG +  L +SNSL++MY K      A  +F N+ ER ++SWN 
Sbjct: 327 KVDSLALGQQVHCMALKLGLDLMLTVSNSLINMYCKLRKFGFARTVFDNMSERDLISWNS 386

Query: 309 MIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVA--------------------- 347
           +IAG  Q     +A+ L  ++  CG +PD+ T  ++L A                     
Sbjct: 387 VIAGIAQNGLEVEAVCLFMQLLRCGLKPDQYTMTSVLKAASSLPEGLSLSKQVHVHAIKI 446

Query: 348 --------------------CVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKE 387
                               C++  +I   R  FD      + +WNAM++ Y+QS +  +
Sbjct: 447 NNVSDSFVSTALIDAYSRNRCMKEAEILFERHNFD------LVAWNAMMAGYTQSHDGHK 500

Query: 388 AIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIG 447
            +KLF  M  +G + D  TLA +  +C  +  +  GKQVHA ++K+   +D +V+SG++ 
Sbjct: 501 TLKLFALMHKQGERSDDFTLATVFKTCGFLFAINQGKQVHAYAIKSGYDLDLWVSSGILD 560

Query: 448 IYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFS 507
           +Y KC     A+  F  IP  D V W +MI+G   N  +  AF  F QMR   + P +F+
Sbjct: 561 MYVKCGDMSAAQFAFDSIPVPDDVAWTTMISGCIENGEEERAFHVFSQMRLMGVLPDEFT 620

Query: 508 FATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMH 567
            AT+  + + L++  QGRQ+HA   K    ND FVG++L++MY KCG I  A   F  + 
Sbjct: 621 IATLAKASSCLTALEQGRQIHANALKLNCTNDPFVGTSLVDMYAKCGSIDDAYCLFKRIE 680

Query: 568 GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVE 627
             N   WN M+ G AQ+G G E ++L+K M + G+KPD +TF+ +L+ACSHSGLV    +
Sbjct: 681 MMNITAWNAMLVGLAQHGEGKETLQLFKQMKSLGIKPDKVTFIGVLSACSHSGLVSEAYK 740

Query: 628 IFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLH 687
              SM  D+G++P ++HY+C+ D LGRAG   +AE LI+ M  +    ++  LL++CR+ 
Sbjct: 741 HMRSMHGDYGIKPEIEHYSCLADALGRAGLVKQAENLIESMSMEASASMYRTLLAACRVQ 800

Query: 688 ANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
            +    KR A +L  L+P +S+ Y LL+N+Y++  +WD+++  R +M  + + KDP +S
Sbjct: 801 GDTETGKRVATKLLELEPLDSSAYVLLSNMYAAASKWDEMKLARTMMKGHKVKKDPGFS 859

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CA56|PP121_ARATH Pentatricopeptide repeat-containing protein At1g74600, chloroplastic OS=Arabidopsis thaliana GN=PCMP-E69 PE=2 SV=1

 Score =  410 bits (1054), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 235/724 (32%), Positives = 381/724 (52%), Gaps = 54/724 (7%)

Query: 58  NAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFV 117
           +A++    K+   E AYK+F +    NV  WN +I+  +RN        ++++M      
Sbjct: 189 SALIDVFSKNLRFEDAYKVFRDSLSANVYCWNTIIAGALRNQNYGAVFDLFHEMCVGFQK 248

Query: 118 PTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPV 177
           P   T +SV  A  +L  +  G+     VIK G + +++V  A++ LYAKCG    A+ V
Sbjct: 249 PDSYTYSSVLAACASLEKLRFGKVVQARVIKCGAE-DVFVCTAIVDLYAKCGHMAEAMEV 307

Query: 178 FEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCG 237
           F  +  P+ V++T M+SG  K++    ALE+F+ M    V I++ +++SV+  C R    
Sbjct: 308 FSRIPNPSVVSWTVMLSGYTKSNDAFSALEIFKEMRHSGVEINNCTVTSVISACGRPSMV 367

Query: 238 VESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSN 297
            E+                 QVH    K GF  D  ++ +L+ MY+K+GD+D +E +F +
Sbjct: 368 CEA----------------SQVHAWVFKSGFYLDSSVAAALISMYSKSGDIDLSEQVFED 411

Query: 298 LPE---RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINML--VACV--- 349
           L +   +++V  NVMI  + Q  +  KAI L  RM   G   DE +  ++L  + C+   
Sbjct: 412 LDDIQRQNIV--NVMITSFSQSKKPGKAIRLFTRMLQEGLRTDEFSVCSLLSVLDCLNLG 469

Query: 350 ---------------------------RSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQS 382
                                      + G ++   ++F  +P    + W +M+S +++ 
Sbjct: 470 KQVHGYTLKSGLVLDLTVGSSLFTLYSKCGSLEESYKLFQGIPFKDNACWASMISGFNEY 529

Query: 383 ENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVA 442
              +EAI LF EM   G  PD +TLA +L+ C++   L  GK++H  +L+        + 
Sbjct: 530 GYLREAIGLFSEMLDDGTSPDESTLAAVLTVCSSHPSLPRGKEIHGYTLRAGIDKGMDLG 589

Query: 443 SGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMY 502
           S L+ +YSKC   +LA +V+ R+PELD V  +S+I+G S + L  + F+ F+ M  +   
Sbjct: 590 SALVNMYSKCGSLKLARQVYDRLPELDPVSCSSLISGYSQHGLIQDGFLLFRDMVMSGFT 649

Query: 503 PTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQF 562
              F+ +++L + A    S  G QVHA I K G   +  VGS+L+ MY K G I    + 
Sbjct: 650 MDSFAISSILKAAALSDESSLGAQVHAYITKIGLCTEPSVGSSLLTMYSKFGSIDDCCKA 709

Query: 563 FDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLV 622
           F  ++G + + W  +I  YAQ+G  +EA+++Y  M   G KPD +TFV +L+ACSH GLV
Sbjct: 710 FSQINGPDLIAWTALIASYAQHGKANEALQVYNLMKEKGFKPDKVTFVGVLSACSHGGLV 769

Query: 623 DVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLS 682
           +      NSM  D+G+EP   HY CM+D LGR+G   EAE  I+ M  K D ++W  LL+
Sbjct: 770 EESYFHLNSMVKDYGIEPENRHYVCMVDALGRSGRLREAESFINNMHIKPDALVWGTLLA 829

Query: 683 SCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKD 742
           +C++H  V L K AA++   L+P ++  Y  L+NI + +G WD++   R+LM    + K+
Sbjct: 830 ACKIHGEVELGKVAAKKAIELEPSDAGAYISLSNILAEVGEWDEVEETRKLMKGTGVQKE 889

Query: 743 PAYS 746
           P +S
Sbjct: 890 PGWS 893

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SVA5|PP357_ARATH Pentatricopeptide repeat-containing protein At4g39530 OS=Arabidopsis thaliana GN=PCMP-E52 PE=1 SV=1

 Score =  409 bits (1051), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 249/786 (31%), Positives = 402/786 (51%), Gaps = 103/786 (13%)

Query: 9   LLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSD 68
           ++H  I+  GL  DT+L N LI LYS+                                 
Sbjct: 65  VVHGQIIVWGLELDTYLSNILINLYSRAGG------------------------------ 94

Query: 69  DLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKM-SNEGFVPTHITLASVF 127
            + +A K+F++MPERN+VSW+ ++SA   +G+ E++L V+ +        P    L+S  
Sbjct: 95  -MVYARKVFEKMPERNLVSWSTMVSACNHHGIYEESLVVFLEFWRTRKDSPNEYILSSFI 153

Query: 128 KASTALLDVEHGR----RCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSE 183
           +A + L     GR    +    ++K G D+++YV   L+  Y K G   +A  VF+ + E
Sbjct: 154 QACSGLDG--RGRWMVFQLQSFLVKSGFDRDVYVGTLLIDFYLKDGNIDYARLVFDALPE 211

Query: 184 PNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCA----REGCGVE 239
            + VT+T M+SG  K  R   +L++F  ++   V  D   LS+VL  C+     EG    
Sbjct: 212 KSTVTWTTMISGCVKMGRSYVSLQLFYQLMEDNVVPDGYILSTVLSACSILPFLEG---- 267

Query: 240 SDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLP 299
                           G+Q+H   ++ G E D  L N L+D Y K G + +A  +F+ +P
Sbjct: 268 ----------------GKQIHAHILRYGLEMDASLMNVLIDSYVKCGRVIAAHKLFNGMP 311

Query: 300 ERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVAC----------- 348
            ++++SW  +++GY Q     +A+EL   M   G +PD     ++L +C           
Sbjct: 312 NKNIISWTTLLSGYKQNALHKEAMELFTSMSKFGLKPDMYACSSILTSCASLHALGFGTQ 371

Query: 349 VRSGDIKT------------------------GREMFDSMPSPSVSSWNAMLSSYS---- 380
           V +  IK                          R++FD   +  V  +NAM+  YS    
Sbjct: 372 VHAYTIKANLGNDSYVTNSLIDMYAKCDCLTDARKVFDIFAAADVVLFNAMIEGYSRLGT 431

Query: 381 QSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNY 440
           Q E H EA+ +FR+M+FR ++P   T   +L + A++  L   KQ+H    K   ++D +
Sbjct: 432 QWELH-EALNIFRDMRFRLIRPSLLTFVSLLRASASLTSLGLSKQIHGLMFKYGLNLDIF 490

Query: 441 VASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNE 500
             S LI +YS C   + +  VF  +   D+V WNSM AG    S + EA   F +++ + 
Sbjct: 491 AGSALIDVYSNCYCLKDSRLVFDEMKVKDLVIWNSMFAGYVQQSENEEALNLFLELQLSR 550

Query: 501 MYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGAR 560
             P +F+FA ++++   L+S   G++ H Q+ K G   + ++ +AL++MY KCG    A 
Sbjct: 551 ERPDEFTFANMVTAAGNLASVQLGQEFHCQLLKRGLECNPYITNALLDMYAKCGSPEDAH 610

Query: 561 QFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSG 620
           + FD    ++ V WN +I  YA +G G +A+++ + M++ G++P+ ITFV +L+ACSH+G
Sbjct: 611 KAFDSAASRDVVCWNSVISSYANHGEGKKALQMLEKMMSEGIEPNYITFVGVLSACSHAG 670

Query: 621 LVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVL 680
           LV+ G++ F  M L  G+EP  +HY CM+  LGRAG  ++A  LI++MP K   ++W  L
Sbjct: 671 LVEDGLKQFELM-LRFGIEPETEHYVCMVSLLGRAGRLNKARELIEKMPTKPAAIVWRSL 729

Query: 681 LSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIV 740
           LS C    NV LA+ AAE     DPK+S  +++L+NIY+S G W + + VRE M    +V
Sbjct: 730 LSGCAKAGNVELAEHAAEMAILSDPKDSGSFTMLSNIYASKGMWTEAKKVRERMKVEGVV 789

Query: 741 KDPAYS 746
           K+P  S
Sbjct: 790 KEPGRS 795

Arabidopsis thaliana (taxid: 3702)

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

 Score =  404 bits (1038), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 238/713 (33%), Positives = 381/713 (53%), Gaps = 72/713 (10%)

Query: 88  WNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVI 147
           W +L+ + VR+ L  +A+  Y  M   G  P +    ++ KA   L D+E G++ H  V 
Sbjct: 65  WIDLLRSKVRSNLLREAVLTYVDMIVLGIKPDNYAFPALLKAVADLQDMELGKQIHAHVY 124

Query: 148 KIGLD-KNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEAL 206
           K G    ++ VAN L++LY KCG       VF+ +SE N+V++ +++S L   ++   AL
Sbjct: 125 KFGYGVDSVTVANTLVNLYRKCGDFGAVYKVFDRISERNQVSWNSLISSLCSFEKWEMAL 184

Query: 207 EMFRLMIRKAVSIDSVSLSSVLGVCAR----EGCGVESDVFAQSDNKFSRNVHGQQVHCL 262
           E FR M+ + V   S +L SV+  C+     EG                  + G+QVH  
Sbjct: 185 EAFRCMLDENVEPSSFTLVSVVTACSNLPMPEGL-----------------MMGKQVHAY 227

Query: 263 TIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKA 322
            ++ G E +  + N+L+ MY K G + S++V+  +   R +V+WN +++   Q  Q  +A
Sbjct: 228 GLRKG-ELNSFIINTLVAMYGKLGKLASSKVLLGSFGGRDLVTWNTVLSSLCQNEQLLEA 286

Query: 323 IELLQRMKSCGFEPDEVTSINMLVAC-----VRSG------------------------- 352
           +E L+ M   G EPDE T  ++L AC     +R+G                         
Sbjct: 287 LEYLREMVLEGVEPDEFTISSVLPACSHLEMLRTGKELHAYALKNGSLDENSFVGSALVD 346

Query: 353 ------DIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQ-FRGVKPDRT 405
                  + +GR +FD M    +  WNAM++ YSQ+E+ KEA+ LF  M+   G+  + T
Sbjct: 347 MYCNCKQVLSGRRVFDGMFDRKIGLWNAMIAGYSQNEHDKEALLLFIGMEESAGLLANST 406

Query: 406 TLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRI 465
           T+A ++ +C   G     + +H   +K     D +V + L+ +YS+  + ++A R+F ++
Sbjct: 407 TMAGVVPACVRSGAFSRKEAIHGFVVKRGLDRDRFVQNTLMDMYSRLGKIDIAMRIFGKM 466

Query: 466 PELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNE-----------MYPTQFSFATVLSS 514
            + D+V WN+MI G   +    +A +   +M+  E           + P   +  T+L S
Sbjct: 467 EDRDLVTWNTMITGYVFSEHHEDALLLLHKMQNLERKVSKGASRVSLKPNSITLMTILPS 526

Query: 515 CAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTW 574
           CA LS+  +G+++HA   K+    D+ VGSAL++MY KCG +  +R+ FD +  KN +TW
Sbjct: 527 CAALSALAKGKEIHAYAIKNNLATDVAVGSALVDMYAKCGCLQMSRKVFDQIPQKNVITW 586

Query: 575 NEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQL 634
           N +I  Y  +G G EA+ L + M+  GVKP+++TF+++  ACSHSG+VD G+ IF  M+ 
Sbjct: 587 NVIIMAYGMHGNGQEAIDLLRMMMVQGVKPNEVTFISVFAACSHSGMVDEGLRIFYVMKP 646

Query: 635 DHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCK-DDPVIWEVLLSSCRLHANVRLA 693
           D+GVEP  DHY C++D LGRAG   EA  L++ MP   +    W  LL + R+H N+ + 
Sbjct: 647 DYGVEPSSDHYACVVDLLGRAGRIKEAYQLMNMMPRDFNKAGAWSSLLGASRIHNNLEIG 706

Query: 694 KRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
           + AA+ L +L+P  ++ Y LLANIYSS G WD    VR  M E  + K+P  S
Sbjct: 707 EIAAQNLIQLEPNVASHYVLLANIYSSAGLWDKATEVRRNMKEQGVRKEPGCS 759

Arabidopsis thaliana (taxid: 3702)

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

 Score =  401 bits (1030), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 239/730 (32%), Positives = 370/730 (50%), Gaps = 65/730 (8%)

Query: 35  KCNNTHSAQHLFDKMPHKDIYSWNA---ILSAQCKSDDLEFAYKLFDEMP--ERNVVSWN 89
           KC      + +  K+    I + N    ++S       L  A  L    P  +  V  WN
Sbjct: 37  KCKTISQVKLIHQKLLSFGILTLNLTSHLISTYISVGCLSHAVSLLRRFPPSDAGVYHWN 96

Query: 90  NLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKI 149
           +LI +   NG   K L ++  M +  + P + T   VFKA   +  V  G   H L +  
Sbjct: 97  SLIRSYGDNGCANKCLYLFGLMHSLSWTPDNYTFPFVFKACGEISSVRCGESAHALSLVT 156

Query: 150 GLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMF 209
           G   N++V NAL+++Y++C     A  VF+EMS  + V++ +++   AK  +   ALEMF
Sbjct: 157 GFISNVFVGNALVAMYSRCRSLSDARKVFDEMSVWDVVSWNSIIESYAKLGKPKVALEMF 216

Query: 210 RLMIRK-AVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGF 268
             M  +     D+++L +VL  CA  G                 +  G+Q+HC  +    
Sbjct: 217 SRMTNEFGCRPDNITLVNVLPPCASLG----------------THSLGKQLHCFAVTSEM 260

Query: 269 EADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQR 328
             ++ + N L+DMYAK G MD A  +FSN+  + VVSWN M+AGY Q  +   A+ L ++
Sbjct: 261 IQNMFVGNCLVDMYAKCGMMDEANTVFSNMSVKDVVSWNAMVAGYSQIGRFEDAVRLFEK 320

Query: 329 MKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEA 388
           M+    + D VT                               W+A +S Y+Q     EA
Sbjct: 321 MQEEKIKMDVVT-------------------------------WSAAISGYAQRGLGYEA 349

Query: 389 IKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHI-------DNYV 441
           + + R+M   G+KP+  TL  +LS CA++G L  GK++H  ++K    +       +N V
Sbjct: 350 LGVCRQMLSSGIKPNEVTLISVLSGCASVGALMHGKEIHCYAIKYPIDLRKNGHGDENMV 409

Query: 442 ASGLIGIYSKCQRNELAERVFHRI--PELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQN 499
            + LI +Y+KC++ + A  +F  +   E D+V W  MI G S +    +A     +M + 
Sbjct: 410 INQLIDMYAKCKKVDTARAMFDSLSPKERDVVTWTVMIGGYSQHGDANKALELLSEMFEE 469

Query: 500 --EMYPTQFSFATVLSSCAKLSSSFQGRQVHA-QIEKDGYVNDIFVGSALIEMYCKCGDI 556
             +  P  F+ +  L +CA L++   G+Q+HA  +        +FV + LI+MY KCG I
Sbjct: 470 DCQTRPNAFTISCALVACASLAALRIGKQIHAYALRNQQNAVPLFVSNCLIDMYAKCGSI 529

Query: 557 YGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTAC 616
             AR  FD M  KN VTW  ++ GY  +GYG+EA+ ++ +M   G K D +T + +L AC
Sbjct: 530 SDARLVFDNMMAKNEVTWTSLMTGYGMHGYGEEALGIFDEMRRIGFKLDGVTLLVVLYAC 589

Query: 617 SHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVI 676
           SHSG++D G+E FN M+   GV P  +HY C++D LGRAG  + A  LI+EMP +  PV+
Sbjct: 590 SHSGMIDQGMEYFNRMKTVFGVSPGPEHYACLVDLLGRAGRLNAALRLIEEMPMEPPPVV 649

Query: 677 WEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE 736
           W   LS CR+H  V L + AAE++  L   +   Y+LL+N+Y++ GRW D+  +R LM  
Sbjct: 650 WVAFLSCCRIHGKVELGEYAAEKITELASNHDGSYTLLSNLYANAGRWKDVTRIRSLMRH 709

Query: 737 NCIVKDPAYS 746
             + K P  S
Sbjct: 710 KGVKKRPGCS 719

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WN60|PPR48_ARATH Pentatricopeptide repeat-containing protein At1g18485 OS=Arabidopsis thaliana GN=PCMP-H8 PE=2 SV=2

 Score =  392 bits (1008), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 236/772 (30%), Positives = 394/772 (51%), Gaps = 92/772 (11%)

Query: 19  LFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFD 78
           L +D  LC R+I +Y+ C +                             DD  F   +FD
Sbjct: 116 LRNDDVLCTRIITMYAMCGS----------------------------PDDSRF---VFD 144

Query: 79  EMPERNVVSWNNLISALVRNGLEEKALSVYNKM-SNEGFVPTHITLASVFKASTALLDVE 137
            +  +N+  WN +IS+  RN L ++ L  + +M S    +P H T   V KA   + DV 
Sbjct: 145 ALRSKNLFQWNAVISSYSRNELYDEVLETFIEMISTTDLLPDHFTYPCVIKACAGMSDVG 204

Query: 138 HGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLA 197
            G   HGLV+K GL ++++V NAL+S Y   G+   A+ +F+ M E N V++ +M+   +
Sbjct: 205 IGLAVHGLVVKTGLVEDVFVGNALVSFYGTHGFVTDALQLFDIMPERNLVSWNSMIRVFS 264

Query: 198 KTDRVVEALEMFRLMIRK----AVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRN 253
                 E+  +   M+ +    A   D  +L +VL VCARE                 R 
Sbjct: 265 DNGFSEESFLLLGEMMEENGDGAFMPDVATLVTVLPVCARE-----------------RE 307

Query: 254 VH-GQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAG 312
           +  G+ VH   +KL  + +L L+N+L+DMY+K G + +A++IF     ++VVSWN M+ G
Sbjct: 308 IGLGKGVHGWAVKLRLDKELVLNNALMDMYSKCGCITNAQMIFKMNNNKNVVSWNTMVGG 367

Query: 313 YGQKYQSTKAIELLQRMKSCG--FEPDEVTSINMLVAC---------------------- 348
           +  +  +    ++L++M + G   + DEVT +N +  C                      
Sbjct: 368 FSAEGDTHGTFDVLRQMLAGGEDVKADEVTILNAVPVCFHESFLPSLKELHCYSLKQEFV 427

Query: 349 -------------VRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREM 395
                         + G +   + +F  + S +V+SWNA++  ++QS + + ++    +M
Sbjct: 428 YNELVANAFVASYAKCGSLSYAQRVFHGIRSKTVNSWNALIGGHAQSNDPRLSLDAHLQM 487

Query: 396 QFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRN 455
           +  G+ PD  T+  +LS+C+ +  L  GK+VH   ++     D +V   ++ +Y  C   
Sbjct: 488 KISGLLPDSFTVCSLLSACSKLKSLRLGKEVHGFIIRNWLERDLFVYLSVLSLYIHCGEL 547

Query: 456 ELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSC 515
              + +F  + +  +V WN++I G   N     A   F+QM    +     S   V  +C
Sbjct: 548 CTVQALFDAMEDKSLVSWNTVITGYLQNGFPDRALGVFRQMVLYGIQLCGISMMPVFGAC 607

Query: 516 AKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWN 575
           + L S   GR+ HA   K    +D F+  +LI+MY K G I  + + F+ +  K+T +WN
Sbjct: 608 SLLPSLRLGREAHAYALKHLLEDDAFIACSLIDMYAKNGSITQSSKVFNGLKEKSTASWN 667

Query: 576 EMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLD 635
            MI GY  +G   EA++L+++M  +G  PDD+TF+ +LTAC+HSGL+  G+   + M+  
Sbjct: 668 AMIMGYGIHGLAKEAIKLFEEMQRTGHNPDDLTFLGVLTACNHSGLIHEGLRYLDQMKSS 727

Query: 636 HGVEPILDHYTCMIDCLGRAGHFHEA-EMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAK 694
            G++P L HY C+ID LGRAG   +A  ++ +EM  + D  IW+ LLSSCR+H N+ + +
Sbjct: 728 FGLKPNLKHYACVIDMLGRAGQLDKALRVVAEEMSEEADVGIWKSLLSSCRIHQNLEMGE 787

Query: 695 RAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
           + A +LF L+P+    Y LL+N+Y+ LG+W+D+R VR+ M+E  + KD   S
Sbjct: 788 KVAAKLFELEPEKPENYVLLSNLYAGLGKWEDVRKVRQRMNEMSLRKDAGCS 839

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	748
359483750	847	PREDICTED: pentatricopeptide repeat-cont	0.994	0.878	0.714	0.0
297740913	768	unnamed protein product [Vitis vinifera]	0.955	0.930	0.687	0.0
356495733	770	PREDICTED: pentatricopeptide repeat-cont	0.987	0.959	0.632	0.0
357481329	831	Pentatricopeptide repeat-containing prot	0.990	0.891	0.631	0.0
334186756	774	pentatricopeptide repeat-containing prot	0.986	0.953	0.548	0.0
297799986	760	predicted protein [Arabidopsis lyrata su	0.966	0.951	0.556	0.0
255586231	617	pentatricopeptide repeat-containing prot	0.799	0.969	0.693	0.0
5262217	740	putative protein [Arabidopsis thaliana]	0.963	0.974	0.553	0.0
357136755	805	PREDICTED: pentatricopeptide repeat-cont	0.969	0.900	0.526	0.0
49387750	803	putative pentatricopeptide (PPR) repeat-	0.957	0.891	0.521	0.0

>gi|359483750|ref|XP_002269533.2| PREDICTED: pentatricopeptide repeat-containing protein At4g20770-like [Vitis vinifera]

 Score = 1119 bits (2895), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 533/746 (71%), Positives = 622/746 (83%), Gaps = 2/746 (0%)

Query: 1   KKAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAI 60
           KKAH+AGKL+HAH+LR+ L DDTFL NRLIE Y+KCN   +++ LFD+MP +DIY+WNAI
Sbjct: 18  KKAHLAGKLIHAHMLRSRLSDDTFLSNRLIEFYAKCNAIDASRRLFDQMPKRDIYTWNAI 77

Query: 61  LSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTH 120
           L A CK+ +LE A+ LF EMPERN+VSWN LISAL RNG E+KAL VY +MS EGFVPTH
Sbjct: 78  LGAYCKASELEDAHVLFAEMPERNIVSWNTLISALTRNGFEQKALGVYYRMSREGFVPTH 137

Query: 121 ITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEE 180
            TLASV  A  AL+DVE GRRCHG+ IKIGLD NIYV NALL +YAKC     A+  F +
Sbjct: 138 FTLASVLSACGALVDVECGRRCHGISIKIGLDNNIYVGNALLGMYAKCRCIGDAIQAFGD 197

Query: 181 MSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVES 240
           + EPNEV+FTAMM GLA +D+V EA  +FRLM+R  + +DSVSLSSVLGVC+R GCG   
Sbjct: 198 VPEPNEVSFTAMMGGLADSDQVNEAFRLFRLMLRNRIHVDSVSLSSVLGVCSRGGCGEFG 257

Query: 241 DVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPE 300
                S++  S +VHGQQVHCLTIK GFE+DLHL+NSLLDMYAKNG+MDSAE+IF N+PE
Sbjct: 258 --LHDSNDVLSSDVHGQQVHCLTIKHGFESDLHLNNSLLDMYAKNGNMDSAEMIFVNMPE 315

Query: 301 RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREM 360
            SVVSWNVMIAGYGQK QS+KAIE LQRM+  GFEPDE+T +NMLVAC++SGDI+ GR+M
Sbjct: 316 VSVVSWNVMIAGYGQKSQSSKAIEYLQRMQYHGFEPDEITYVNMLVACIKSGDIEAGRQM 375

Query: 361 FDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGIL 420
           FD M SPS+SSWN +LS YSQ+ENHKEA+KLFREMQFR V PDRTTLAIILSS A M +L
Sbjct: 376 FDGMSSPSLSSWNTILSGYSQNENHKEAVKLFREMQFRSVHPDRTTLAIILSSLAGMMLL 435

Query: 421 ESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGL 480
           E G+QVHA S K     D Y+ASGLIG+YSKC + E+A+R+F RI ELDIVCWNSM+AGL
Sbjct: 436 EGGRQVHAVSQKAVFRTDIYLASGLIGMYSKCGKVEMAKRIFDRIAELDIVCWNSMMAGL 495

Query: 481 SLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDI 540
           SLNSLD EAF FFK+MR+  M+P+QFS+ATVLS CAKLSS  QGRQVH+QI ++GY+ND 
Sbjct: 496 SLNSLDKEAFTFFKKMREKGMFPSQFSYATVLSCCAKLSSLSQGRQVHSQIAREGYMNDA 555

Query: 541 FVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS 600
           FVGSALI+MY KCGD+  AR  FDMM GKNTVTWNEMIHGYAQNG GDEAV LY+DMI S
Sbjct: 556 FVGSALIDMYSKCGDVDAARWVFDMMLGKNTVTWNEMIHGYAQNGCGDEAVLLYEDMIGS 615

Query: 601 GVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHE 660
           G KPD ITFVA+LTACSHSGLVD G++IFNSMQ +HGVEP++DHYTC+ID LGRAG  HE
Sbjct: 616 GEKPDGITFVAVLTACSHSGLVDTGIKIFNSMQQEHGVEPLVDHYTCIIDSLGRAGRLHE 675

Query: 661 AEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS 720
           AE+LID+MPCK DP+IWEVLLSSCR++A+V LA+RAAEELF LDP+NSAPY LLANIYSS
Sbjct: 676 AEVLIDKMPCKYDPIIWEVLLSSCRVYADVSLARRAAEELFHLDPQNSAPYVLLANIYSS 735

Query: 721 LGRWDDLRAVRELMSENCIVKDPAYS 746
           LGRWDD +AVRELMS N +VKDP YS
Sbjct: 736 LGRWDDAKAVRELMSYNQVVKDPGYS 761

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297740913|emb|CBI31095.3| unnamed protein product [Vitis vinifera]

 Score = 1063 bits (2749), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 513/746 (68%), Positives = 600/746 (80%), Gaps = 31/746 (4%)

Query: 1   KKAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAI 60
           KKAH+AGKL+HAH+LR+ L DDTFL NRLIE Y+KCN   +++ LFD+MP +DIY+WNAI
Sbjct: 18  KKAHLAGKLIHAHMLRSRLSDDTFLSNRLIEFYAKCNAIDASRRLFDQMPKRDIYTWNAI 77

Query: 61  LSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTH 120
           L A CK+ +LE A+ LF EMPERN+VSWN LISAL RNG                     
Sbjct: 78  LGAYCKASELEDAHVLFAEMPERNIVSWNTLISALTRNG--------------------- 116

Query: 121 ITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEE 180
                   A  AL+DVE GRRCHG+ IKIGLD NIYV NALL +YAKC     A+  F +
Sbjct: 117 --------ACGALVDVECGRRCHGISIKIGLDNNIYVGNALLGMYAKCRCIGDAIQAFGD 168

Query: 181 MSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVES 240
           + EPNEV+FTAMM GLA +D+V EA  +FRLM+R  + +DSVSLSSVLGVC+R GCG   
Sbjct: 169 VPEPNEVSFTAMMGGLADSDQVNEAFRLFRLMLRNRIHVDSVSLSSVLGVCSRGGCGEFG 228

Query: 241 DVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPE 300
                S++  S +VHGQQVHCLTIK GFE+DLHL+NSLLDMYAKNG+MDSAE+IF N+PE
Sbjct: 229 --LHDSNDVLSSDVHGQQVHCLTIKHGFESDLHLNNSLLDMYAKNGNMDSAEMIFVNMPE 286

Query: 301 RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREM 360
            SVVSWNVMIAGYGQK QS+KAIE LQRM+  GFEPDE+T +NMLVAC++SGDI+ GR+M
Sbjct: 287 VSVVSWNVMIAGYGQKSQSSKAIEYLQRMQYHGFEPDEITYVNMLVACIKSGDIEAGRQM 346

Query: 361 FDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGIL 420
           FD M SPS+SSWN +LS YSQ+ENHKEA+KLFREMQFR V PDRTTLAIILSS A M +L
Sbjct: 347 FDGMSSPSLSSWNTILSGYSQNENHKEAVKLFREMQFRSVHPDRTTLAIILSSLAGMMLL 406

Query: 421 ESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGL 480
           E G+QVHA S K     D Y+ASGLIG+YSKC + E+A+R+F RI ELDIVCWNSM+AGL
Sbjct: 407 EGGRQVHAVSQKAVFRTDIYLASGLIGMYSKCGKVEMAKRIFDRIAELDIVCWNSMMAGL 466

Query: 481 SLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDI 540
           SLNSLD EAF FFK+MR+  M+P+QFS+ATVLS CAKLSS  QGRQVH+QI ++GY+ND 
Sbjct: 467 SLNSLDKEAFTFFKKMREKGMFPSQFSYATVLSCCAKLSSLSQGRQVHSQIAREGYMNDA 526

Query: 541 FVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS 600
           FVGSALI+MY KCGD+  AR  FDMM GKNTVTWNEMIHGYAQNG GDEAV LY+DMI S
Sbjct: 527 FVGSALIDMYSKCGDVDAARWVFDMMLGKNTVTWNEMIHGYAQNGCGDEAVLLYEDMIGS 586

Query: 601 GVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHE 660
           G KPD ITFVA+LTACSHSGLVD G++IFNSMQ +HGVEP++DHYTC+ID LGRAG  HE
Sbjct: 587 GEKPDGITFVAVLTACSHSGLVDTGIKIFNSMQQEHGVEPLVDHYTCIIDSLGRAGRLHE 646

Query: 661 AEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS 720
           AE+LID+MPCK DP+IWEVLLSSCR++A+V LA+RAAEELF LDP+NSAPY LLANIYSS
Sbjct: 647 AEVLIDKMPCKYDPIIWEVLLSSCRVYADVSLARRAAEELFHLDPQNSAPYVLLANIYSS 706

Query: 721 LGRWDDLRAVRELMSENCIVKDPAYS 746
           LGRWDD +AVRELMS N +VKDP YS
Sbjct: 707 LGRWDDAKAVRELMSYNQVVKDPGYS 732

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356495733|ref|XP_003516728.1| PREDICTED: pentatricopeptide repeat-containing protein At4g20770-like [Glycine max]

 Score =  999 bits (2583), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 471/745 (63%), Positives = 595/745 (79%), Gaps = 6/745 (0%)

Query: 2   KAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAIL 61
           KAH++GK++HA + R  LF DTFL N  IELYSKC++  SA H+FD +PHK+I+SWNAIL
Sbjct: 20  KAHLSGKVVHARLFRLALFSDTFLSNHFIELYSKCDHIASACHVFDNIPHKNIFSWNAIL 79

Query: 62  SAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHI 121
           +A CK+ +L++A +LF +MP+RN VS N LIS +VR G E +AL  Y+ +  +G +P+HI
Sbjct: 80  AAYCKARNLQYACRLFLQMPQRNTVSLNTLISTMVRCGYERQALDTYDSVMLDGVIPSHI 139

Query: 122 TLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEM 181
           T A+VF A  +LLD + GRR HG+VIK+GL+ NIYV NALL +YAKCG    A+ VF ++
Sbjct: 140 TFATVFSACGSLLDADCGRRTHGVVIKVGLESNIYVVNALLCMYAKCGLNADALRVFRDI 199

Query: 182 SEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESD 241
            EPNEVTFT MM GLA+T+++ EA E+FRLM+RK + +DSVSLSS+LGVCA+     E D
Sbjct: 200 PEPNEVTFTTMMGGLAQTNQIKEAAELFRLMLRKGIRVDSVSLSSMLGVCAKG----ERD 255

Query: 242 VFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPER 301
           V     +  S N  G+Q+H L++KLGFE DLHL NSLLDMYAK GDMDSAE +F NL   
Sbjct: 256 V--GPCHGISTNAQGKQMHTLSVKLGFERDLHLCNSLLDMYAKIGDMDSAEKVFVNLNRH 313

Query: 302 SVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMF 361
           SVVSWN+MIAGYG +  S KA E LQRM+S G+EPD+VT INML ACV+SGD++TGR++F
Sbjct: 314 SVVSWNIMIAGYGNRCNSEKAAEYLQRMQSDGYEPDDVTYINMLTACVKSGDVRTGRQIF 373

Query: 362 DSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILE 421
           D MP PS++SWNA+LS Y+Q+ +H+EA++LFR+MQF+   PDRTTLA+ILSSCA +G LE
Sbjct: 374 DCMPCPSLTSWNAILSGYNQNADHREAVELFRKMQFQCQHPDRTTLAVILSSCAELGFLE 433

Query: 422 SGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLS 481
           +GK+VHAAS K   + D YVAS LI +YSKC + EL++ VF ++PELD+VCWNSM+AG S
Sbjct: 434 AGKEVHAASQKFGFYDDVYVASSLINVYSKCGKMELSKHVFSKLPELDVVCWNSMLAGFS 493

Query: 482 LNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIF 541
           +NSL  +A  FFK+MRQ   +P++FSFATV+SSCAKLSS FQG+Q HAQI KDG+++DIF
Sbjct: 494 INSLGQDALSFFKKMRQLGFFPSEFSFATVVSSCAKLSSLFQGQQFHAQIVKDGFLDDIF 553

Query: 542 VGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASG 601
           VGS+LIEMYCKCGD+ GAR FFD+M G+NTVTWNEMIHGYAQNG G  A+ LY DMI+SG
Sbjct: 554 VGSSLIEMYCKCGDVNGARCFFDVMPGRNTVTWNEMIHGYAQNGDGHNALCLYNDMISSG 613

Query: 602 VKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEA 661
            KPDDIT+VA+LTACSHS LVD G+EIFN+M   +GV P + HYTC+IDCL RAG F+E 
Sbjct: 614 EKPDDITYVAVLTACSHSALVDEGLEIFNAMLQKYGVVPKVAHYTCIIDCLSRAGRFNEV 673

Query: 662 EMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSL 721
           E+++D MPCKDD V+WEV+LSSCR+HAN+ LAKRAAEEL+RLDP+NSA Y LLAN+YSSL
Sbjct: 674 EVILDAMPCKDDAVVWEVVLSSCRIHANLSLAKRAAEELYRLDPQNSASYVLLANMYSSL 733

Query: 722 GRWDDLRAVRELMSENCIVKDPAYS 746
           G+WDD   VR+LMS N + KDP YS
Sbjct: 734 GKWDDAHVVRDLMSHNQVRKDPGYS 758

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357481329|ref|XP_003610950.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355512285|gb|AES93908.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  989 bits (2558), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 471/746 (63%), Positives = 585/746 (78%), Gaps = 5/746 (0%)

Query: 2   KAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAIL 61
           K+  + K++HA I R  LF DTFLCN LI+LYSKCN   SA H+FDK+PHK+I+S+NAIL
Sbjct: 19  KSLSSAKIIHARIFRFTLFSDTFLCNHLIDLYSKCNQITSAHHVFDKIPHKNIFSYNAIL 78

Query: 62  SAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYN-KMSNEGFVPTH 120
           SA CKS++L++A +LF +MPERN VS N +I+ +V+NG E +AL  Y+  M  E   P+H
Sbjct: 79  SAFCKSNNLQYACRLFLQMPERNTVSLNTIITTMVKNGYERQALDTYDLMMVYESVKPSH 138

Query: 121 ITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEE 180
           IT A+VF A   L DV  GRR HGLV+K+G D NIYV+NALL +Y KCG  + A  VFE 
Sbjct: 139 ITFATVFSACGGLKDVNCGRRNHGLVLKVGFDSNIYVSNALLCMYTKCGLNEDAFRVFEG 198

Query: 181 MSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVES 240
           + EPNEVTFT MM GL++T++V E LE+FRLM+RK + +DSVSLS++L +CA+   GV  
Sbjct: 199 IVEPNEVTFTTMMGGLSQTNQVKEGLELFRLMLRKGICVDSVSLSTILVICAK---GVSF 255

Query: 241 DVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPE 300
            V   S    S N  G+Q+H L +K GFE DLHL NSLLDMYAK GDMDSAE +F NL +
Sbjct: 256 GVCDDS-RGLSTNAQGKQIHTLAVKHGFERDLHLCNSLLDMYAKTGDMDSAENVFENLDK 314

Query: 301 RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREM 360
            SVVSWN+MI+GYG +  S KA+E  QRM+ CG+EPD+VT INML ACV+SGD+K GR++
Sbjct: 315 HSVVSWNIMISGYGNRCDSEKALECFQRMQCCGYEPDDVTYINMLTACVKSGDVKVGRQI 374

Query: 361 FDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGIL 420
           FD M SPS+ SWNA+LS Y+QS +H EA++LFR+MQF+   PDRTTLAIILSSCA +G+L
Sbjct: 375 FDCMSSPSLISWNAILSGYNQSADHGEAVELFRKMQFQWQNPDRTTLAIILSSCAELGLL 434

Query: 421 ESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGL 480
           E+GKQVHA S K   + D YVAS LI +YSKC + E+++ VF ++ ELD+VCWNSMIAG 
Sbjct: 435 EAGKQVHAVSQKLGFYDDVYVASSLINVYSKCGKMEVSKHVFSKLSELDVVCWNSMIAGF 494

Query: 481 SLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDI 540
           S+NSL+ +A   FK+MRQ   +P++FSFAT+ SSCAKLSS FQG+Q+HAQI KDGYV+++
Sbjct: 495 SINSLEQDALACFKRMRQFGFFPSEFSFATIASSCAKLSSLFQGQQIHAQIIKDGYVDNV 554

Query: 541 FVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS 600
           FVGS+L+EMYCKCGD+  AR +FDMM GKN VTWNEMIHGYA NGYG EAV LYKDMI+S
Sbjct: 555 FVGSSLVEMYCKCGDVGAARYYFDMMPGKNIVTWNEMIHGYAHNGYGLEAVSLYKDMISS 614

Query: 601 GVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHE 660
           G KPDDITFVA+LTACSHS LVD GVEIF+SM     V P LDHYTC+IDCLGR G F+E
Sbjct: 615 GEKPDDITFVAVLTACSHSALVDEGVEIFSSMLQKFEVVPKLDHYTCIIDCLGRVGRFNE 674

Query: 661 AEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS 720
            E+++D MP KDD ++WEV+LSSCR+HANV LAKRAAEEL RL+P+NSAPY LLAN+YSS
Sbjct: 675 VEVILDTMPYKDDTIVWEVVLSSCRVHANVSLAKRAAEELHRLNPRNSAPYVLLANMYSS 734

Query: 721 LGRWDDLRAVRELMSENCIVKDPAYS 746
           +GRWDD + VR+LMS+N I KDP YS
Sbjct: 735 MGRWDDAQVVRDLMSDNQIHKDPGYS 760

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334186756|ref|NP_193809.2| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|223635629|sp|Q9SVH0.2|PP329_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At4g20770 gi|332658959|gb|AEE84359.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  872 bits (2254), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 411/750 (54%), Positives = 560/750 (74%), Gaps = 12/750 (1%)

Query: 1   KKAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAI 60
           ++  ++GK++H  I+R G+  DT+LCNRL++LY +C +   A+ +FD+M  +D+YSWNA 
Sbjct: 19  ERCKLSGKVIHGFIVRMGMKSDTYLCNRLLDLYIECGDGDYARKVFDEMSVRDVYSWNAF 78

Query: 61  LSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTH 120
           L+ +CK  DL  A ++FD MPER+VVSWNN+IS LVR G EEKAL VY +M  +GF+P+ 
Sbjct: 79  LTFRCKVGDLGEACEVFDGMPERDVVSWNNMISVLVRKGFEEKALVVYKRMVCDGFLPSR 138

Query: 121 ITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGW-TKHAVPVFE 179
            TLASV  A + +LD   G RCHG+ +K GLDKNI+V NALLS+YAKCG+   + V VFE
Sbjct: 139 FTLASVLSACSKVLDGVFGMRCHGVAVKTGLDKNIFVGNALLSMYAKCGFIVDYGVRVFE 198

Query: 180 EMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCA-REGCGV 238
            +S+PNEV++TA++ GLA+ ++V+EA++MFRLM  K V +DSV LS++L + A REGC  
Sbjct: 199 SLSQPNEVSYTAVIGGLARENKVLEAVQMFRLMCEKGVQVDSVCLSNILSISAPREGCDS 258

Query: 239 ESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNL 298
            S+++         N  G+Q+HCL ++LGF  DLHL+NSLL++YAKN DM+ AE+IF+ +
Sbjct: 259 LSEIYG--------NELGKQIHCLALRLGFGGDLHLNNSLLEIYAKNKDMNGAELIFAEM 310

Query: 299 PERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGR 358
           PE +VVSWN+MI G+GQ+Y+S K++E L RM+  GF+P+EVT I++L AC RSGD++TGR
Sbjct: 311 PEVNVVSWNIMIVGFGQEYRSDKSVEFLTRMRDSGFQPNEVTCISVLGACFRSGDVETGR 370

Query: 359 EMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMG 418
            +F S+P PSVS+WNAMLS YS  E+++EAI  FR+MQF+ +KPD+TTL++ILSSCA + 
Sbjct: 371 RIFSSIPQPSVSAWNAMLSGYSNYEHYEEAISNFRQMQFQNLKPDKTTLSVILSSCARLR 430

Query: 419 ILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHR-IPELDIVCWNSMI 477
            LE GKQ+H   ++T    ++++ SGLI +YS+C++ E++E +F   I ELDI CWNSMI
Sbjct: 431 FLEGGKQIHGVVIRTEISKNSHIVSGLIAVYSECEKMEISECIFDDCINELDIACWNSMI 490

Query: 478 AGLSLNSLDIEAFMFFKQMRQNE-MYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGY 536
           +G   N LD +A + F++M Q   + P + SFATVLSSC++L S   GRQ H  + K GY
Sbjct: 491 SGFRHNMLDTKALILFRRMHQTAVLCPNETSFATVLSSCSRLCSLLHGRQFHGLVVKSGY 550

Query: 537 VNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKD 596
           V+D FV +AL +MYCKCG+I  ARQFFD +  KNTV WNEMIHGY  NG GDEAV LY+ 
Sbjct: 551 VSDSFVETALTDMYCKCGEIDSARQFFDAVLRKNTVIWNEMIHGYGHNGRGDEAVGLYRK 610

Query: 597 MIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAG 656
           MI+SG KPD ITFV++LTACSHSGLV+ G+EI +SMQ  HG+EP LDHY C++DCLGRAG
Sbjct: 611 MISSGEKPDGITFVSVLTACSHSGLVETGLEILSSMQRIHGIEPELDHYICIVDCLGRAG 670

Query: 657 HFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLAN 716
              +AE L +  P K   V+WE+LLSSCR+H +V LA+R AE+L RLDP++SA Y LL+N
Sbjct: 671 RLEDAEKLAEATPYKSSSVLWEILLSSCRVHGDVSLARRVAEKLMRLDPQSSAAYVLLSN 730

Query: 717 IYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
            YSSL +WDD  A++ LM++N + K P  S
Sbjct: 731 TYSSLRQWDDSAALQGLMNKNRVHKTPGQS 760

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297799986|ref|XP_002867877.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297313713|gb|EFH44136.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  871 bits (2251), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 409/735 (55%), Positives = 553/735 (75%), Gaps = 12/735 (1%)

Query: 16  RNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYK 75
           R GL  DT+LCNRL++LY +  +   A+ LFD+M  +D+YSWNA L+ +CK  DLE A +
Sbjct: 20  RTGLNSDTYLCNRLLDLYIEFGDGDYARKLFDEMSLRDVYSWNAFLTFRCKVGDLEEACE 79

Query: 76  LFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLD 135
           +FD MPER+VVSWNN+IS LVR G EEKAL VY +M  +GF+P+  TLASV  A + + D
Sbjct: 80  VFDGMPERDVVSWNNMISVLVRKGFEEKALDVYGRMVGDGFLPSRFTLASVLSACSKVQD 139

Query: 136 VEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGW-TKHAVPVFEEMSEPNEVTFTAMMS 194
              G RCHG+ +K GLDKNI+V NALLS+YAKCG+   + V VFE +SEPNEV+FT ++S
Sbjct: 140 GVIGMRCHGVAVKTGLDKNIFVGNALLSMYAKCGFMVDYGVRVFESLSEPNEVSFTTVIS 199

Query: 195 GLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCA-REGCGVESDVFAQSDNKFSRN 253
           GLA+ ++V+EA+ MFRLM  K V +D V LS++L +   REGC   S+++         N
Sbjct: 200 GLARENKVLEAVHMFRLMCEKGVQVDCVCLSNILSISVPREGCDSLSEIYG--------N 251

Query: 254 VHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGY 313
           V G+Q+H L ++ GF  +LHL+NSLL++YAKN DM+ AE+IF+ +PE +VVSWN+MIAG+
Sbjct: 252 VLGKQIHSLALRRGFVGELHLNNSLLEIYAKNKDMNGAELIFTEMPEVNVVSWNIMIAGF 311

Query: 314 GQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWN 373
           GQ+Y+S K+IE L+RM+  GFEP+EVT I++L AC RSGD++TGR +F+++P PSVS+WN
Sbjct: 312 GQEYRSDKSIEYLKRMRDSGFEPNEVTCISILGACFRSGDVETGRRIFNTIPQPSVSAWN 371

Query: 374 AMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKT 433
           AMLS YS  E+++EAI  FR+MQF+ +KPDRTTL++ILSSCA +  LE GKQ+H  +++T
Sbjct: 372 AMLSGYSNYEHYEEAINNFRQMQFQNLKPDRTTLSVILSSCARLRFLEGGKQIHGVAIRT 431

Query: 434 ASHIDNYVASGLIGIYSKCQRNELAERVFHR-IPELDIVCWNSMIAGLSLNSLDIEAFMF 492
            +  D+++ SGLI +YS+C++ E+ E +F   I ELDI CWNSMI+GL  N+LD +A M 
Sbjct: 432 ETSEDSHIVSGLIAVYSECEKMEICECIFDDCINELDIACWNSMISGLRRNTLDTKALML 491

Query: 493 FKQMRQNE-MYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYC 551
           F++M Q   + P + ++A VL SC++L S   GRQ H Q+ K GYV+D FV +A+ +MYC
Sbjct: 492 FRRMHQTSVLLPNETTYAIVLGSCSRLCSLVHGRQFHGQVVKSGYVSDSFVETAVTDMYC 551

Query: 552 KCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVA 611
           KCG+I  ARQFFD +  KNTV WNEMIHGYA NG GDEAV LY++MI++G KPD ITFV+
Sbjct: 552 KCGEIESARQFFDTVSRKNTVIWNEMIHGYAHNGRGDEAVDLYREMISAGEKPDGITFVS 611

Query: 612 ILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCK 671
           +LTACSHSGLVD G+EI +SMQ DHG+EP LDHY C++DCLGRAG   +AE L +  P K
Sbjct: 612 VLTACSHSGLVDTGLEILSSMQRDHGIEPELDHYICIVDCLGRAGRLEDAETLAEATPYK 671

Query: 672 DDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVR 731
              V+WE+LLSSCR++ +V LA+R AE+L  LDP+NSA Y LL+N YSS+ +WDD  A++
Sbjct: 672 SSSVLWEILLSSCRVYGDVSLARRVAEKLMHLDPQNSAAYVLLSNTYSSVRQWDDAAALQ 731

Query: 732 ELMSENCIVKDPAYS 746
           ELM++N + K P +S
Sbjct: 732 ELMNKNRVHKTPGHS 746

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255586231|ref|XP_002533770.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223526307|gb|EEF28615.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  867 bits (2239), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 418/603 (69%), Positives = 491/603 (81%), Gaps = 5/603 (0%)

Query: 1   KKAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAI 60
           KKAH++GKLLHA I R GL  DTFL NRLIE Y KC N   A +LF +MPHK+IYSWNAI
Sbjct: 19  KKAHLSGKLLHARIFRIGLSTDTFLLNRLIEFYFKCKNMGYAHNLFHQMPHKNIYSWNAI 78

Query: 61  LSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTH 120
           L+  CK+ +L+ A++LF EMPERN+VSWNNLISALVR  LE++AL VYN+M  EG +PTH
Sbjct: 79  LTEYCKAGNLQNAHRLFSEMPERNIVSWNNLISALVRGRLEQQALDVYNEMIWEGLMPTH 138

Query: 121 ITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEE 180
            TLAS+  A   LL++E GR+CH L++KIGLD N+YV+NALLS+Y+KCG  + AV +FEE
Sbjct: 139 FTLASILSACGTLLNMESGRKCHTLIVKIGLDNNVYVSNALLSVYSKCGLVRDAVRLFEE 198

Query: 181 MSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVES 240
           M EPNEVT+TAMMSG  +TDRVVEALEMFRLM R+ + IDSVSLSSVLGVC + GCG ES
Sbjct: 199 MQEPNEVTYTAMMSGFTQTDRVVEALEMFRLMCRQGICIDSVSLSSVLGVCTKGGCG-ES 257

Query: 241 DVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPE 300
           D   QSD    RN  G+  H L IKLGFE+DLHL NSLLDMYAK+GDMDSAE +F+NLPE
Sbjct: 258 D---QSDGSL-RNALGKLAHGLAIKLGFESDLHLCNSLLDMYAKDGDMDSAEEVFANLPE 313

Query: 301 RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREM 360
            SVVSWNVMIAGYGQK +S KAIE LQRM+SCGFEPDEVT INML ACVRSGDI+ GR++
Sbjct: 314 MSVVSWNVMIAGYGQKCKSGKAIEYLQRMQSCGFEPDEVTYINMLTACVRSGDIEIGRQI 373

Query: 361 FDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGIL 420
           FD M  P VSSWN MLS Y Q ENH EAIKLFREMQF+ VKPDRTTLAIILSSCA M +L
Sbjct: 374 FDCMACPGVSSWNGMLSGYFQIENHNEAIKLFREMQFQNVKPDRTTLAIILSSCAGMELL 433

Query: 421 ESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGL 480
           E+GKQVHA S K A H D YVASGLIG+YSKC + ++A+ +F +I + D VCWNSMIAGL
Sbjct: 434 EAGKQVHAISQKAAFHEDIYVASGLIGMYSKCGKMDIADCIFKKISKQDTVCWNSMIAGL 493

Query: 481 SLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDI 540
           SLNSLD EA  FF+QMRQ+ M PTQFS+AT+LS CAKLSS   G+Q+HAQI K+G+VND+
Sbjct: 494 SLNSLDNEALAFFQQMRQSGMSPTQFSYATILSCCAKLSSLIHGKQIHAQIAKEGFVNDV 553

Query: 541 FVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS 600
           +VGSAL++MYCKCG++  ARQFFD+M  KNTVTWNEMIHGYAQNG+G EAV LY+DMI S
Sbjct: 554 YVGSALVDMYCKCGEVGEARQFFDIMSSKNTVTWNEMIHGYAQNGHGHEAVCLYRDMIES 613

Query: 601 GVK 603
            ++
Sbjct: 614 AIQ 616

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|5262217|emb|CAB45843.1| putative protein [Arabidopsis thaliana] gi|7268873|emb|CAB79077.1| putative protein [Arabidopsis thaliana]

 Score =  859 bits (2219), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 406/733 (55%), Positives = 548/733 (74%), Gaps = 12/733 (1%)

Query: 18  GLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLF 77
           G+  DT+LCNRL++LY +C +   A+ +FD+M  +D+YSWNA L+ +CK  DL  A ++F
Sbjct: 2   GMKSDTYLCNRLLDLYIECGDGDYARKVFDEMSVRDVYSWNAFLTFRCKVGDLGEACEVF 61

Query: 78  DEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVE 137
           D MPER+VVSWNN+IS LVR G EEKAL VY +M  +GF+P+  TLASV  A + +LD  
Sbjct: 62  DGMPERDVVSWNNMISVLVRKGFEEKALVVYKRMVCDGFLPSRFTLASVLSACSKVLDGV 121

Query: 138 HGRRCHGLVIKIGLDKNIYVANALLSLYAKCGW-TKHAVPVFEEMSEPNEVTFTAMMSGL 196
            G RCHG+ +K GLDKNI+V NALLS+YAKCG+   + V VFE +S+PNEV++TA++ GL
Sbjct: 122 FGMRCHGVAVKTGLDKNIFVGNALLSMYAKCGFIVDYGVRVFESLSQPNEVSYTAVIGGL 181

Query: 197 AKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCA-REGCGVESDVFAQSDNKFSRNVH 255
           A+ ++V+EA++MFRLM  K V +DSV LS++L + A REGC   S+++         N  
Sbjct: 182 ARENKVLEAVQMFRLMCEKGVQVDSVCLSNILSISAPREGCDSLSEIYG--------NEL 233

Query: 256 GQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQ 315
           G+Q+HCL ++LGF  DLHL+NSLL++YAKN DM+ AE+IF+ +PE +VVSWN+MI G+GQ
Sbjct: 234 GKQIHCLALRLGFGGDLHLNNSLLEIYAKNKDMNGAELIFAEMPEVNVVSWNIMIVGFGQ 293

Query: 316 KYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAM 375
           +Y+S K++E L RM+  GF+P+EVT I++L AC RSGD++TGR +F S+P PSVS+WNAM
Sbjct: 294 EYRSDKSVEFLTRMRDSGFQPNEVTCISVLGACFRSGDVETGRRIFSSIPQPSVSAWNAM 353

Query: 376 LSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTAS 435
           LS YS  E+++EAI  FR+MQF+ +KPD+TTL++ILSSCA +  LE GKQ+H   ++T  
Sbjct: 354 LSGYSNYEHYEEAISNFRQMQFQNLKPDKTTLSVILSSCARLRFLEGGKQIHGVVIRTEI 413

Query: 436 HIDNYVASGLIGIYSKCQRNELAERVFHR-IPELDIVCWNSMIAGLSLNSLDIEAFMFFK 494
             ++++ SGLI +YS+C++ E++E +F   I ELDI CWNSMI+G   N LD +A + F+
Sbjct: 414 SKNSHIVSGLIAVYSECEKMEISECIFDDCINELDIACWNSMISGFRHNMLDTKALILFR 473

Query: 495 QMRQNEMY-PTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKC 553
           +M Q  +  P + SFATVLSSC++L S   GRQ H  + K GYV+D FV +AL +MYCKC
Sbjct: 474 RMHQTAVLCPNETSFATVLSSCSRLCSLLHGRQFHGLVVKSGYVSDSFVETALTDMYCKC 533

Query: 554 GDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAIL 613
           G+I  ARQFFD +  KNTV WNEMIHGY  NG GDEAV LY+ MI+SG KPD ITFV++L
Sbjct: 534 GEIDSARQFFDAVLRKNTVIWNEMIHGYGHNGRGDEAVGLYRKMISSGEKPDGITFVSVL 593

Query: 614 TACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDD 673
           TACSHSGLV+ G+EI +SMQ  HG+EP LDHY C++DCLGRAG   +AE L +  P K  
Sbjct: 594 TACSHSGLVETGLEILSSMQRIHGIEPELDHYICIVDCLGRAGRLEDAEKLAEATPYKSS 653

Query: 674 PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVREL 733
            V+WE+LLSSCR+H +V LA+R AE+L RLDP++SA Y LL+N YSSL +WDD  A++ L
Sbjct: 654 SVLWEILLSSCRVHGDVSLARRVAEKLMRLDPQSSAAYVLLSNTYSSLRQWDDSAALQGL 713

Query: 734 MSENCIVKDPAYS 746
           M++N + K P  S
Sbjct: 714 MNKNRVHKTPGQS 726

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357136755|ref|XP_003569969.1| PREDICTED: pentatricopeptide repeat-containing protein At4g20770-like [Brachypodium distachyon]

 Score =  801 bits (2070), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 386/733 (52%), Positives = 516/733 (70%), Gaps = 8/733 (1%)

Query: 14  ILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFA 73
           +L  GL  DTFL NRL+ELYS       A   F  +P  + YS+NA LSA  ++ DL+ A
Sbjct: 34  VLAAGLGADTFLINRLVELYSVSGLPCDALRAFRSLPRPNAYSYNAALSAARRAGDLDAA 93

Query: 74  YKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTAL 133
             L DEMP+RNVVSWN +I+AL R+    +AL +Y  M  EG VPTH TLASV  A  A+
Sbjct: 94  RALLDEMPDRNVVSWNTVIAALARSERAGEALELYEGMLREGLVPTHFTLASVLSACGAV 153

Query: 134 LDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMM 193
             ++ GRRCHGL +K+GLD+N++V NALL +Y KCG  + AV +F+ M+ PNEV+FTAMM
Sbjct: 154 AALDDGRRCHGLAVKVGLDENLFVENALLGMYTKCGGVEDAVRLFDGMASPNEVSFTAMM 213

Query: 194 SGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRN 253
            GL +   V +AL +F  M R  V +D V++SSVLG CA + C  E DV       F   
Sbjct: 214 GGLVQAGSVDDALRLFARMCRSGVRVDPVAVSSVLGSCA-QACASEFDVV----RAFRL- 267

Query: 254 VHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGY 313
             GQ +H L ++ GF +D H+ NSL+DMY K   MD A  +F +LP  S VSWN++I G+
Sbjct: 268 --GQCIHALIVRKGFGSDQHVGNSLIDMYTKCMQMDEAVKVFDSLPNISTVSWNILITGF 325

Query: 314 GQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWN 373
           GQ     KA+E+L  M+  G EP+EVT  NML +C+++ D+ + R MFD +  PSV++WN
Sbjct: 326 GQAGSYAKALEVLNLMEESGSEPNEVTYSNMLASCIKARDVLSARAMFDKISRPSVTTWN 385

Query: 374 AMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKT 433
            +LS Y Q E H++ ++LFR MQ + V+PDRTTLA+ILSSC+ +GIL+ G QVH+AS++ 
Sbjct: 386 TLLSGYCQEELHQDTVELFRRMQHQNVQPDRTTLAVILSSCSRLGILDLGTQVHSASVRF 445

Query: 434 ASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFF 493
             H D +VASGL+ +YSKC +  +A  +F+R+ E D+VCWNSMI+GL+++SL+ EAF FF
Sbjct: 446 LLHNDMFVASGLVDMYSKCGQIGIARIIFNRMTERDVVCWNSMISGLAIHSLNEEAFDFF 505

Query: 494 KQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKC 553
           KQMR N M PT+ S+A++++SCA+LSS  QGRQ+HAQI KDGY  +++VGSALI+MY KC
Sbjct: 506 KQMRGNGMMPTESSYASMINSCARLSSVPQGRQIHAQIVKDGYDQNVYVGSALIDMYAKC 565

Query: 554 GDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAIL 613
           G++  AR FFD M  KN V WNEMIHGYAQNG+G++AV L++ M+ +  +PD +TF+A+L
Sbjct: 566 GNMDDARVFFDCMVTKNIVAWNEMIHGYAQNGFGEKAVDLFEYMLTTEQRPDGVTFIAVL 625

Query: 614 TACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDD 673
           T CSHSGLVD  +  FNSM+  +G+ P+ +HYTC+ID LGRAG   E E LID MPCKDD
Sbjct: 626 TGCSHSGLVDEAIAFFNSMESTYGITPLAEHYTCLIDGLGRAGRLVEVEALIDNMPCKDD 685

Query: 674 PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVREL 733
           P++WEVLL++C +H N  L + AA+ LFRLDPKN +PY LL+NIY+SLGR  D   VR L
Sbjct: 686 PIVWEVLLAACAVHHNAELGECAAKHLFRLDPKNPSPYVLLSNIYASLGRHGDASGVRAL 745

Query: 734 MSENCIVKDPAYS 746
           MS   +VK   YS
Sbjct: 746 MSSRGVVKGRGYS 758

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|49387750|dbj|BAD26238.1| putative pentatricopeptide (PPR) repeat-containing protein [Oryza sativa Japonica Group] gi|218190136|gb|EEC72563.1| hypothetical protein OsI_05996 [Oryza sativa Indica Group]

 Score =  796 bits (2056), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 379/727 (52%), Positives = 514/727 (70%), Gaps = 11/727 (1%)

Query: 22  DTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMP 81
           DTFL NRL+ELYS+      A   F  +P  + YS+NA LSA C++ DL+ A  L   MP
Sbjct: 42  DTFLANRLVELYSRAGLPRHALLAFRALPSPNDYSYNAALSAACRAGDLDAARDLLGGMP 101

Query: 82  ERNVVSWNNLISALVRN-GLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGR 140
            RN VSWN +ISAL R+ G   +A+ +Y +M  EG +PTH TLASV  A   L  +  GR
Sbjct: 102 RRNAVSWNTVISALARSPGDGGEAVEMYGRMRAEGLLPTHFTLASVLSACGGLAALGDGR 161

Query: 141 RCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTD 200
           RCHG+ +K+GLD N +V NALL +Y KCG    AV +F  M+ PNEV+FTAMM GLA+T 
Sbjct: 162 RCHGVAVKVGLDANQFVENALLGMYTKCGSVGDAVRLFYGMARPNEVSFTAMMGGLAQTG 221

Query: 201 RVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVH-GQQV 259
            + +AL +F  M R  V +D VS+SSVLG CA + C         +D   +R    GQ +
Sbjct: 222 SIDDALRLFARMCRSGVPVDPVSVSSVLGACA-QACA--------TDYSVARAFRLGQAI 272

Query: 260 HCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQS 319
           H L ++ GF +D H+ NSL+DMY K  +MD A  +F +LP  ++VSWN++I G+GQ+   
Sbjct: 273 HALVVRKGFGSDQHVGNSLIDMYTKCVEMDEAVKVFESLPSVTIVSWNILITGFGQEGSC 332

Query: 320 TKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSY 379
            KA+E+L  M+  GFEP+EVT  N+L +C+++ D+ + R MFD +  PSV++WN +LS Y
Sbjct: 333 AKAVEVLSLMQEAGFEPNEVTYSNLLASCIKARDVHSARAMFDKISRPSVTTWNTLLSGY 392

Query: 380 SQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDN 439
            Q E H++ I+LFR MQ + V+PDRTTLA+ILSSC+ +GIL+ G+QVH+AS++   H D 
Sbjct: 393 CQEEQHQDTIELFRRMQHQNVQPDRTTLAVILSSCSKLGILDFGRQVHSASVRFLLHNDM 452

Query: 440 YVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQN 499
           +VASGL+ +YSKC +  +A  +F+++ E D+VCWNS+I+GL+++SL+ EAF FFKQMR+N
Sbjct: 453 FVASGLVDMYSKCGQIGIARSIFNKMTERDVVCWNSIISGLTIHSLNKEAFDFFKQMREN 512

Query: 500 EMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGA 559
            + PT+ S+A++++SC++LSS   GRQ+HAQ+ KDGY  +++VGSALI+MY KCG++  A
Sbjct: 513 GIMPTESSYASMINSCSRLSSIPHGRQIHAQVMKDGYDQNVYVGSALIDMYAKCGNMDDA 572

Query: 560 RQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHS 619
           R FFD M  KN V WNEMIHGYAQNG GD+AV L++ M+ +  KPD +TF+A+LT CSHS
Sbjct: 573 RLFFDTMMMKNIVAWNEMIHGYAQNGLGDKAVELFEYMLTTEQKPDAVTFIAVLTGCSHS 632

Query: 620 GLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEV 679
           GLVD  +  FNSM+  +G+ P+ +HYTC+ID LGRAG F E E LI +MPCKDDP+IWEV
Sbjct: 633 GLVDKAMAFFNSMENSYGIIPLAEHYTCLIDALGRAGRFVEVEALIHKMPCKDDPIIWEV 692

Query: 680 LLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI 739
           LL++C +H N  L K AAE LFR+DPKN +PY LL+NIY+SLGR  D  AVR LMS   +
Sbjct: 693 LLAACVVHHNAELGKCAAEHLFRIDPKNPSPYVLLSNIYASLGRHGDASAVRALMSNRGV 752

Query: 740 VKDPAYS 746
           VK   YS
Sbjct: 753 VKGRGYS 759

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	748
TAIR|locus:2119440	1064	AT4G13650 [Arabidopsis thalian	0.528	0.371	0.349	3.5e-113
TAIR|locus:2122551	834	AT4G39530 [Arabidopsis thalian	0.537	0.482	0.369	2.8e-105
TAIR|locus:2103483	890	OTP84 "ORGANELLE TRANSCRIPT PR	0.525	0.441	0.374	5.8e-105
TAIR|locus:2196583	866	ECB2 "EARLY CHLOROPLAST BIOGEN	0.545	0.471	0.357	4.6e-103
TAIR|locus:2032840	937	AT1G16480 "AT1G16480" [Arabido	0.540	0.431	0.339	4.6e-101
TAIR|locus:2205200	741	OTP82 "AT1G08070" [Arabidopsis	0.546	0.551	0.393	2.9e-99
TAIR|locus:2140235	781	AT4G02750 [Arabidopsis thalian	0.609	0.583	0.369	5.4e-96
TAIR|locus:2007116	787	AT1G69350 "AT1G69350" [Arabido	0.601	0.571	0.311	4.8e-95
TAIR|locus:2125899	990	AT4G33170 [Arabidopsis thalian	0.525	0.396	0.375	2.6e-94
TAIR|locus:2063771	689	AT2G03380 [Arabidopsis thalian	0.622	0.676	0.336	1.7e-90

TAIR|locus:2119440 AT4G13650 [Arabidopsis thaliana (taxid:3702)]

 Score = 708 (254.3 bits), Expect = 3.5e-113, Sum P(3) = 3.5e-113
 Identities = 138/395 (34%), Positives = 227/395 (57%)

Query:   352 GDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIIL 411
             G + T  ++        V SW  M++ Y+Q     +A+  FR+M  RG++ D   L   +
Sbjct:   539 GKLDTAWDILIRFAGKDVVSWTTMIAGYTQYNFDDKALTTFRQMLDRGIRSDEVGLTNAV 598

Query:   412 SSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIV 471
             S+CA +  L+ G+Q+HA +  +    D    + L+ +YS+C + E +   F +    D +
Sbjct:   599 SACAGLQALKEGQQIHAQACVSGFSSDLPFQNALVTLYSRCGKIEESYLAFEQTEAGDNI 658

Query:   472 CWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQI 531
              WN++++G   +  + EA   F +M +  +    F+F + + + ++ ++  QG+QVHA I
Sbjct:   659 AWNALVSGFQQSGNNEEALRVFVRMNREGIDNNNFTFGSAVKAASETANMKQGKQVHAVI 718

Query:   532 EKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAV 591
              K GY ++  V +ALI MY KCG I  A + F  +  KN V+WN +I+ Y+++G+G EA+
Sbjct:   719 TKTGYDSETEVCNALISMYAKCGSISDAEKQFLEVSTKNEVSWNAIINAYSKHGFGSEAL 778

Query:   592 RLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDC 651
               +  MI S V+P+ +T V +L+ACSH GLVD G+  F SM  ++G+ P  +HY C++D 
Sbjct:   779 DSFDQMIHSNVRPNHVTLVGVLSACSHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVDM 838

Query:   652 LGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPY 711
             L RAG    A+  I EMP K D ++W  LLS+C +H N+ + + AA  L  L+P++SA Y
Sbjct:   839 LTRAGLLSRAKEFIQEMPIKPDALVWRTLLSACVVHKNMEIGEFAAHHLLELEPEDSATY 898

Query:   712 SLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
              LL+N+Y+   +WD     R+ M E  + K+P  S
Sbjct:   899 VLLSNLYAVSKKWDARDLTRQKMKEKGVKKEPGQS 933

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2122551 AT4G39530 [Arabidopsis thaliana (taxid:3702)]

 Score = 723 (259.6 bits), Expect = 2.8e-105, Sum P(2) = 2.8e-105
 Identities = 151/409 (36%), Positives = 238/409 (58%)

Query:   343 NMLVACVRSGDIKT-GREMFDSMPSPSVSSWNAMLSSYS----QSENHKEAIKLFREMQF 397
             N L+      D  T  R++FD   +  V  +NAM+  YS    Q E H EA+ +FR+M+F
Sbjct:   389 NSLIDMYAKCDCLTDARKVFDIFAAADVVLFNAMIEGYSRLGTQWELH-EALNIFRDMRF 447

Query:   398 RGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNEL 457
             R ++P   T   +L + A++  L   KQ+H    K   ++D +  S LI +YS C   + 
Sbjct:   448 RLIRPSLLTFVSLLRASASLTSLGLSKQIHGLMFKYGLNLDIFAGSALIDVYSNCYCLKD 507

Query:   458 AERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAK 517
             +  VF  +   D+V WNSM AG    S + EA   F +++ +   P +F+FA ++++   
Sbjct:   508 SRLVFDEMKVKDLVIWNSMFAGYVQQSENEEALNLFLELQLSRERPDEFTFANMVTAAGN 567

Query:   518 LSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEM 577
             L+S   G++ H Q+ K G   + ++ +AL++MY KCG    A + FD    ++ V WN +
Sbjct:   568 LASVQLGQEFHCQLLKRGLECNPYITNALLDMYAKCGSPEDAHKAFDSAASRDVVCWNSV 627

Query:   578 IHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHG 637
             I  YA +G G +A+++ + M++ G++P+ ITFV +L+ACSH+GLV+ G++ F  M L  G
Sbjct:   628 ISSYANHGEGKKALQMLEKMMSEGIEPNYITFVGVLSACSHAGLVEDGLKQFELM-LRFG 686

Query:   638 VEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAA 697
             +EP  +HY CM+  LGRAG  ++A  LI++MP K   ++W  LLS C    NV LA+ AA
Sbjct:   687 IEPETEHYVCMVSLLGRAGRLNKARELIEKMPTKPAAIVWRSLLSGCAKAGNVELAEHAA 746

Query:   698 EELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
             E     DPK+S  +++L+NIY+S G W + + VRE M    +VK+P  S
Sbjct:   747 EMAILSDPKDSGSFTMLSNIYASKGMWTEAKKVRERMKVEGVVKEPGRS 795

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 758 (271.9 bits), Expect = 5.8e-105, Sum P(2) = 5.8e-105
 Identities = 152/406 (37%), Positives = 239/406 (58%)

Query:   354 IKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQ-FRGVKPDRTTLAIILS 412
             + +GR +FD M    +  WNAM++ YSQ+E+ KEA+ LF  M+   G+  + TT+A ++ 
Sbjct:   354 VLSGRRVFDGMFDRKIGLWNAMIAGYSQNEHDKEALLLFIGMEESAGLLANSTTMAGVVP 413

Query:   413 SCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVC 472
             +C   G     + +H   +K     D +V + L+ +YS+  + ++A R+F ++ + D+V 
Sbjct:   414 ACVRSGAFSRKEAIHGFVVKRGLDRDRFVQNTLMDMYSRLGKIDIAMRIFGKMEDRDLVT 473

Query:   473 WNSMIAGLSLNSLDIEAFMFFKQMRQNE-----------MYPTQFSFATVLSSCAKLSSS 521
             WN+MI G   +    +A +   +M+  E           + P   +  T+L SCA LS+ 
Sbjct:   474 WNTMITGYVFSEHHEDALLLLHKMQNLERKVSKGASRVSLKPNSITLMTILPSCAALSAL 533

Query:   522 FQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGY 581
              +G+++HA   K+    D+ VGSAL++MY KCG +  +R+ FD +  KN +TWN +I  Y
Sbjct:   534 AKGKEIHAYAIKNNLATDVAVGSALVDMYAKCGCLQMSRKVFDQIPQKNVITWNVIIMAY 593

Query:   582 AQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI 641
               +G G EA+ L + M+  GVKP+++TF+++  ACSHSG+VD G+ IF  M+ D+GVEP 
Sbjct:   594 GMHGNGQEAIDLLRMMMVQGVKPNEVTFISVFAACSHSGMVDEGLRIFYVMKPDYGVEPS 653

Query:   642 LDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPV-IWEVLLSSCRLHANVRLAKRAAEEL 700
              DHY C++D LGRAG   EA  L++ MP   +    W  LL + R+H N+ + + AA+ L
Sbjct:   654 SDHYACVVDLLGRAGRIKEAYQLMNMMPRDFNKAGAWSSLLGASRIHNNLEIGEIAAQNL 713

Query:   701 FRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
              +L+P  ++ Y LLANIYSS G WD    VR  M E  + K+P  S
Sbjct:   714 IQLEPNVASHYVLLANIYSSAGLWDKATEVRRNMKEQGVRKEPGCS 759

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

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

 Score = 754 (270.5 bits), Expect = 4.6e-103, Sum P(2) = 4.6e-103
 Identities = 149/417 (35%), Positives = 244/417 (58%)

Query:   333 GFEPDEVTSINMLVAC-VRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKL 391
             GF  D ++  N L    + +G  +   ++F  M    + SW  M+S Y  +    +AI  
Sbjct:   327 GFAVD-ISVCNSLTQMYLNAGSWREAEKLFSRMERKDIVSWTTMISGYEYNFLPDKAIDT 385

Query:   392 FREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYV--ASGLIGIY 449
             +R M    VKPD  T+A +LS+CA +G L++G ++H  ++K  + + +YV  A+ LI +Y
Sbjct:   386 YRMMDQDSVKPDEITVAAVLSACATLGDLDTGVELHKLAIK--ARLISYVIVANNLINMY 443

Query:   450 SKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFA 509
             SKC+  + A  +FH IP  +++ W S+IAGL LN+   EA +F +QM+   + P   +  
Sbjct:   444 SKCKCIDKALDIFHNIPRKNVISWTSIIAGLRLNNRCFEALIFLRQMKMT-LQPNAITLT 502

Query:   510 TVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGK 569
               L++CA++ +   G+++HA + + G   D F+ +AL++MY +CG +  A   F+    K
Sbjct:   503 AALAACARIGALMCGKEIHAHVLRTGVGLDDFLPNALLDMYVRCGRMNTAWSQFNSQK-K 561

Query:   570 NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIF 629
             +  +WN ++ GY++ G G   V L+  M+ S V+PD+ITF+++L  CS S +V  G+  F
Sbjct:   562 DVTSWNILLTGYSERGQGSMVVELFDRMVKSRVRPDEITFISLLCGCSKSQMVRQGLMYF 621

Query:   630 NSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHAN 689
             + M+ D+GV P L HY C++D LGRAG   EA   I +MP   DP +W  LL++CR+H  
Sbjct:   622 SKME-DYGVTPNLKHYACVVDLLGRAGELQEAHKFIQKMPVTPDPAVWGALLNACRIHHK 680

Query:   690 VRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
             + L + +A+ +F LD K+   Y LL N+Y+  G+W ++  VR +M EN +  D   S
Sbjct:   681 IDLGELSAQHIFELDKKSVGYYILLCNLYADCGKWREVAKVRRMMKENGLTVDAGCS 737

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0009658 "chloroplast organization" evidence=IMP

GO:0040007 "growth" evidence=IMP

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

TAIR|locus:2032840 AT1G16480 "AT1G16480" [Arabidopsis thaliana (taxid:3702)]

 Score = 693 (249.0 bits), Expect = 4.6e-101, Sum P(2) = 4.6e-101
 Identities = 138/406 (33%), Positives = 236/406 (58%)

Query:   343 NMLVACV-RSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVK 401
             N LV+   + G++   R +   MP   V +WNA++  Y++ E+  +A+  F+ M+  GV 
Sbjct:   401 NALVSMYGKIGEMSESRRVLLQMPRRDVVAWNALIGGYAEDEDPDKALAAFQTMRVEGVS 460

Query:   402 PDRTTLAIILSSCAAMG-ILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAER 460
              +  T+  +LS+C   G +LE GK +HA  +      D +V + LI +Y+KC     ++ 
Sbjct:   461 SNYITVVSVLSACLLPGDLLERGKPLHAYIVSAGFESDEHVKNSLITMYAKCGDLSSSQD 520

Query:   461 VFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSS 520
             +F+ +   +I+ WN+M+A  + +    E      +MR   +   QFSF+  LS+ AKL+ 
Sbjct:   521 LFNGLDNRNIITWNAMLAANAHHGHGEEVLKLVSKMRSFGVSLDQFSFSEGLSAAAKLAV 580

Query:   521 SFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHG 580
               +G+Q+H    K G+ +D F+ +A  +MY KCG+I    +       ++  +WN +I  
Sbjct:   581 LEEGQQLHGLAVKLGFEHDSFIFNAAADMYSKCGEIGEVVKMLPPSVNRSLPSWNILISA 640

Query:   581 YAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP 640
               ++GY +E    + +M+  G+KP  +TFV++LTACSH GLVD G+  ++ +  D G+EP
Sbjct:   641 LGRHGYFEEVCATFHEMLEMGIKPGHVTFVSLLTACSHGGLVDKGLAYYDMIARDFGLEP 700

Query:   641 ILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEEL 700
              ++H  C+ID LGR+G   EAE  I +MP K + ++W  LL+SC++H N+   ++AAE L
Sbjct:   701 AIEHCICVIDLLGRSGRLAEAETFISKMPMKPNDLVWRSLLASCKIHGNLDRGRKAAENL 760

Query:   701 FRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
              +L+P++ + Y L +N++++ GRW+D+  VR+ M    I K  A S
Sbjct:   761 SKLEPEDDSVYVLSSNMFATTGRWEDVENVRKQMGFKNIKKKQACS 806

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 819 (293.4 bits), Expect = 2.9e-99, Sum P(2) = 2.9e-99
 Identities = 162/412 (39%), Positives = 254/412 (61%)

Query:   338 EVTSINMLVACVRS-GDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQ 396
             +V S   L+    S G I+  +++FD +P   V SWNAM+S Y+++ N+KEA++LF++M 
Sbjct:   199 DVVSYTALIKGYASRGYIENAQKLFDEIPVKDVVSWNAMISGYAETGNYKEALELFKDMM 258

Query:   397 FRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNE 456
                V+PD +T+  ++S+CA  G +E G+QVH          +  + + LI +YSKC   E
Sbjct:   259 KTNVRPDESTMVTVVSACAQSGSIELGRQVHLWIDDHGFGSNLKIVNALIDLYSKCGELE 318

Query:   457 LAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCA 516
              A  +F R+P  D++ WN++I G +  +L  EA + F++M ++   P   +  ++L +CA
Sbjct:   319 TACGLFERLPYKDVISWNTLIGGYTHMNLYKEALLLFQEMLRSGETPNDVTMLSILPACA 378

Query:   517 KLSSSFQGRQVHAQIEK--DGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTW 574
              L +   GR +H  I+K   G  N   + ++LI+MY KCGDI  A Q F+ +  K+  +W
Sbjct:   379 HLGAIDIGRWIHVYIDKRLKGVTNASSLRTSLIDMYAKCGDIEAAHQVFNSILHKSLSSW 438

Query:   575 NEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQL 634
             N MI G+A +G  D +  L+  M   G++PDDITFV +L+ACSHSG++D+G  IF +M  
Sbjct:   439 NAMIFGFAMHGRADASFDLFSRMRKIGIQPDDITFVGLLSACSHSGMLDLGRHIFRTMTQ 498

Query:   635 DHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAK 694
             D+ + P L+HY CMID LG +G F EAE +I+ M  + D VIW  LL +C++H NV L +
Sbjct:   499 DYKMTPKLEHYGCMIDLLGHSGLFKEAEEMINMMEMEPDGVIWCSLLKACKMHGNVELGE 558

Query:   695 RAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
               AE L +++P+N   Y LL+NIY+S GRW+++   R L+++  + K P  S
Sbjct:   559 SFAENLIKIEPENPGSYVLLSNIYASAGRWNEVAKTRALLNDKGMKKVPGCS 610

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2140235 AT4G02750 [Arabidopsis thaliana (taxid:3702)]

 Score = 814 (291.6 bits), Expect = 5.4e-96, Sum P(2) = 5.4e-96
 Identities = 175/474 (36%), Positives = 274/474 (57%)

Query:   276 NSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFE 335
             N+LL  Y +N  M+ A ++F +    ++VSWN ++ G+ +K    K +E  Q   S    
Sbjct:   192 NALLSAYVQNSKMEEACMLFKSRENWALVSWNCLLGGFVKK---KKIVEARQFFDSMNVR 248

Query:   336 PDEVTSINMLVA-CVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFRE 394
               +V S N ++    +SG I   R++FD  P   V +W AM+S Y Q+   +EA +LF +
Sbjct:   249 --DVVSWNTIITGYAQSGKIDEARQLFDESPVQDVFTWTAMVSGYIQNRMVEEARELFDK 306

Query:   395 MQFRGVKPDRTTLA--IILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKC 452
             M      P+R  ++   +L+       +E  K++    +    ++  +  + +I  Y++C
Sbjct:   307 M------PERNEVSWNAMLAGYVQGERMEMAKELF--DVMPCRNVSTW--NTMITGYAQC 356

Query:   453 QRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVL 512
              +   A+ +F ++P+ D V W +MIAG S +    EA   F QM +      + SF++ L
Sbjct:   357 GKISEAKNLFDKMPKRDPVSWAAMIAGYSQSGHSFEALRLFVQMEREGGRLNRSSFSSAL 416

Query:   513 SSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTV 572
             S+CA + +   G+Q+H ++ K GY    FVG+AL+ MYCKCG I  A   F  M GK+ V
Sbjct:   417 STCADVVALELGKQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAGKDIV 476

Query:   573 TWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSM 632
             +WN MI GY+++G+G+ A+R ++ M   G+KPDD T VA+L+ACSH+GLVD G + F +M
Sbjct:   477 SWNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTM 536

Query:   633 QLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRL 692
               D+GV P   HY CM+D LGRAG   +A  L+  MP + D  IW  LL + R+H N  L
Sbjct:   537 TQDYGVMPNSQHYACMVDLLGRAGLLEDAHNLMKNMPFEPDAAIWGTLLGASRVHGNTEL 596

Query:   693 AKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
             A+ AA+++F ++P+NS  Y LL+N+Y+S GRW D+  +R  M +  + K P YS
Sbjct:   597 AETAADKIFAMEPENSGMYVLLSNLYASSGRWGDVGKLRVRMRDKGVKKVPGYS 650

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 670 (240.9 bits), Expect = 4.8e-95, Sum P(2) = 4.8e-95
 Identities = 143/459 (31%), Positives = 246/459 (53%)

Query:   291 AEVIFSNLPERSVVSWNVMIA-GYGQKYQSTKAIE--LLQRMKSCGFEPDEVTSINMLVA 347
             +E+I S +    V  ++V+ + G     +  K++    ++R     +E   +  + +   
Sbjct:   292 SEMIKSGIEPNLVTLYSVLSSCGLIGLIREGKSVHGFAVRRELDPNYESLSLALVELYAE 351

Query:   348 CVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTL 407
             C +  D +T   +   +   ++ +WN+++S Y+      +A+ LFR+M  + +KPD  TL
Sbjct:   352 CGKLSDCET---VLRVVSDRNIVAWNSLISLYAHRGMVIQALGLFRQMVTQRIKPDAFTL 408

Query:   408 AIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPE 467
             A  +S+C   G++  GKQ+H   ++T    D +V + LI +YSK    + A  VF++I  
Sbjct:   409 ASSISACENAGLVPLGKQIHGHVIRTDVS-DEFVQNSLIDMYSKSGSVDSASTVFNQIKH 467

Query:   468 LDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQV 527
               +V WNSM+ G S N   +EA   F  M  + +   + +F  V+ +C+ + S  +G+ V
Sbjct:   468 RSVVTWNSMLCGFSQNGNSVEAISLFDYMYHSYLEMNEVTFLAVIQACSSIGSLEKGKWV 527

Query:   528 HAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYG 587
             H ++   G + D+F  +ALI+MY KCGD+  A   F  M  ++ V+W+ MI+ Y  +G  
Sbjct:   528 HHKLIISG-LKDLFTDTALIDMYAKCGDLNAAETVFRAMSSRSIVSWSSMINAYGMHGRI 586

Query:   588 DEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTC 647
               A+  +  M+ SG KP+++ F+ +L+AC HSG V+ G   FN M+   GV P  +H+ C
Sbjct:   587 GSAISTFNQMVESGTKPNEVVFMNVLSACGHSGSVEEGKYYFNLMK-SFGVSPNSEHFAC 645

Query:   648 MIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN 707
              ID L R+G   EA   I EMP   D  +W  L++ CR+H  + + K    +L  +   +
Sbjct:   646 FIDLLSRSGDLKEAYRTIKEMPFLADASVWGSLVNGCRIHQKMDIIKAIKNDLSDIVTDD 705

Query:   708 SAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
             +  Y+LL+NIY+  G W++ R +R  M  + + K P YS
Sbjct:   706 TGYYTLLSNIYAEEGEWEEFRRLRSAMKSSNLKKVPGYS 744

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 768 (275.4 bits), Expect = 2.6e-94, Sum P(2) = 2.6e-94
 Identities = 150/399 (37%), Positives = 238/399 (59%)

Query:   348 CVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTL 407
             C++  +I   R  FD +      +WNAM++ Y+QS +  + +KLF  M  +G + D  TL
Sbjct:   467 CMKEAEILFERHNFDLV------AWNAMMAGYTQSHDGHKTLKLFALMHKQGERSDDFTL 520

Query:   408 AIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPE 467
             A +  +C  +  +  GKQVHA ++K+   +D +V+SG++ +Y KC     A+  F  IP 
Sbjct:   521 ATVFKTCGFLFAINQGKQVHAYAIKSGYDLDLWVSSGILDMYVKCGDMSAAQFAFDSIPV 580

Query:   468 LDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQV 527
              D V W +MI+G   N  +  AF  F QMR   + P +F+ AT+  + + L++  QGRQ+
Sbjct:   581 PDDVAWTTMISGCIENGEEERAFHVFSQMRLMGVLPDEFTIATLAKASSCLTALEQGRQI 640

Query:   528 HAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYG 587
             HA   K    ND FVG++L++MY KCG I  A   F  +   N   WN M+ G AQ+G G
Sbjct:   641 HANALKLNCTNDPFVGTSLVDMYAKCGSIDDAYCLFKRIEMMNITAWNAMLVGLAQHGEG 700

Query:   588 DEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTC 647
              E ++L+K M + G+KPD +TF+ +L+ACSHSGLV    +   SM  D+G++P ++HY+C
Sbjct:   701 KETLQLFKQMKSLGIKPDKVTFIGVLSACSHSGLVSEAYKHMRSMHGDYGIKPEIEHYSC 760

Query:   648 MIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN 707
             + D LGRAG   +AE LI+ M  +    ++  LL++CR+  +    KR A +L  L+P +
Sbjct:   761 LADALGRAGLVKQAENLIESMSMEASASMYRTLLAACRVQGDTETGKRVATKLLELEPLD 820

Query:   708 SAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
             S+ Y LL+N+Y++  +WD+++  R +M  + + KDP +S
Sbjct:   821 SSAYVLLSNMYAAASKWDEMKLARTMMKGHKVKKDPGFS 859

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2063771 AT2G03380 [Arabidopsis thaliana (taxid:3702)]

 Score = 731 (262.4 bits), Expect = 1.7e-90, Sum P(2) = 1.7e-90
 Identities = 161/479 (33%), Positives = 260/479 (54%)

Query:   277 SLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMK---SC- 332
             S++  Y KN   +   V+F+ + E +V+  N     YG    +   +  L + K    C 
Sbjct:   212 SMIAGYVKNDLCEEGLVLFNRMRENNVLG-NEYT--YGTLIMACTKLSALHQGKWFHGCL 268

Query:   333 ---GFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAI 389
                G E       ++L   V+ GDI   R +F+      +  W AM+  Y+ + +  EA+
Sbjct:   269 VKSGIELSSCLVTSLLDMYVKCGDISNARRVFNEHSHVDLVMWTAMIVGYTHNGSVNEAL 328

Query:   390 KLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIY 449
              LF++M+   +KP+  T+A +LS C  +  LE G+ VH  S+K     D  VA+ L+ +Y
Sbjct:   329 SLFQKMKGVEIKPNCVTIASVLSGCGLIENLELGRSVHGLSIKVGIW-DTNVANALVHMY 387

Query:   450 SKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFA 509
             +KC +N  A+ VF    E DIV WNS+I+G S N    EA   F +M    + P   + A
Sbjct:   388 AKCYQNRDAKYVFEMESEKDIVAWNSIISGFSQNGSIHEALFLFHRMNSESVTPNGVTVA 447

Query:   510 TVLSSCAKLSSSFQGRQVHAQIEKDGYV--NDIFVGSALIEMYCKCGDIYGARQFFDMMH 567
             ++ S+CA L S   G  +HA   K G++  + + VG+AL++ Y KCGD   AR  FD + 
Sbjct:   448 SLFSACASLGSLAVGSSLHAYSVKLGFLASSSVHVGTALLDFYAKCGDPQSARLIFDTIE 507

Query:   568 GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVE 627
              KNT+TW+ MI GY + G    ++ L+++M+    KP++ TF +IL+AC H+G+V+ G +
Sbjct:   508 EKNTITWSAMIGGYGKQGDTIGSLELFEEMLKKQQKPNESTFTSILSACGHTGMVNEGKK 567

Query:   628 IFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLH 687
              F+SM  D+   P   HYTCM+D L RAG   +A  +I++MP + D   +   L  C +H
Sbjct:   568 YFSSMYKDYNFTPSTKHYTCMVDMLARAGELEQALDIIEKMPIQPDVRCFGAFLHGCGMH 627

Query:   688 ANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
             +   L +   +++  L P +++ Y L++N+Y+S GRW+  + VR LM +  + K   +S
Sbjct:   628 SRFDLGEIVIKKMLDLHPDDASYYVLVSNLYASDGRWNQAKEVRNLMKQRGLSKIAGHS 686

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9SVH0	PP329_ARATH	No assigned EC number	0.548	0.9866	0.9534	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	748
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-141
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-104
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-77
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-60
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-60
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	5e-58
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-54
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-44
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-41
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-38
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-30
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-14
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-12
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-06
pfam01535	31	pfam01535, PPR, PPR repeat	4e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-05
pfam01535	31	pfam01535, PPR, PPR repeat	2e-05
pfam01535	31	pfam01535, PPR, PPR repeat	3e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-05
pfam01535	31	pfam01535, PPR, PPR repeat	1e-04
pfam01535	31	pfam01535, PPR, PPR repeat	3e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	5e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.003
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.003
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.004

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

 Score =  434 bits (1118), Expect = e-141
 Identities = 230/694 (33%), Positives = 365/694 (52%), Gaps = 55/694 (7%)

Query: 89  NNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIK 148
           N+ + AL  +G  E+AL +   M             ++F+       VE G R     + 
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 149 IGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEM 208
                 + + NA+LS++ + G   HA  VF +M E +  ++  ++ G AK     EAL +
Sbjct: 115 SHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCL 174

Query: 209 FRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGF 268
           +  M+   V  D  +   VL       CG   D+             G++VH   ++ GF
Sbjct: 175 YHRMLWAGVRPDVYTFPCVL-----RTCGGIPDL-----------ARGREVHAHVVRFGF 218

Query: 269 EADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQR 328
           E D+ + N+L+ MY K GD+ SA ++F  +P R  +SWN MI+GY +  +  + +EL   
Sbjct: 219 ELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFT 278

Query: 329 MKSCGFEPDEVTSINMLVACVRSGDIKTGREM---------------------------- 360
           M+    +PD +T  +++ AC   GD + GREM                            
Sbjct: 279 MRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGS 338

Query: 361 -------FDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSS 413
                  F  M +    SW AM+S Y ++    +A++ +  M+   V PD  T+A +LS+
Sbjct: 339 WGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSA 398

Query: 414 CAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCW 473
           CA +G L+ G ++H  + +        VA+ LI +YSKC+  + A  VFH IPE D++ W
Sbjct: 399 CACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISW 458

Query: 474 NSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEK 533
            S+IAGL LN+   EA +FF+QM    + P   +    LS+CA++ +   G+++HA + +
Sbjct: 459 TSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLR 517

Query: 534 DGYVNDIFVGSALIEMYCKCGDI-YGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVR 592
            G   D F+ +AL+++Y +CG + Y   QF    H K+ V+WN ++ GY  +G G  AV 
Sbjct: 518 TGIGFDGFLPNALLDLYVRCGRMNYAWNQF--NSHEKDVVSWNILLTGYVAHGKGSMAVE 575

Query: 593 LYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCL 652
           L+  M+ SGV PD++TF+++L ACS SG+V  G+E F+SM+  + + P L HY C++D L
Sbjct: 576 LFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLL 635

Query: 653 GRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYS 712
           GRAG   EA   I++MP   DP +W  LL++CR+H +V L + AA+ +F LDP +   Y 
Sbjct: 636 GRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYI 695

Query: 713 LLANIYSSLGRWDDLRAVRELMSENCIVKDPAYS 746
           LL N+Y+  G+WD++  VR+ M EN +  DP  S
Sbjct: 696 LLCNLYADAGKWDEVARVRKTMRENGLTVDPGCS 729

Length = 857

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

 Score =  333 bits (856), Expect = e-104
 Identities = 151/404 (37%), Positives = 236/404 (58%)

Query: 329 MKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEA 388
           ++S GFEPD+     +L+  V+ G +   R +FD MP  +++SW  ++     + N++EA
Sbjct: 149 VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREA 208

Query: 389 IKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGI 448
             LFREM   G   +  T  ++L + A +G   +G+Q+H   LKT    D +V+  LI +
Sbjct: 209 FALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDM 268

Query: 449 YSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSF 508
           YSKC   E A  VF  +PE   V WNSM+AG +L+    EA   + +MR + +   QF+F
Sbjct: 269 YSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTF 328

Query: 509 ATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG 568
           + ++   ++L+     +Q HA + + G+  DI   +AL+++Y K G +  AR  FD M  
Sbjct: 329 SIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR 388

Query: 569 KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEI 628
           KN ++WN +I GY  +G G +AV +++ MIA GV P+ +TF+A+L+AC +SGL + G EI
Sbjct: 389 KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEI 448

Query: 629 FNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHA 688
           F SM  +H ++P   HY CMI+ LGR G   EA  +I   P K    +W  LL++CR+H 
Sbjct: 449 FQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHK 508

Query: 689 NVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRE 732
           N+ L + AAE+L+ + P+    Y +L N+Y+S GR  +   V E
Sbjct: 509 NLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVE 552

Length = 697

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

 Score =  264 bits (676), Expect = 9e-77
 Identities = 151/545 (27%), Positives = 260/545 (47%), Gaps = 54/545 (9%)

Query: 58  NAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFV 117
           NA+LS   +  +L  A+ +F +MPER++ SWN L+    + G  ++AL +Y++M   G  
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVR 184

Query: 118 PTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPV 177
           P   T   V +    + D+  GR  H  V++ G + ++ V NAL+++Y KCG    A  V
Sbjct: 185 PDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLV 244

Query: 178 FEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCG 237
           F+ M   + +++ AM+SG  +    +E LE+F  M   +V  D ++++SV+  C      
Sbjct: 245 FDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACE----- 299

Query: 238 VESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSN 297
                    D +  R +HG       +K GF  D+ + NSL+ MY   G    AE +FS 
Sbjct: 300 ------LLGDERLGREMHG-----YVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSR 348

Query: 298 LPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTG 357
           +  +  VSW  MI+GY +     KA+E    M+     PDE+T  ++L AC   GD+  G
Sbjct: 349 METKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVG 408

Query: 358 R-----------------------------------EMFDSMPSPSVSSWNAMLSSYSQS 382
                                               E+F ++P   V SW ++++    +
Sbjct: 409 VKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLN 468

Query: 383 ENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVA 442
               EA+  FR+M    +KP+  TL   LS+CA +G L  GK++HA  L+T    D ++ 
Sbjct: 469 NRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLP 527

Query: 443 SGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMY 502
           + L+ +Y +C R   A   F+   E D+V WN ++ G   +     A   F +M ++ + 
Sbjct: 528 NALLDLYVRCGRMNYAWNQFN-SHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVN 586

Query: 503 PTQFSFATVLSSCAKLSSSFQGRQV-HAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQ 561
           P + +F ++L +C++     QG +  H+  EK     ++   + ++++  + G +  A  
Sbjct: 587 PDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYN 646

Query: 562 FFDMM 566
           F + M
Sbjct: 647 FINKM 651

Length = 857

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

 Score =  216 bits (552), Expect = 1e-60
 Identities = 127/415 (30%), Positives = 203/415 (48%), Gaps = 27/415 (6%)

Query: 53  DIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMS 112
           D Y  N +L    K   L  A +LFDEMPERN+ SW  +I  LV  G   +A +++ +M 
Sbjct: 157 DQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMW 216

Query: 113 NEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTK 172
            +G      T   + +AS  L     G++ H  V+K G+  + +V+ AL+ +Y+KCG  +
Sbjct: 217 EDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIE 276

Query: 173 HAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCA 232
            A  VF+ M E   V + +M++G A      EAL ++  M    VSID  + S ++ + +
Sbjct: 277 DARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFS 336

Query: 233 REGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAE 292
           R    +E               H +Q H   I+ GF  D+  + +L+D+Y+K G M+ A 
Sbjct: 337 RLAL-LE---------------HAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDAR 380

Query: 293 VIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSG 352
            +F  +P ++++SWN +IAGYG   + TKA+E+ +RM + G  P+ VT + +L AC  SG
Sbjct: 381 NVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSG 440

Query: 353 DIKTGREMFDSMP-----SPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTL 407
             + G E+F SM       P    +  M+    +     EA  + R   F   KP     
Sbjct: 441 LSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPF---KPTVNMW 497

Query: 408 AIILSSCAAMGILESGKQVHAASLKTASH-IDNYVASGLIGIYSKCQRNELAERV 461
           A +L++C     LE G+             ++NYV   L+ +Y+   R   A +V
Sbjct: 498 AALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVV--LLNLYNSSGRQAEAAKV 550

Length = 697

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

 Score =  216 bits (552), Expect = 9e-60
 Identities = 127/416 (30%), Positives = 199/416 (47%), Gaps = 63/416 (15%)

Query: 7   GKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCK 66
           G+ +H ++++ G   D  +CN LI++Y    +   A+ +F +M  KD             
Sbjct: 307 GREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDA------------ 354

Query: 67  SDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASV 126
                              VSW  +IS   +NGL +KAL  Y  M  +   P  IT+ASV
Sbjct: 355 -------------------VSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASV 395

Query: 127 FKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNE 186
             A   L D++ G + H L  + GL   + VANAL+ +Y+KC     A+ VF  + E + 
Sbjct: 396 LSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDV 455

Query: 187 VTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREG---CGVESDVF 243
           +++T++++GL   +R  EAL  FR M+   +  +SV+L + L  CAR G   CG E    
Sbjct: 456 ISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKE---- 510

Query: 244 AQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSV 303
                          +H   ++ G   D  L N+LLD+Y + G M+ A   F N  E+ V
Sbjct: 511 ---------------IHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF-NSHEKDV 554

Query: 304 VSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDS 363
           VSWN+++ GY    + + A+EL  RM   G  PDEVT I++L AC RSG +  G E F S
Sbjct: 555 VSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHS 614

Query: 364 MP-----SPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSC 414
           M      +P++  +  ++    ++    EA     +M    + PD      +L++C
Sbjct: 615 MEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMP---ITPDPAVWGALLNAC 667

Length = 857

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

 Score =  212 bits (540), Expect = 5e-58
 Identities = 130/451 (28%), Positives = 206/451 (45%), Gaps = 82/451 (18%)

Query: 7   GKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCK 66
           G+ +HAH++R G   D  + N LI +Y KC +  SA+ +FD+MP +D  SWNA++S   +
Sbjct: 206 GREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFE 265

Query: 67  SDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASV 126
           + +     +LF  M E +V                                P  +T+ SV
Sbjct: 266 NGECLEGLELFFTMRELSV-------------------------------DPDLMTITSV 294

Query: 127 FKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNE 186
             A   L D   GR  HG V+K G   ++ V N+L+ +Y   G    A  VF  M   + 
Sbjct: 295 ISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDA 354

Query: 187 VTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQS 246
           V++TAM+SG  K     +ALE + LM +  VS D ++++SVL  CA  G   + DV    
Sbjct: 355 VSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLG---DLDV---- 407

Query: 247 DNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSW 306
                    G ++H L  + G  + + ++N+L++MY+K   +D A  +F N+PE+ V+SW
Sbjct: 408 ---------GVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISW 458

Query: 307 NVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMF----- 361
             +IAG     +  +A+   ++M     +P+ VT I  L AC R G +  G+E+      
Sbjct: 459 TSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLR 517

Query: 362 ------DSMPSP-----------------------SVSSWNAMLSSYSQSENHKEAIKLF 392
                   +P+                         V SWN +L+ Y        A++LF
Sbjct: 518 TGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELF 577

Query: 393 REMQFRGVKPDRTTLAIILSSCAAMGILESG 423
             M   GV PD  T   +L +C+  G++  G
Sbjct: 578 NRMVESGVNPDEVTFISLLCACSRSGMVTQG 608

Length = 857

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

 Score =  200 bits (511), Expect = 3e-54
 Identities = 112/367 (30%), Positives = 185/367 (50%), Gaps = 10/367 (2%)

Query: 269 EADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSV-VSWNVMIAGYGQKYQSTKAIELLQ 327
            +  H SNS L     +G ++ A  +  ++ E  V V  +  +A + +  +  +A+E  +
Sbjct: 48  SSSTHDSNSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALF-RLCEWKRAVE--E 104

Query: 328 RMKSCGFEPDEVTSIN------MLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQ 381
             + C        S+       ML   VR G++     +F  MP   + SWN ++  Y++
Sbjct: 105 GSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAK 164

Query: 382 SENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYV 441
           +    EA+ L+  M + GV+PD  T   +L +C  +  L  G++VHA  ++    +D  V
Sbjct: 165 AGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDV 224

Query: 442 ASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEM 501
            + LI +Y KC     A  VF R+P  D + WN+MI+G   N   +E    F  MR+  +
Sbjct: 225 VNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSV 284

Query: 502 YPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQ 561
            P   +  +V+S+C  L     GR++H  + K G+  D+ V ++LI+MY   G    A +
Sbjct: 285 DPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEK 344

Query: 562 FFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGL 621
            F  M  K+ V+W  MI GY +NG  D+A+  Y  M    V PD+IT  ++L+AC+  G 
Sbjct: 345 VFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGD 404

Query: 622 VDVGVEI 628
           +DVGV++
Sbjct: 405 LDVGVKL 411

Length = 857

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

 Score =  170 bits (432), Expect = 1e-44
 Identities = 91/340 (26%), Positives = 149/340 (43%), Gaps = 51/340 (15%)

Query: 122 TLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEM 181
           T  ++ +A  AL  +   +  +  V   G + + Y+ N +L ++ KCG    A  +F+EM
Sbjct: 125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM 184

Query: 182 SEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESD 241
            E N  ++  ++ GL       EA  +FR M        S +      V  R   G+ S 
Sbjct: 185 PERNLASWGTIIGGLVDAGNYREAFALFREMWEDG----SDAEPRTFVVMLRASAGLGS- 239

Query: 242 VFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPER 301
             A           GQQ+HC  +K G   D  +S +L+DMY+K GD++ A  +F  +PE+
Sbjct: 240 ARA-----------GQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEK 288

Query: 302 SVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRS---------- 351
           + V+WN M+AGY     S +A+ L   M+  G   D+ T   M+    R           
Sbjct: 289 TTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAH 348

Query: 352 -------------------------GDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHK 386
                                    G ++  R +FD MP  ++ SWNA+++ Y       
Sbjct: 349 AGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGT 408

Query: 387 EAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQV 426
           +A+++F  M   GV P+  T   +LS+C   G+ E G ++
Sbjct: 409 KAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEI 448

Length = 697

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

 Score =  161 bits (410), Expect = 1e-41
 Identities = 109/367 (29%), Positives = 176/367 (47%), Gaps = 14/367 (3%)

Query: 385 HKEAIKLFREMQFRG-VKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVAS 443
           H+EA++LF  ++         +T   ++ +C A+  +   K V+     +    D Y+ +
Sbjct: 103 HREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMN 162

Query: 444 GLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYP 503
            ++ ++ KC     A R+F  +PE ++  W ++I GL       EAF  F++M ++    
Sbjct: 163 RVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDA 222

Query: 504 TQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFF 563
              +F  +L + A L S+  G+Q+H  + K G V D FV  ALI+MY KCGDI  AR  F
Sbjct: 223 EPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVF 282

Query: 564 DMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVD 623
           D M  K TV WN M+ GYA +GY +EA+ LY +M  SGV  D  TF  ++   S   L++
Sbjct: 283 DGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLE 342

Query: 624 VGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSS 683
              +    + +  G    +   T ++D   + G   +A  + D MP K + + W  L++ 
Sbjct: 343 HAKQAHAGL-IRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK-NLISWNALIAG 400

Query: 684 CRLHANVRLAKRAAEELFRLDPKNSAPYS------LLANIYSSLGRWDDLRAVRELMSEN 737
              + N     +A E   R+  +  AP        L A  YS L   +    + + MSEN
Sbjct: 401 ---YGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLS--EQGWEIFQSMSEN 455

Query: 738 CIVKDPA 744
             +K  A
Sbjct: 456 HRIKPRA 462

Length = 697

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

 Score =  153 bits (388), Expect = 2e-38
 Identities = 87/322 (27%), Positives = 150/322 (46%), Gaps = 2/322 (0%)

Query: 363 SMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILES 422
           +  S S    N+ L +       ++A+KL   MQ   V  D      +   C     +E 
Sbjct: 45  ASSSSSTHDSNSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEE 104

Query: 423 GKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSL 482
           G +V + +L +   +   + + ++ ++ +      A  VF ++PE D+  WN ++ G + 
Sbjct: 105 GSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAK 164

Query: 483 NSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFV 542
                EA   + +M    + P  ++F  VL +C  +    +GR+VHA + + G+  D+ V
Sbjct: 165 AGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDV 224

Query: 543 GSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGV 602
            +ALI MY KCGD+  AR  FD M  ++ ++WN MI GY +NG   E + L+  M    V
Sbjct: 225 VNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSV 284

Query: 603 KPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAE 662
            PD +T  ++++AC   G   +G E+ +   +  G    +     +I      G + EAE
Sbjct: 285 DPDLMTITSVISACELLGDERLGREM-HGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAE 343

Query: 663 MLIDEMPCKDDPVIWEVLLSSC 684
            +   M  K D V W  ++S  
Sbjct: 344 KVFSRMETK-DAVSWTAMISGY 364

Length = 857

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

 Score =  127 bits (320), Expect = 3e-30
 Identities = 67/230 (29%), Positives = 114/230 (49%), Gaps = 31/230 (13%)

Query: 6   AGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQC 65
           AG+ LH  +L+ G+  DTF+   LI++YSKC                             
Sbjct: 242 AGQQLHCCVLKTGVVGDTFVSCALIDMYSKCG---------------------------- 273

Query: 66  KSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLAS 125
              D+E A  +FD MPE+  V+WN++++    +G  E+AL +Y +M + G      T + 
Sbjct: 274 ---DIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSI 330

Query: 126 VFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPN 185
           + +  + L  +EH ++ H  +I+ G   +I    AL+ LY+K G  + A  VF+ M   N
Sbjct: 331 MIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKN 390

Query: 186 EVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREG 235
            +++ A+++G     R  +A+EMF  MI + V+ + V+  +VL  C   G
Sbjct: 391 LISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSG 440

Length = 697

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

 Score = 78.0 bits (192), Expect = 1e-14
 Identities = 74/316 (23%), Positives = 143/316 (45%), Gaps = 39/316 (12%)

Query: 135 DVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMS----EPNEVTFT 190
           D++   R   LV + GL  +  +   L+S  AK G       VF EM     E N  TF 
Sbjct: 452 DIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFG 511

Query: 191 AMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVES--DVFAQ--S 246
           A++ G A+  +V +A   + +M  K V  D V  ++++  C + G  V+   DV A+  +
Sbjct: 512 ALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSG-AVDRAFDVLAEMKA 570

Query: 247 DNKFSRNVH-------------GQ-----QVHCLTIKLGFEADLHLSNSLLDMYAKNGDM 288
           +       H             GQ     +V+ +  +   +    +    ++  ++ GD 
Sbjct: 571 ETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDW 630

Query: 289 DSAEVIFSNLPERSVV------SWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSI 342
           D A  I+ ++ ++ V       S  V +AG+       KA E+LQ  +  G +   V+  
Sbjct: 631 DFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLD--KAFEILQDARKQGIKLGTVSYS 688

Query: 343 NMLVACVRSGDIKTGREMFDSMPS----PSVSSWNAMLSSYSQSENHKEAIKLFREMQFR 398
           +++ AC  + + K   E+++ + S    P+VS+ NA++++  +     +A+++  EM+  
Sbjct: 689 SLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL 748

Query: 399 GVKPDRTTLAIILSSC 414
           G+ P+  T +I+L + 
Sbjct: 749 GLCPNTITYSILLVAS 764

Length = 1060

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

 Score = 65.9 bits (162), Expect = 8e-14
 Identities = 15/50 (30%), Positives = 29/50 (58%)

Query: 569 KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSH 618
            + VT+N +I GY + G  +EA++L+ +M   G+KP+  T+  ++     
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 = 71.1 bits (174), Expect = 1e-12
 Identities = 71/323 (21%), Positives = 142/323 (43%), Gaps = 48/323 (14%)

Query: 323 IELLQRMKSCG-FEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQ 381
           I+LL+ M+  G  + D++       AC +   +K        + +P++S++N ++S  + 
Sbjct: 390 IDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSVCAS 449

Query: 382 SENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYV 441
           S++   A+++ R +Q  G+K D      ++S+CA                          
Sbjct: 450 SQDIDGALRVLRLVQEAGLKADCKLYTTLISTCA-------------------------- 483

Query: 442 ASGLIGIYSKCQRNELAERVFHRIP----ELDIVCWNSMIAGLSLNSLDIEAFMFFKQMR 497
                    K  + +    VFH +     E ++  + ++I G +      +AF  +  MR
Sbjct: 484 ---------KSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMR 534

Query: 498 QNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVND---IFVGSALIEMYCKCG 554
              + P +  F  ++S+C +  +  +   V A+++ + +  D   I VG AL++     G
Sbjct: 535 SKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVG-ALMKACANAG 593

Query: 555 DIYGARQFFDMMHGKNTVTWNEM----IHGYAQNGYGDEAVRLYKDMIASGVKPDDITFV 610
            +  A++ + M+H  N     E+    ++  +Q G  D A+ +Y DM   GVKPD++ F 
Sbjct: 594 QVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFS 653

Query: 611 AILTACSHSGLVDVGVEIFNSMQ 633
           A++    H+G +D   EI    +
Sbjct: 654 ALVDVAGHAGDLDKAFEILQDAR 676

Length = 1060

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

 Score = 64.5 bits (157), Expect = 2e-10
 Identities = 39/121 (32%), Positives = 64/121 (52%), Gaps = 6/121 (4%)

Query: 3   AHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILS 62
           A + GK +HAH+LR G+  D FL N L++LY +C   + A + F+    KD+ SWN +L+
Sbjct: 504 ALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN-SHEKDVVSWNILLT 562

Query: 63  AQCKSDDLEFAYKLFDEMPERNV----VSWNNLISALVRNGLEEKALSVYNKMSNE-GFV 117
                     A +LF+ M E  V    V++ +L+ A  R+G+  + L  ++ M  +    
Sbjct: 563 GYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSIT 622

Query: 118 P 118
           P
Sbjct: 623 P 623

Length = 857

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

 Score = 64.1 bits (156), Expect = 2e-10
 Identities = 86/442 (19%), Positives = 189/442 (42%), Gaps = 46/442 (10%)

Query: 181 MSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVES 240
           +  P   TF  +MS  A +  +  AL + RL+    +  D    ++++  CA+ G  V++
Sbjct: 432 IRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSG-KVDA 490

Query: 241 --DVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNL 298
             +VF +  N                  G EA++H   +L+D  A+ G +  A   +  +
Sbjct: 491 MFEVFHEMVNA-----------------GVEANVHTFGALIDGCARAGQVAKAFGAYGIM 533

Query: 299 PERSV----VSWNVMIAGYGQKYQSTKAIELLQRMK--SCGFEPDEVTSINMLVACVRSG 352
             ++V    V +N +I+  GQ     +A ++L  MK  +   +PD +T   ++ AC  +G
Sbjct: 534 RSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAG 593

Query: 353 DIKTGREMFDSMP------SPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTT 406
            +   +E++  +       +P V  +   ++S SQ  +   A+ ++ +M+ +GVKPD   
Sbjct: 594 QVDRAKEVYQMIHEYNIKGTPEV--YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVF 651

Query: 407 LAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIP 466
            + ++      G L+   ++   + K    +     S L+G  S  +  + A  ++  I 
Sbjct: 652 FSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIK 711

Query: 467 ELD----IVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSF 522
            +     +   N++I  L   +   +A     +M++  + P   +++ +L +  +   + 
Sbjct: 712 SIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDAD 771

Query: 523 QGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYA 582
            G  + +Q ++DG   ++ +   +  + C        R+F         V   +      
Sbjct: 772 VGLDLLSQAKEDGIKPNLVMCRCITGL-CL-------RRFEKACALGEPVVSFDSGRPQI 823

Query: 583 QNGYGDEAVRLYKDMIASGVKP 604
           +N +   A+ +Y++ I++G  P
Sbjct: 824 ENKWTSWALMVYRETISAGTLP 845

Length = 1060

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

 Score = 55.1 bits (134), Expect = 5e-10
 Identities = 17/49 (34%), Positives = 30/49 (61%)

Query: 367 PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCA 415
           P V ++N ++  Y +    +EA+KLF EM+ RG+KP+  T +I++    
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 50.5 bits (122), Expect = 2e-08
 Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 4/50 (8%)

Query: 52 KDIYSWNAILSAQCKSDDLEFAYKLFDEMPER----NVVSWNNLISALVR 97
           D+ ++N ++   CK   +E A KLF+EM +R    NV +++ LI  L +
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 = 49.7 bits (120), Expect = 3e-08
 Identities = 14/46 (30%), Positives = 24/46 (52%)

Query: 84  NVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKA 129
           +VV++N LI    + G  E+AL ++N+M   G  P   T + +   
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDG 47

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

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

 Score = 48.2 bits (116), Expect = 1e-07
 Identities = 12/50 (24%), Positives = 27/50 (54%)

Query: 184 PNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAR 233
           P+ VT+  ++ G  K  +V EAL++F  M ++ +  +  + S ++    +
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 47.4 bits (114), Expect = 2e-07
 Identities = 14/39 (35%), Positives = 24/39 (61%)

Query: 302 SVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVT 340
            VV++N +I GY +K +  +A++L   MK  G +P+  T
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYT 40

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

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

 Score = 45.5 bits (109), Expect = 8e-07
 Identities = 14/35 (40%), Positives = 23/35 (65%)

Query: 572 VTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD 606
           VT+N +I G  + G  +EA+ L+K+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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 45.9 bits (110), Expect = 1e-06
 Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 4/50 (8%)

Query: 153 KNIYVANALLSLYAKCGWTKHAVPVFEEMSE----PNEVTFTAMMSGLAK 198
            ++   N L+  Y K G  + A+ +F EM +    PN  T++ ++ GL K
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 51.4 bits (123), Expect = 2e-06
 Identities = 80/415 (19%), Positives = 165/415 (39%), Gaps = 88/415 (21%)

Query: 258 QVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLP----ERSVVSWNVMIAGY 313
           +V  L  + G +AD  L  +L+   AK+G +D+   +F  +     E +V ++  +I G 
Sbjct: 458 RVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGC 517

Query: 314 GQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWN 373
            +  Q  KA      M+S   +PD V    ++ AC +SG +    ++   M         
Sbjct: 518 ARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEM--------- 568

Query: 374 AMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKT 433
                  ++E H              + PD  T+  ++ +CA  G ++  K+V+      
Sbjct: 569 -------KAETHP-------------IDPDHITVGALMKACANAGQVDRAKEVY------ 602

Query: 434 ASHIDNYVASGLIGIY----SKCQRN---ELAERVFHRIPELDI----VCWNSMI--AGL 480
              I  Y   G   +Y    + C +    + A  ++  + +  +    V +++++  AG 
Sbjct: 603 -QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGH 661

Query: 481 SLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDI 540
           +   LD +AF   +  R+  +     S+++++ +C+   +  +  +++  I+       +
Sbjct: 662 A-GDLD-KAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTV 719

Query: 541 FVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS 600
              +ALI   C+        Q                           +A+ +  +M   
Sbjct: 720 STMNALITALCE------GNQL-------------------------PKALEVLSEMKRL 748

Query: 601 GVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMID-CLGR 654
           G+ P+ IT+  +L A       DVG+++ +  + D G++P L    C+   CL R
Sbjct: 749 GLCPNTITYSILLVASERKDDADVGLDLLSQAKED-GIKPNLVMCRCITGLCLRR 802

Length = 1060

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

 Score = 50.3 bits (120), Expect = 4e-06
 Identities = 27/88 (30%), Positives = 46/88 (52%), Gaps = 4/88 (4%)

Query: 600 SGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFH 659
           +G+K D   +  +++ C+ SG VD   E+F+ M  + GVE  +  +  +ID   RAG   
Sbjct: 466 AGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMV-NAGVEANVHTFGALIDGCARAGQVA 524

Query: 660 EAEMLIDEMPCKD---DPVIWEVLLSSC 684
           +A      M  K+   D V++  L+S+C
Sbjct: 525 KAFGAYGIMRSKNVKPDRVVFNALISAC 552

Length = 1060

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

 Score = 43.6 bits (104), Expect = 4e-06
 Identities = 14/31 (45%), Positives = 21/31 (67%)

Query: 572 VTWNEMIHGYAQNGYGDEAVRLYKDMIASGV 602
           VT+N +I GY + G  +EA+ L+K+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 = 42.4 bits (101), Expect = 1e-05
 Identities = 11/33 (33%), Positives = 24/33 (72%)

Query: 371 SWNAMLSSYSQSENHKEAIKLFREMQFRGVKPD 403
           ++N ++    ++   +EA++LF+EM+ RG++PD
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 42.0 bits (100), Expect = 2e-05
 Identities = 11/50 (22%), Positives = 27/50 (54%), Gaps = 2/50 (4%)

Query: 469 DIVCWNSMIAGL-SLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAK 517
           D+V +N++I G      ++ EA   F +M++  + P  ++++ ++    K
Sbjct: 2   DVVTYNTLIDGYCKKGKVE-EALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 41.3 bits (98), Expect = 2e-05
 Identities = 11/31 (35%), Positives = 24/31 (77%)

Query: 370 SSWNAMLSSYSQSENHKEAIKLFREMQFRGV 400
            ++N+++S Y ++   +EA++LF+EM+ +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|144943 pfam01535, PPR, PPR repeat

 Score = 41.3 bits (98), Expect = 3e-05
 Identities = 11/31 (35%), Positives = 20/31 (64%)

Query: 86  VSWNNLISALVRNGLEEKALSVYNKMSNEGF 116
           V++N+LIS   + G  E+AL ++ +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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 40.9 bits (97), Expect = 4e-05
 Identities = 12/34 (35%), Positives = 19/34 (55%)

Query: 86  VSWNNLISALVRNGLEEKALSVYNKMSNEGFVPT 119
           V++N LI  L + G  E+AL ++ +M   G  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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 46.8 bits (111), Expect = 5e-05
 Identities = 34/185 (18%), Positives = 74/185 (40%), Gaps = 8/185 (4%)

Query: 57  WNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALV----RNGLEEKALSVYNKMS 112
           +   +++  +  D +FA  ++D+M ++ V       SALV      G  +KA  +     
Sbjct: 617 YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDAR 676

Query: 113 NEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTK 172
            +G     ++ +S+  A +   + +     +  +  I L   +   NAL++   +     
Sbjct: 677 KQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLP 736

Query: 173 HAVPVFEEMSE----PNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVL 228
            A+ V  EM      PN +T++ ++    + D     L++        +  + V    + 
Sbjct: 737 KALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT 796

Query: 229 GVCAR 233
           G+C R
Sbjct: 797 GLCLR 801

Length = 1060

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

 Score = 40.1 bits (95), Expect = 7e-05
 Identities = 13/35 (37%), Positives = 21/35 (60%)

Query: 304 VSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDE 338
           V++N +I G  +  +  +A+EL + MK  G EPD 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 39.0 bits (92), Expect = 1e-04
 Identities = 12/29 (41%), Positives = 20/29 (68%)

Query: 187 VTFTAMMSGLAKTDRVVEALEMFRLMIRK 215
           VT+ +++SG  K  ++ EALE+F+ M  K
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEK 29

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 = 20/31 (64%)

Query: 304 VSWNVMIAGYGQKYQSTKAIELLQRMKSCGF 334
           V++N +I+GY +  +  +A+EL + MK  G 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 38.2 bits (90), Expect = 4e-04
 Identities = 14/35 (40%), Positives = 21/35 (60%)

Query: 187 VTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDS 221
           VT+  ++ GL K  RV EALE+F+ M  + +  D 
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 = 37.3 bits (88), Expect = 5e-04
 Identities = 12/28 (42%), Positives = 17/28 (60%)

Query: 570 NTVTWNEMIHGYAQNGYGDEAVRLYKDM 597
           + VT+N +I G  + G  DEAV L  +M
Sbjct: 6   DVVTYNTLIDGLCRAGRVDEAVELLDEM 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 = 37.4 bits (88), Expect = 7e-04
 Identities = 11/24 (45%), Positives = 13/24 (54%)

Query: 645 YTCMIDCLGRAGHFHEAEMLIDEM 668
           Y  +ID L +AG   EA  L  EM
Sbjct: 3   YNTLIDGLCKAGRVEEALELFKEM 26

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 = 37.3 bits (88), Expect = 7e-04
 Identities = 11/30 (36%), Positives = 19/30 (63%)

Query: 183 EPNEVTFTAMMSGLAKTDRVVEALEMFRLM 212
           +P+ VT+  ++ GL +  RV EA+E+   M
Sbjct: 4   KPDVVTYNTLIDGLCRAGRVDEAVELLDEM 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|144943 pfam01535, PPR, PPR repeat

 Score = 36.7 bits (86), Expect = 0.001
 Identities = 13/31 (41%), Positives = 21/31 (67%)

Query: 55 YSWNAILSAQCKSDDLEFAYKLFDEMPERNV 85
           ++N+++S  CK+  LE A +LF EM E+ V
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 = 36.6 bits (86), Expect = 0.001
 Identities = 9/34 (26%), Positives = 19/34 (55%)

Query: 48 KMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMP 81
          K    D+ ++N ++   C++  ++ A +L DEM 
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 = 35.5 bits (83), Expect = 0.003
 Identities = 9/24 (37%), Positives = 11/24 (45%)

Query: 645 YTCMIDCLGRAGHFHEAEMLIDEM 668
           Y  +I    +AG   EA  L  EM
Sbjct: 3   YNSLISGYCKAGKLEEALELFKEM 26

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 = 35.6 bits (83), Expect = 0.003
 Identities = 12/34 (35%), Positives = 21/34 (61%)

Query: 571 TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKP 604
             T+N ++   A+ G  D A+ + ++M ASG+KP
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 35.5 bits (83), Expect = 0.004
 Identities = 12/42 (28%), Positives = 26/42 (61%), Gaps = 4/42 (9%)

Query: 276 NSLLDMYAKNGDMDSAEVIFSNLPER----SVVSWNVMIAGY 313
           N+L+D Y K G ++ A  +F+ + +R    +V +++++I G 
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	748
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.98
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.97
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.97
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.96
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.9
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.9
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.89
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.87
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.86
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.83
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.83
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.81
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.8
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.79
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.79
PRK14574	822	hmsH outer membrane protein; Provisional	99.78
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.78
KOG2076	895	consensus RNA polymerase III transcription factor	99.78
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.77
PRK14574	822	hmsH outer membrane protein; Provisional	99.76
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.74
KOG2076	895	consensus RNA polymerase III transcription factor	99.72
KOG2003	840	consensus TPR repeat-containing protein [General f	99.72
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.72
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.7
KOG2003	840	consensus TPR repeat-containing protein [General f	99.7
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.64
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.62
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.56
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.55
KOG1126	638	consensus DNA-binding cell division cycle control	99.54
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.52
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.52
KOG1126	638	consensus DNA-binding cell division cycle control	99.52
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.5
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.5
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.48
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.46
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.45
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.44
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.42
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.42
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.4
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.38
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.38
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.38
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.37
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.36
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.36
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.36
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.35
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.33
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.33
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.32
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.31
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.3
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.3
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.29
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.29
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.27
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.27
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.23
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.23
PRK11189	296	lipoprotein NlpI; Provisional	99.21
KOG1129	478	consensus TPR repeat-containing protein [General f	99.2
PRK12370	553	invasion protein regulator; Provisional	99.18
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.17
PF13041	50	PPR_2: PPR repeat family	99.17
KOG1129	478	consensus TPR repeat-containing protein [General f	99.16
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.16
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.13
PRK12370	553	invasion protein regulator; Provisional	99.13
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.12
PF13041	50	PPR_2: PPR repeat family	99.12
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.11
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.11
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.1
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.09
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.08
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.05
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.04
PRK11189	296	lipoprotein NlpI; Provisional	98.98
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.96
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.95
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.91
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.9
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.88
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.88
KOG1125	579	consensus TPR repeat-containing protein [General f	98.84
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.81
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.8
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.79
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.73
PRK15359	144	type III secretion system chaperone protein SscB;	98.71
PRK15359	144	type III secretion system chaperone protein SscB;	98.69
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.67
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.66
PRK04841	903	transcriptional regulator MalT; Provisional	98.66
PLN02789	320	farnesyltranstransferase	98.57
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.56
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.55
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.54
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.52
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.51
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.49
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.47
KOG1125	579	consensus TPR repeat-containing protein [General f	98.45
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.45
PRK04841	903	transcriptional regulator MalT; Provisional	98.45
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.43
PF12854	34	PPR_1: PPR repeat	98.43
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.42
PF12854	34	PPR_1: PPR repeat	98.41
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.4
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.39
PLN02789	320	farnesyltranstransferase	98.39
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.37
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.34
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.3
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.29
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.28
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.27
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.25
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.2
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.17
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.17
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.17
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.17
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.16
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.13
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.12
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.1
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.08
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.07
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.06
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.05
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.04
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.03
PRK15331	165	chaperone protein SicA; Provisional	97.98
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.95
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.94
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.94
KOG0553	304	consensus TPR repeat-containing protein [General f	97.93
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.92
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.9
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.89
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.89
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.87
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.86
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.84
PF13371	73	TPR_9: Tetratricopeptide repeat	97.81
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.81
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.78
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.78
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.77
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.76
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.73
KOG0553	304	consensus TPR repeat-containing protein [General f	97.72
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.69
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.65
PF13431	34	TPR_17: Tetratricopeptide repeat	97.64
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.6
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.52
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.51
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.51
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.49
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.48
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.46
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.45
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.45
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.44
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.41
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.4
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.39
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.37
PF13428	44	TPR_14: Tetratricopeptide repeat	97.37
PRK10803	263	tol-pal system protein YbgF; Provisional	97.36
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.34
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.34
PF12688	120	TPR_5: Tetratrico peptide repeat	97.33
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.32
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.3
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.3
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.29
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.27
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.25
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.25
PF13371	73	TPR_9: Tetratricopeptide repeat	97.24
PRK10803	263	tol-pal system protein YbgF; Provisional	97.21
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.17
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.12
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.1
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.08
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.95
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.92
PRK11906	458	transcriptional regulator; Provisional	96.91
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.89
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.89
PF13512	142	TPR_18: Tetratricopeptide repeat	96.87
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.86
PF12688	120	TPR_5: Tetratrico peptide repeat	96.85
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.83
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.78
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.76
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.75
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.72
KOG4555	175	consensus TPR repeat-containing protein [Function	96.69
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.67
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.61
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.59
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.56
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.56
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.54
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.49
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.42
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.36
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.35
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.31
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.29
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.27
PRK11619	644	lytic murein transglycosylase; Provisional	96.13
KOG4234	271	consensus TPR repeat-containing protein [General f	95.98
KOG2041	1189	consensus WD40 repeat protein [General function pr	95.97
KOG1585	308	consensus Protein required for fusion of vesicles	95.96
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.94
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.93
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.88
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.81
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.81
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.67
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.59
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.56
KOG1258	577	consensus mRNA processing protein [RNA processing	95.56
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.54
PRK15331	165	chaperone protein SicA; Provisional	95.53
PRK11906	458	transcriptional regulator; Provisional	95.44
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.41
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.28
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	95.25
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.21
PF13512	142	TPR_18: Tetratricopeptide repeat	94.96
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.84
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	94.69
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	94.69
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.66
KOG4555	175	consensus TPR repeat-containing protein [Function	94.63
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.6
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.49
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.46
KOG1586	288	consensus Protein required for fusion of vesicles	94.45
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.43
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.3
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.27
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	94.24
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.21
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.1
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.07
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.06
KOG3941	406	consensus Intermediate in Toll signal transduction	94.06
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	93.92
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.88
PF13428	44	TPR_14: Tetratricopeptide repeat	93.35
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	93.35
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.3
KOG1258	577	consensus mRNA processing protein [RNA processing	93.2
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	93.17
KOG3941	406	consensus Intermediate in Toll signal transduction	93.04
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	92.91
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	92.75
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	92.75
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	92.72
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.62
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.57
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	92.55
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	92.47
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	92.24
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	92.09
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.03
KOG4648	536	consensus Uncharacterized conserved protein, conta	91.81
PRK09687	280	putative lyase; Provisional	91.77
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	91.76
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	91.58
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.35
KOG2610	491	consensus Uncharacterized conserved protein [Funct	91.32
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	91.21
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.21
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	91.17
KOG1941	518	consensus Acetylcholine receptor-associated protei	91.14
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	91.06
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	91.03
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	90.68
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	90.44
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	90.25
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	90.07
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	89.56
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	89.26
KOG4648	536	consensus Uncharacterized conserved protein, conta	89.25
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	88.67
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	88.56
COG3947	361	Response regulator containing CheY-like receiver a	88.55
PRK10941	269	hypothetical protein; Provisional	88.48
COG3629	280	DnrI DNA-binding transcriptional activator of the	88.47
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	88.33
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	88.22
PRK09687	280	putative lyase; Provisional	88.19
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	88.18
COG4105	254	ComL DNA uptake lipoprotein [General function pred	88.13
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	88.09
PF04910	360	Tcf25: Transcriptional repressor TCF25; InterPro:	87.96
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	87.91
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	87.85
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	87.81
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	87.77
COG4455	273	ImpE Protein of avirulence locus involved in tempe	87.72
KOG1586	288	consensus Protein required for fusion of vesicles	87.67
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	87.66
KOG1585	308	consensus Protein required for fusion of vesicles	87.56
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	87.53
KOG4234	271	consensus TPR repeat-containing protein [General f	87.26
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	87.24
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	87.03
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	86.98
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	86.61
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.51
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	86.4
COG4455	273	ImpE Protein of avirulence locus involved in tempe	86.16
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	86.13
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	85.9
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	85.72
PRK12798	421	chemotaxis protein; Reviewed	84.95
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	84.55
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	84.06
COG1747	711	Uncharacterized N-terminal domain of the transcrip	83.99
KOG4507	886	consensus Uncharacterized conserved protein, conta	83.81
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	83.59
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	83.08
KOG1550	552	consensus Extracellular protein SEL-1 and related	83.06
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	82.44
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	81.95
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	81.58
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	80.19

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.5e-91  Score=777.97  Aligned_cols=661  Identities=33%  Similarity=0.588  Sum_probs=638.8

Q ss_pred             cchhhhHHHHHHHHhCCCCCcchhhHHHHHHHccCCchhhhhhhhcCCC----CchhhhhHHHHHhhcCCChhHHHHhhc
Q 041741            3 AHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPH----KDIYSWNAILSAQCKSDDLEFAYKLFD   78 (748)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~   78 (748)
                      .+..|..++..+...|.+|+..+|..++.+|.+.+..+.|..++..+.+    ++...++.++..|++.|+++.|.++|+
T Consensus        66 ~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~~g~~~~A~~~f~  145 (857)
T PLN03077         66 QLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFG  145 (857)
T ss_pred             CHHHHHHHHHHHHhcCCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHhCCChHHHHHHHh
Confidence            4678899999999999999999999999999999999999999987653    788899999999999999999999999


Q ss_pred             cCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHH
Q 041741           79 EMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVA  158 (748)
Q Consensus        79 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  158 (748)
                      +|++||..+|+.+|.+|++.|++++|+++|++|...|+.||..||+.++++|+..+++..+.+++..|.+.|+.|+..++
T Consensus       146 ~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~  225 (857)
T PLN03077        146 KMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVV  225 (857)
T ss_pred             cCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCChhhHHHHHhcCCCCCeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhccCCCC
Q 041741          159 NALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGV  238 (748)
Q Consensus       159 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~  238 (748)
                      +.|+.+|+++|++++|.++|++|.+||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.+|.+|+.     
T Consensus       226 n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~-----  300 (857)
T PLN03077        226 NALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACEL-----  300 (857)
T ss_pred             hHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh-----
Confidence            999999999999999999999999999999999999999999999999999999999887777776666655544     


Q ss_pred             CcchhcccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHHHHHhccCCCCCcccHHHHHHHHHhcCC
Q 041741          239 ESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQ  318 (748)
Q Consensus       239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~  318 (748)
                                                                                                   .|+
T Consensus       301 -----------------------------------------------------------------------------~g~  303 (857)
T PLN03077        301 -----------------------------------------------------------------------------LGD  303 (857)
T ss_pred             -----------------------------------------------------------------------------cCC
Confidence                                                                                         345


Q ss_pred             hhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 041741          319 STKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFR  398 (748)
Q Consensus       319 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  398 (748)
                      .+.+.+++..|.+.|+.||..+|+.++.+|++.|++++|.++|+.|..||..+|+.++.+|++.|++++|+++|++|.+.
T Consensus       304 ~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~  383 (857)
T PLN03077        304 ERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQD  383 (857)
T ss_pred             hHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            56677888889999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHH
Q 041741          399 GVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIA  478 (748)
Q Consensus       399 g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~  478 (748)
                      |+.||..||..++.+|++.|+++.+.++++.+.+.|..++..+++.++.+|++.|++++|.++|+++.++|+.+|+++|.
T Consensus       384 g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~  463 (857)
T PLN03077        384 NVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIA  463 (857)
T ss_pred             CCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHH
Q 041741          479 GLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYG  558 (748)
Q Consensus       479 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  558 (748)
                      +|++.|+.++|+.+|++|.. ++.||..||+.++.+|++.|+.+.+.+++..+.+.|+.++..++++++.+|+++|++++
T Consensus       464 ~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~  542 (857)
T PLN03077        464 GLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNY  542 (857)
T ss_pred             HHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHH
Confidence            99999999999999999986 58999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCC
Q 041741          559 ARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGV  638 (748)
Q Consensus       559 A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  638 (748)
                      |.++|+.+ .+|..+|++++.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|.+.|++++|.++|+.|....|+
T Consensus       543 A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi  621 (857)
T PLN03077        543 AWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSI  621 (857)
T ss_pred             HHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCC
Confidence            99999999 99999999999999999999999999999999999999999999999999999999999999999668999


Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHH
Q 041741          639 EPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIY  718 (748)
Q Consensus       639 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  718 (748)
                      .|+..+|..++++|.+.|++++|.+++++|+.+|+..+|..++.+|...|+.+.++.+.+++++++|+++..|..|+++|
T Consensus       622 ~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~y  701 (857)
T PLN03077        622 TPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLY  701 (857)
T ss_pred             CCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCChHHHHHHHHHHHhcCCCCCCCCCC
Q 041741          719 SSLGRWDDLRAVRELMSENCIVKDPAYSL  747 (748)
Q Consensus       719 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  747 (748)
                      ...|+|++|.++.+.|+++|++++||+||
T Consensus       702 a~~g~~~~a~~vr~~M~~~g~~k~~g~s~  730 (857)
T PLN03077        702 ADAGKWDEVARVRKTMRENGLTVDPGCSW  730 (857)
T ss_pred             HHCCChHHHHHHHHHHHHcCCCCCCCccE
Confidence            99999999999999999999999999999

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.6e-75  Score=650.16  Aligned_cols=613  Identities=18%  Similarity=0.296  Sum_probs=586.0

Q ss_pred             ccchhhhHHHHHHHHhCCCCCcchhhHHHHHHHccCCchhhhhhhhcCCCCchhhhhHHHHHhhcCCChhHHHHhhccCC
Q 041741            2 KAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMP   81 (748)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   81 (748)
                      +++..|.++|..+...|..+++..+|+|+.+|.+.|+++.|.++|++|++||+.+|+.+|.+|++.|++++|..+|++|.
T Consensus       100 ~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~  179 (857)
T PLN03077        100 RAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRML  179 (857)
T ss_pred             CCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999996


Q ss_pred             ----CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhH
Q 041741           82 ----ERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYV  157 (748)
Q Consensus        82 ----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  157 (748)
                          .||..+|+.+++++...+++..+.+++..|.+.|+.||..+++.++.+|++.|+++.|.++|+.|.    .||..+
T Consensus       180 ~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~----~~d~~s  255 (857)
T PLN03077        180 WAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP----RRDCIS  255 (857)
T ss_pred             HcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCC----CCCcch
Confidence                499999999999999999999999999999999999999999999999999999999999999986    578899


Q ss_pred             HHHHHHHHHhcCChhhHHHHHhcCC----CCCeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhc
Q 041741          158 ANALLSLYAKCGWTKHAVPVFEEMS----EPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAR  233 (748)
Q Consensus       158 ~~~li~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~  233 (748)
                      |+++|.+|++.|+.++|.++|++|.    .||..+|+.++.++++.|+.+.|.+++..|.+.|+.||..+|+.++.+|++
T Consensus       256 ~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k  335 (857)
T PLN03077        256 WNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLS  335 (857)
T ss_pred             hHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHh
Confidence            9999999999999999999999996    499999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCcchhcccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHHHHHhccCC----CCCcccHHHH
Q 041741          234 EGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLP----ERSVVSWNVM  309 (748)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~l  309 (748)
                      .             +.++.   +.++++.|.    .||..+|+.++.+|++.|++++|.++|+.|.    .||..+|+.+
T Consensus       336 ~-------------g~~~~---A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~l  395 (857)
T PLN03077        336 L-------------GSWGE---AEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASV  395 (857)
T ss_pred             c-------------CCHHH---HHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHH
Confidence            9             56666   778887764    5789999999999999999999999999885    4899999999


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCCCCcchHHHHHHHHHccCCHHHHH
Q 041741          310 IAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAI  389 (748)
Q Consensus       310 ~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  389 (748)
                      +.+|++.|+++.+.++++.|.+.|+.|+..+++.++.+|++.|++++|.++|+.|.++|..+|+.++.+|++.|+.++|+
T Consensus       396 l~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~  475 (857)
T PLN03077        396 LSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEAL  475 (857)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCC
Q 041741          390 KLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELD  469 (748)
Q Consensus       390 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  469 (748)
                      .+|++|.. +++||..||..++.+|++.|+++.+.+++..+.+.|..++..+++.++.+|+++|++++|.++|+.+ .+|
T Consensus       476 ~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~d  553 (857)
T PLN03077        476 IFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKD  553 (857)
T ss_pred             HHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-CCC
Confidence            99999986 5999999999999999999999999999999999999999999999999999999999999999999 899


Q ss_pred             cchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHH-HhCCCCchHHHHHHHH
Q 041741          470 IVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIE-KDGYVNDIFVGSALIE  548 (748)
Q Consensus       470 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~  548 (748)
                      +.+||++|.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|. +.|+.|+..+|+.++.
T Consensus       554 ~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~  633 (857)
T PLN03077        554 VVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVD  633 (857)
T ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999 6799999999999999


Q ss_pred             HHHhcCCHHHHHHHhhhcC-CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHhcCCCChHHHH
Q 041741          549 MYCKCGDIYGARQFFDMMH-GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPD-DITFVAILTACSHSGLVDVGV  626 (748)
Q Consensus       549 ~~~~~g~~~~A~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~  626 (748)
                      +|++.|++++|.+++++|. +||..+|++|+.+|...|+.+.+....+++.+.  .|+ ...|..+...|...|++++|.
T Consensus       634 ~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l--~p~~~~~y~ll~n~ya~~g~~~~a~  711 (857)
T PLN03077        634 LLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFEL--DPNSVGYYILLCNLYADAGKWDEVA  711 (857)
T ss_pred             HHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhh--CCCCcchHHHHHHHHHHCCChHHHH
Confidence            9999999999999999996 799999999999999999999999999999884  555 456778888999999999999


Q ss_pred             HHHHHhhhhhCCCCChh
Q 041741          627 EIFNSMQLDHGVEPILD  643 (748)
Q Consensus       627 ~~~~~~~~~~~~~~~~~  643 (748)
                      ++.+.| ++.|+++++.
T Consensus       712 ~vr~~M-~~~g~~k~~g  727 (857)
T PLN03077        712 RVRKTM-RENGLTVDPG  727 (857)
T ss_pred             HHHHHH-HHcCCCCCCC
Confidence            999999 6889888764

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

Probab=100.00  E-value=1.6e-66  Score=566.37  Aligned_cols=479  Identities=33%  Similarity=0.584  Sum_probs=469.3

Q ss_pred             CCchHHHHHHHHHHHhcCChhHHHHHhccCCC-----CCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHH
Q 041741          269 EADLHLSNSLLDMYAKNGDMDSAEVIFSNLPE-----RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSIN  343 (748)
Q Consensus       269 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  343 (748)
                      ..+...++.++..+.+.|++++|.++|+.|..     +|..+|+.++.+|.+.++++.+.+++..|...|+.||..+|+.
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            44566899999999999999999999998853     5778999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCHHHHHHHhccCCCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHH
Q 041741          344 MLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESG  423 (748)
Q Consensus       344 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a  423 (748)
                      ++.+|++.|+++.|.++|++|.+||..+|+.++.+|++.|++++|+++|++|.+.|+.|+..+|..++.+|...|..+.+
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~  243 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAG  243 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCC
Q 041741          424 KQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYP  503 (748)
Q Consensus       424 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  503 (748)
                      .+++..+.+.|..++..+++.++.+|++.|++++|.++|+.|.++|+.+||++|.+|++.|+.++|+++|++|.+.|+.|
T Consensus       244 ~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~p  323 (697)
T PLN03081        244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSI  323 (697)
T ss_pred             HHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHH
Q 041741          504 TQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQ  583 (748)
Q Consensus       504 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~  583 (748)
                      |..||+.++.+|++.|+++.|.+++..|.+.|+.|+..+++.|+.+|+++|++++|.++|++|.+||..+|++||.+|++
T Consensus       324 d~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~  403 (697)
T PLN03081        324 DQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGN  403 (697)
T ss_pred             CHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHH
Q 041741          584 NGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEM  663 (748)
Q Consensus       584 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  663 (748)
                      .|+.++|+++|++|.+.|+.||..||+.++.+|.+.|++++|.++|+.|.+..|+.|+..+|..++++|++.|++++|.+
T Consensus       404 ~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~  483 (697)
T PLN03081        404 HGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYA  483 (697)
T ss_pred             cCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999997778999999999999999999999999999


Q ss_pred             HHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCCCCCC
Q 041741          664 LIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDP  743 (748)
Q Consensus       664 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  743 (748)
                      ++++|+..|+..+|+.++.+|...|+++.|..+++++++++|++...|..|+++|.+.|+|++|.+++++|+++|+++.|
T Consensus       484 ~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~  563 (697)
T PLN03081        484 MIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHP  563 (697)
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCC
Q 041741          744 AYSL  747 (748)
Q Consensus       744 ~~~~  747 (748)
                      |+||
T Consensus       564 g~s~  567 (697)
T PLN03081        564 ACTW  567 (697)
T ss_pred             CeeE
Confidence            9999

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.1e-63  Score=543.87  Aligned_cols=533  Identities=16%  Similarity=0.237  Sum_probs=458.6

Q ss_pred             CCCCCcchhhHHHHHHHccCCchhhhhhhhcCCCC-----chhhhhHHHHHhhcCCChhHHHHhhccCCCCCchhHHHHH
Q 041741           18 GLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHK-----DIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLI   92 (748)
Q Consensus        18 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~   92 (748)
                      +-.++...|..++..|++.|++++|.++|+.|.++     +..+++.++..|++.|.+++|..+|+.|..||..+|+.++
T Consensus       365 ~~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL  444 (1060)
T PLN03218        365 SGKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLM  444 (1060)
T ss_pred             CCCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            33456778999999999999999999999999874     4456778889999999999999999999999999999999


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChh
Q 041741           93 SALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTK  172 (748)
Q Consensus        93 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  172 (748)
                      .+|++.|+++.|.++|++|.+.|+.||..+|+.++.+|++.|+++.|.++++.|.+.|+.||..+|+.+|.+|++.|+++
T Consensus       445 ~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~e  524 (1060)
T PLN03218        445 SVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVA  524 (1060)
T ss_pred             HHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHhcCC----CCCeehHHHHHHHHHcCCCHHHHHHHHHHHHH--cCCCCCcccHHHHHHHHhccCCCCCcchhccc
Q 041741          173 HAVPVFEEMS----EPNEVTFTAMMSGLAKTDRVVEALEMFRLMIR--KAVSIDSVSLSSVLGVCAREGCGVESDVFAQS  246 (748)
Q Consensus       173 ~a~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~g~~~~~~t~~~ll~~~~~~~~~~~~~~~~~~  246 (748)
                      +|.++|++|.    .||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..||+.+|.+|++.            
T Consensus       525 eAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~------------  592 (1060)
T PLN03218        525 KAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANA------------  592 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHC------------
Confidence            9999999996    39999999999999999999999999999987  68999999999999999999            


Q ss_pred             ccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHHHHHhccCCC----CCcccHHHHHHHHHhcCChhHH
Q 041741          247 DNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPE----RSVVSWNVMIAGYGQKYQSTKA  322 (748)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a  322 (748)
                       +.++.   +.++++.|.+.|+.|+..+|+.+|.+|++.|++++|.++|+.|.+    ||..+|+.++.+|++.|++++|
T Consensus       593 -G~lde---A~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA  668 (1060)
T PLN03218        593 -GQVDR---AKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKA  668 (1060)
T ss_pred             -CCHHH---HHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHH
Confidence             66776   999999999999999999999999999999999999999999975    6888999999999999999999


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCC----CCCcchHHHHHHHHHccCCHHHHHHHHHHHHHc
Q 041741          323 IELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMP----SPSVSSWNAMLSSYSQSENHKEAIKLFREMQFR  398 (748)
Q Consensus       323 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  398 (748)
                      .++|+.|.+.|+.||..+|+.+|.+|++.|++++|.++|+.|.    .|+..+|+.||.+|++.|++++|.++|++|...
T Consensus       669 ~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~  748 (1060)
T PLN03218        669 FEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL  748 (1060)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            9999999999999999999999999999999999999999995    499999999999999999999999999999999


Q ss_pred             CCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHH
Q 041741          399 GVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIA  478 (748)
Q Consensus       399 g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~  478 (748)
                      |+.||..||..++.+|++.|+++.|.+++..+.+.|+.|+..+++.++.+|.+  .++++..+.+.+...+.      ..
T Consensus       749 Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~--~y~ka~~l~~~v~~f~~------g~  820 (1060)
T PLN03218        749 GLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLR--RFEKACALGEPVVSFDS------GR  820 (1060)
T ss_pred             CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH--HHHHHhhhhhhhhhhhc------cc
Confidence            99999999999999999999999999999999999999999999998876532  34444433322221100      00


Q ss_pred             HHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHH
Q 041741          479 GLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYG  558 (748)
Q Consensus       479 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  558 (748)
                      .....+..+.|+.+|++|.+.|+.||..||+.++.+++..+....+..+++.+...+..                     
T Consensus       821 ~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~---------------------  879 (1060)
T PLN03218        821 PQIENKWTSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADS---------------------  879 (1060)
T ss_pred             cccccchHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCC---------------------
Confidence            00111222457777777777777777777766665544444444444444333333333                     


Q ss_pred             HHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH
Q 041741          559 ARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDI  607 (748)
Q Consensus       559 A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  607 (748)
                                ++..+|+++++++.+.  .++|..++++|...|+.|+..
T Consensus       880 ----------~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        880 ----------QKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             ----------cchhhhHHHHHhhccC--hHHHHHHHHHHHHcCCCCCcc
Confidence                      4556666666666322  368999999999999999985

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.2e-62  Score=535.53  Aligned_cols=527  Identities=17%  Similarity=0.251  Sum_probs=481.1

Q ss_pred             CCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCC-CCcHhHHHHHHHHHHhcCChhhHHHHHhcCCCCCeehHHHHHH
Q 041741          116 FVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGL-DKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMS  194 (748)
Q Consensus       116 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~  194 (748)
                      ..++...|..++..+++.|+++.|.++++.|.+.|+ +++..+++.++..|.+.|..++|..+|+.|..||..+|+.++.
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~  445 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMS  445 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            456778899999999999999999999999999995 5778888999999999999999999999999999999999999


Q ss_pred             HHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhccCCCCCcchhcccccccccccchhHHHHHHHHhcCCCchHH
Q 041741          195 GLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHL  274 (748)
Q Consensus       195 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  274 (748)
                      +|++.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.             +.++.   +.++++.|.+.|+.||..+
T Consensus       446 a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~-------------G~vd~---A~~vf~eM~~~Gv~PdvvT  509 (1060)
T PLN03218        446 VCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKS-------------GKVDA---MFEVFHEMVNAGVEANVHT  509 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhC-------------cCHHH---HHHHHHHHHHcCCCCCHHH
Confidence            9999999999999999999999999999999999999999             66666   9999999999999999999


Q ss_pred             HHHHHHHHHhcCChhHHHHHhccCCC----CCcccHHHHHHHHHhcCChhHHHHHHHHHHh--cCCCCChhhHHHHHHHH
Q 041741          275 SNSLLDMYAKNGDMDSAEVIFSNLPE----RSVVSWNVMIAGYGQKYQSTKAIELLQRMKS--CGFEPDEVTSINMLVAC  348 (748)
Q Consensus       275 ~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~--~g~~p~~~~~~~ll~~~  348 (748)
                      |+.+|.+|++.|++++|.++|+.|.+    ||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..||+.+|.+|
T Consensus       510 ynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay  589 (1060)
T PLN03218        510 FGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKAC  589 (1060)
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHH
Confidence            99999999999999999999999864    7889999999999999999999999999986  68999999999999999


Q ss_pred             HhcCCHHHHHHHhccCCC----CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHH
Q 041741          349 VRSGDIKTGREMFDSMPS----PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGK  424 (748)
Q Consensus       349 ~~~~~~~~a~~~~~~~~~----~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~  424 (748)
                      ++.|++++|.++|+.|.+    |+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|..++.+|++.|+++.|.
T Consensus       590 ~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~  669 (1060)
T PLN03218        590 ANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF  669 (1060)
T ss_pred             HHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHH
Confidence            999999999999999975    7789999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCC----CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCC
Q 041741          425 QVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIP----ELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNE  500 (748)
Q Consensus       425 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  500 (748)
                      +++..|.+.|..|+..+|+.++.+|++.|++++|.++|+.|.    .||..+|+.+|.+|++.|++++|.++|++|...|
T Consensus       670 ~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~G  749 (1060)
T PLN03218        670 EILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLG  749 (1060)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            999999999999999999999999999999999999999985    6899999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHH
Q 041741          501 MYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHG  580 (748)
Q Consensus       501 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~  580 (748)
                      +.||..||+.++.+|++.|+++.|.+++..|.+.|+.|+..+|+.++.++.  +++++|.++.+.+..     |+. ...
T Consensus       750 i~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~--~~y~ka~~l~~~v~~-----f~~-g~~  821 (1060)
T PLN03218        750 LCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCL--RRFEKACALGEPVVS-----FDS-GRP  821 (1060)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--HHHHHHhhhhhhhhh-----hhc-ccc
Confidence            999999999999999999999999999999999999999999999987644  245555555433221     110 111


Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHH
Q 041741          581 YAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHE  660 (748)
Q Consensus       581 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  660 (748)
                      ....+..+.|+.+|++|.+.|+.||..||+.++.++...+..+.+..+++.| ...+..|+..+|+.+++.+.+.  .++
T Consensus       822 ~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m-~~~~~~~~~~~y~~Li~g~~~~--~~~  898 (1060)
T PLN03218        822 QIENKWTSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENL-GISADSQKQSNLSTLVDGFGEY--DPR  898 (1060)
T ss_pred             ccccchHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHh-ccCCCCcchhhhHHHHHhhccC--hHH
Confidence            1122344679999999999999999999999998888889999999999888 4567788899999999988432  468


Q ss_pred             HHHHHhhCC
Q 041741          661 AEMLIDEMP  669 (748)
Q Consensus       661 A~~~~~~~~  669 (748)
                      |..++++|.
T Consensus       899 A~~l~~em~  907 (1060)
T PLN03218        899 AFSLLEEAA  907 (1060)
T ss_pred             HHHHHHHHH
Confidence            999999994

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

Probab=100.00  E-value=3.2e-61  Score=524.86  Aligned_cols=474  Identities=23%  Similarity=0.359  Sum_probs=446.7

Q ss_pred             CCchhHHHHHHHHHhcCChhHHHHHHHHHHhCC-CCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHH
Q 041741           83 RNVVSWNNLISALVRNGLEEKALSVYNKMSNEG-FVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANAL  161 (748)
Q Consensus        83 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  161 (748)
                      ++..+|+.+|.++.+.|++++|+++|+.|...+ +.||..+|+.++.+|++.++++.+.+++..|.+.|+.||..+|+.+
T Consensus        85 ~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~L  164 (697)
T PLN03081         85 KSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRV  164 (697)
T ss_pred             CCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHH
Confidence            566789999999999999999999999998864 7899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChhhHHHHHhcCCCCCeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhccCCCCCcc
Q 041741          162 LSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESD  241 (748)
Q Consensus       162 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~~~~  241 (748)
                      +.+|++.|++++|.++|++|.+||..+|+.++.+|++.|++++|+++|++|.+.|+.|+..||+.++.+|+..       
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~-------  237 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGL-------  237 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcC-------
Confidence            9999999999999999999999999999999999999999999999999999988877777776666655443       


Q ss_pred             hhcccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHHHHHhccCCCCCcccHHHHHHHHHhcCChhH
Q 041741          242 VFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTK  321 (748)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  321 (748)
                                                                                                 |..+.
T Consensus       238 ---------------------------------------------------------------------------~~~~~  242 (697)
T PLN03081        238 ---------------------------------------------------------------------------GSARA  242 (697)
T ss_pred             ---------------------------------------------------------------------------CcHHH
Confidence                                                                                       34455


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCC
Q 041741          322 AIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVK  401 (748)
Q Consensus       322 a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~  401 (748)
                      +.+++..+.+.|+.||..+|+.++.+|++.|++++|.++|+.|.++|..+|+.++.+|++.|++++|+++|++|.+.|+.
T Consensus       243 ~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~  322 (697)
T PLN03081        243 GQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVS  322 (697)
T ss_pred             HHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            66677778888999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHH
Q 041741          402 PDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLS  481 (748)
Q Consensus       402 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~  481 (748)
                      ||..||..++.+|++.|+++.+.+++..+.+.|..++..+++.++.+|+++|++++|.++|++|.++|+.+||+||.+|+
T Consensus       323 pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~  402 (697)
T PLN03081        323 IDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYG  402 (697)
T ss_pred             CCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHH-hCCCCchHHHHHHHHHHHhcCCHHHHH
Q 041741          482 LNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEK-DGYVNDIFVGSALIEMYCKCGDIYGAR  560 (748)
Q Consensus       482 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~  560 (748)
                      +.|+.++|+++|++|.+.|+.||..||+.++.+|++.|..++|.++|+.|.+ .|+.|+..+|+.++.+|++.|++++|.
T Consensus       403 ~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~  482 (697)
T PLN03081        403 NHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAY  482 (697)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHH
Confidence            9999999999999999999999999999999999999999999999999987 599999999999999999999999999


Q ss_pred             HHhhhcC-CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCC
Q 041741          561 QFFDMMH-GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPD-DITFVAILTACSHSGLVDVGVEIFNSMQLDHGV  638 (748)
Q Consensus       561 ~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  638 (748)
                      ++++++. .|+..+|++|+.+|...|+++.|..+++++.+.  .|+ ..+|..++..|++.|++++|.++++.| +..|+
T Consensus       483 ~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~--~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m-~~~g~  559 (697)
T PLN03081        483 AMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGM--GPEKLNNYVVLLNLYNSSGRQAEAAKVVETL-KRKGL  559 (697)
T ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCC--CCCCCcchHHHHHHHHhCCCHHHHHHHHHHH-HHcCC
Confidence            9999987 689999999999999999999999999999864  554 578999999999999999999999999 57777


Q ss_pred             CCC
Q 041741          639 EPI  641 (748)
Q Consensus       639 ~~~  641 (748)
                      +..
T Consensus       560 ~k~  562 (697)
T PLN03081        560 SMH  562 (697)
T ss_pred             ccC
Confidence            543

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

Probab=100.00  E-value=8.8e-39  Score=368.95  Aligned_cols=717  Identities=12%  Similarity=0.017  Sum_probs=422.8

Q ss_pred             ccchhhhHHHHHHHHhCCCCCcchhhHHHHHHHccCCchhhhhhhhcCCC---CchhhhhHHHHHhhcCCChhHHHHhhc
Q 041741            2 KAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPH---KDIYSWNAILSAQCKSDDLEFAYKLFD   78 (748)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~   78 (748)
                      .++..|...+..++... |.+...+..+...+...|++++|..+++++.+   ++...+..+...+...|++++|...|+
T Consensus       139 ~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~  217 (899)
T TIGR02917       139 GQLELAQKSYEQALAID-PRSLYAKLGLAQLALAENRFDEARALIDEVLTADPGNVDALLLKGDLLLSLGNIELALAAYR  217 (899)
T ss_pred             CCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            35667777777777654 34556677777777888888888887777654   344566667777777777777777777


Q ss_pred             cCCC---CCchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcH
Q 041741           79 EMPE---RNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNI  155 (748)
Q Consensus        79 ~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  155 (748)
                      +..+   .+...+..++..+...|++++|...++.+.+.. +.+...+......+...|+++.|...++.+.+.+.. ..
T Consensus       218 ~a~~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~-~~  295 (899)
T TIGR02917       218 KAIALRPNNPAVLLALATILIEAGEFEEAEKHADALLKKA-PNSPLAHYLKALVDFQKKNYEDARETLQDALKSAPE-YL  295 (899)
T ss_pred             HHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ch
Confidence            6543   344556666777777777777777777776642 222222222233334556666666666655554422 12


Q ss_pred             hHHHHHHHHHHhcCChhhHHHHHhcCCC--C-CeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHh
Q 041741          156 YVANALLSLYAKCGWTKHAVPVFEEMSE--P-NEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCA  232 (748)
Q Consensus       156 ~~~~~li~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~  232 (748)
                      ..+..+...+...|++++|...|++..+  | +...+..+...+...|++++|...++.+...+ +.+...+..+...+.
T Consensus       296 ~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  374 (899)
T TIGR02917       296 PALLLAGASEYQLGNLEQAYQYLNQILKYAPNSHQARRLLASIQLRLGRVDEAIATLSPALGLD-PDDPAALSLLGEAYL  374 (899)
T ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            2223333444455555555555554432  1 22333444444445555555555555544332 112233333333343


Q ss_pred             ccCCCCCcchhcccc---------------------cccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHH
Q 041741          233 REGCGVESDVFAQSD---------------------NKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSA  291 (748)
Q Consensus       233 ~~~~~~~~~~~~~~~---------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  291 (748)
                      ..|+...+..++...                     +....   +...+........ ........++..+.+.|++++|
T Consensus       375 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A  450 (899)
T TIGR02917       375 ALGDFEKAAEYLAKATELDPENAAARTQLGISKLSQGDPSE---AIADLETAAQLDP-ELGRADLLLILSYLRSGQFDKA  450 (899)
T ss_pred             HCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhCCChHH---HHHHHHHHHhhCC-cchhhHHHHHHHHHhcCCHHHH
Confidence            332111111111000                     11111   3333333332221 1223334455566666666666


Q ss_pred             HHHhccCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCC--
Q 041741          292 EVIFSNLPE---RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPS--  366 (748)
Q Consensus       292 ~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--  366 (748)
                      ..+++.+..   .+..++..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|...|+.+..  
T Consensus       451 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~  529 (899)
T TIGR02917       451 LAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID  529 (899)
T ss_pred             HHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            666665543   234456666666666667777777666666542 22334455555666666677776666666543  


Q ss_pred             -CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHH
Q 041741          367 -PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGL  445 (748)
Q Consensus       367 -~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  445 (748)
                       .+..++..+...+.+.|+.++|..+++++...+ +.+...+..+...+...|+++.+..+++.+.+..+ .+...+..+
T Consensus       530 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l  607 (899)
T TIGR02917       530 PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAAP-DSPEAWLML  607 (899)
T ss_pred             cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHH
Confidence             334455666666666677777777776665542 23344555566666667777777777666655432 245566666


Q ss_pred             HHHHHhcCChHHHHHHHhhCCC---CCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCch
Q 041741          446 IGIYSKCQRNELAERVFHRIPE---LDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSF  522 (748)
Q Consensus       446 ~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  522 (748)
                      ..+|...|++++|...++.+.+   .++..+..+...+...|++++|...|+++.... +.+..++..+...+...|+++
T Consensus       608 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  686 (899)
T TIGR02917       608 GRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTE  686 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHH
Confidence            6777777777777777766543   234456666666777777777777777766542 334556666666677777777


Q ss_pred             hHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 041741          523 QGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG--KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS  600 (748)
Q Consensus       523 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  600 (748)
                      .|..+++.+.+.. +.+...+..+...+.+.|++++|.+.|+.+..  |+..++..++.++...|++++|.+.++++.+.
T Consensus       687 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  765 (899)
T TIGR02917       687 SAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKT  765 (899)
T ss_pred             HHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            7777777766654 34555566666677777777777777776542  44455666667777777777777777777665


Q ss_pred             CCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHH
Q 041741          601 GVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWE  678 (748)
Q Consensus       601 ~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~  678 (748)
                      . +.+...+..+...|...|++++|...|+++...  .+++...+..++..+...|+ .+|..+++++.  .+.++..+.
T Consensus       766 ~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~  841 (899)
T TIGR02917       766 H-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK--APDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILD  841 (899)
T ss_pred             C-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHH
Confidence            3 445556666667777777777777777776422  23345566667777777777 66777776663  233455666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHH
Q 041741          679 VLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       679 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      .++..+...|++++|...++++++.+|.++.++..++.++.+.|++++|.+++++|.
T Consensus       842 ~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       842 TLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            666667777777777777777777777777777777777777777777777777664

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=1.4e-38  Score=367.20  Aligned_cols=709  Identities=12%  Similarity=0.033  Sum_probs=476.7

Q ss_pred             cchhhhHHHHHHHHhCCCCCcchhhHHHHHHHccCCchhhhhhhhcCCC---CchhhhhHHHHHhhcCCChhHHHHhhcc
Q 041741            3 AHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPH---KDIYSWNAILSAQCKSDDLEFAYKLFDE   79 (748)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~   79 (748)
                      +++.|..++.......-+.....+..+...|...|++++|...|+++.+   .+..++..+...+...|++++|..++++
T Consensus       105 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  184 (899)
T TIGR02917       105 KFQQVLDELPGKTLLDDEGAAELLALRGLAYLGLGQLELAQKSYEQALAIDPRSLYAKLGLAQLALAENRFDEARALIDE  184 (899)
T ss_pred             CHHHHHHhhcccccCCchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3455555565544344455667888999999999999999999999865   3456888999999999999999999998


Q ss_pred             CCC---CCchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHh
Q 041741           80 MPE---RNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIY  156 (748)
Q Consensus        80 ~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  156 (748)
                      +.+   ++...+..+...+...|++++|...|++..+.. +.+..++..+...+...|+++.|...++.+.+.... +..
T Consensus       185 ~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~  262 (899)
T TIGR02917       185 VLTADPGNVDALLLKGDLLLSLGNIELALAAYRKAIALR-PNNPAVLLALATILIEAGEFEEAEKHADALLKKAPN-SPL  262 (899)
T ss_pred             HHHhCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-Cch
Confidence            754   456678888999999999999999999998753 456677888888999999999999999999987644 334


Q ss_pred             HHHHHHHHHHhcCChhhHHHHHhcCCC--CC-eehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhc
Q 041741          157 VANALLSLYAKCGWTKHAVPVFEEMSE--PN-EVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAR  233 (748)
Q Consensus       157 ~~~~li~~~~~~g~~~~a~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~  233 (748)
                      .+......+...|++++|...|+++.+  |+ ...+..+...+...|++++|...++.+.+.. +.+...+..+...+..
T Consensus       263 ~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~  341 (899)
T TIGR02917       263 AHYLKALVDFQKKNYEDARETLQDALKSAPEYLPALLLAGASEYQLGNLEQAYQYLNQILKYA-PNSHQARRLLASIQLR  341 (899)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence            444455566788999999999998765  32 2334555667888999999999999998753 2233445555556666


Q ss_pred             cCCCCCcchhcccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHHHHHhccCCCC---CcccHHHHH
Q 041741          234 EGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPER---SVVSWNVMI  310 (748)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~  310 (748)
                      .|             ....   +...+..+.... +.+...+..+...+...|++++|.+.|+.+.+.   +...+..+.
T Consensus       342 ~g-------------~~~~---A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~  404 (899)
T TIGR02917       342 LG-------------RVDE---AIATLSPALGLD-PDDPAALSLLGEAYLALGDFEKAAEYLAKATELDPENAAARTQLG  404 (899)
T ss_pred             CC-------------CHHH---HHHHHHHHHhcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            53             3333   444444443322 334556666667777777777777777665431   223445555


Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCC---------------------------------CCChhhHHHHHHHHHhcCCHHHH
Q 041741          311 AGYGQKYQSTKAIELLQRMKSCGF---------------------------------EPDEVTSINMLVACVRSGDIKTG  357 (748)
Q Consensus       311 ~~~~~~~~~~~a~~~~~~m~~~g~---------------------------------~p~~~~~~~ll~~~~~~~~~~~a  357 (748)
                      ..+...|++++|++.++.+.....                                 +++..++..+...+...|++++|
T Consensus       405 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  484 (899)
T TIGR02917       405 ISKLSQGDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKA  484 (899)
T ss_pred             HHHHhCCChHHHHHHHHHHHhhCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHH
Confidence            555555566655555555544331                                 22334444444455555555555


Q ss_pred             HHHhccCCC---CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhc
Q 041741          358 REMFDSMPS---PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTA  434 (748)
Q Consensus       358 ~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  434 (748)
                      ...|+++.+   .+...+..+...+...|++++|.+.++++.... +.+..++..+...+...|+.+.+...+..+.+..
T Consensus       485 ~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  563 (899)
T TIGR02917       485 REAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN  563 (899)
T ss_pred             HHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            555544432   222333444444555555555555555554431 2233444444455555555555555555554443


Q ss_pred             CCchhHHHHHHHHHHHhcCChHHHHHHHhhCCC---CCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHH
Q 041741          435 SHIDNYVASGLIGIYSKCQRNELAERVFHRIPE---LDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATV  511 (748)
Q Consensus       435 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  511 (748)
                      +. +...+..++..|...|++++|...++.+.+   .++..|..+...+...|++++|...|+.+.+.. +.+...+..+
T Consensus       564 ~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l  641 (899)
T TIGR02917       564 PQ-EIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLL  641 (899)
T ss_pred             cc-chhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHH
Confidence            22 333444555556666666666666655542   234456666666666666666666666665542 2344455566


Q ss_pred             HHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChh
Q 041741          512 LSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGD  588 (748)
Q Consensus       512 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~  588 (748)
                      ...+...|++++|..+++.+.+.. +.+...+..++..+...|++++|.++++.+.+   ++...+..++..+...|+++
T Consensus       642 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~  720 (899)
T TIGR02917       642 ADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYP  720 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHH
Confidence            666666666666666666665543 33455666666666666777777766666653   34556667777777788888


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhC
Q 041741          589 EAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEM  668 (748)
Q Consensus       589 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  668 (748)
                      +|...++++...  .|+..++..++.++...|++++|...++++...  .+.+...+..++..|...|++++|...++++
T Consensus       721 ~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~  796 (899)
T TIGR02917       721 AAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLKT--HPNDAVLRTALAELYLAQKDYDKAIKHYRTV  796 (899)
T ss_pred             HHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            888888887775  355566667777788888888888888877432  2345677788888888899999999999887


Q ss_pred             C--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCCC
Q 041741          669 P--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIV  740 (748)
Q Consensus       669 ~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  740 (748)
                      .  .++++..+..++..+...|+ .+|...++++++..|+++..+..++.++...|++++|.++++++.+.++.
T Consensus       797 ~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~  869 (899)
T TIGR02917       797 VKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE  869 (899)
T ss_pred             HHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            5  45577888888888888888 77999999999999999999999999999999999999999998876653

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.98  E-value=1.6e-26  Score=264.97  Aligned_cols=417  Identities=13%  Similarity=0.055  Sum_probs=295.0

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCC--CCcc---hH------------H
Q 041741          311 AGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPS--PSVS---SW------------N  373 (748)
Q Consensus       311 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~---~~------------~  373 (748)
                      ..+...|++++|+..|++..+.. +.+...+..+..++.+.|++++|+..|++..+  |+..   .|            .
T Consensus       277 ~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~  355 (1157)
T PRK11447        277 LAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLI  355 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHH
Confidence            34445555666666665555432 11344455555555556666666655555443  2111   11            1


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcC
Q 041741          374 AMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQ  453 (748)
Q Consensus       374 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  453 (748)
                      .....+.+.|++++|+..++++.+.. +.+...+..+...+...|+++.|.+.++.+++..+. +...+..+...|. .+
T Consensus       356 ~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~-~~  432 (1157)
T PRK11447        356 QQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYR-QQ  432 (1157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH-hc
Confidence            12345567788888888888877652 233445556667777788888888888887776543 3344555666664 35


Q ss_pred             ChHHHHHHHhhCCCCC------------cchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCc
Q 041741          454 RNELAERVFHRIPELD------------IVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSS  521 (748)
Q Consensus       454 ~~~~a~~~~~~~~~~~------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~  521 (748)
                      +.++|...++.+....            ...+..+...+...|++++|++.|++..+.. +-+...+..+...+...|++
T Consensus       433 ~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~  511 (1157)
T PRK11447        433 SPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQR  511 (1157)
T ss_pred             CHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            6788888777665321            1234456677888999999999999998763 22455677788889999999


Q ss_pred             hhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCC----CH---------HHHHHHHHHHHHcCChh
Q 041741          522 FQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGK----NT---------VTWNEMIHGYAQNGYGD  588 (748)
Q Consensus       522 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~---------~~~~~l~~~~~~~~~~~  588 (748)
                      ++|...++.+.+.. +.++..+..+...+...++.++|...++.+...    +.         ..+..+...+...|+.+
T Consensus       512 ~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~  590 (1157)
T PRK11447        512 SQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEA  590 (1157)
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHH
Confidence            99999999988654 234555555556677889999999999987642    11         11234567788999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhh
Q 041741          589 EAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDE  667 (748)
Q Consensus       589 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~  667 (748)
                      +|..+++.     .+++...+..+...+...|++++|+..|+++..   ..|+ ...+..++.+|...|++++|.+.++.
T Consensus       591 eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~---~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~  662 (1157)
T PRK11447        591 EAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLT---REPGNADARLGLIEVDIAQGDLAAARAQLAK  662 (1157)
T ss_pred             HHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999872     355666778888999999999999999999853   3444 67788999999999999999999998


Q ss_pred             CC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc------chHHHhHHHhhcCChHHHHHHHHHHHh-cC
Q 041741          668 MP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSA------PYSLLANIYSSLGRWDDLRAVRELMSE-NC  738 (748)
Q Consensus       668 ~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~  738 (748)
                      +. ..| ++..+..+...+...|++++|.+.+++++...|+++.      .+..++.++...|++++|+..|+++.. .+
T Consensus       663 ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~  742 (1157)
T PRK11447        663 LPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASG  742 (1157)
T ss_pred             HhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcC
Confidence            86 333 5667777888888999999999999999998876654      566779999999999999999999864 44


Q ss_pred             CCC
Q 041741          739 IVK  741 (748)
Q Consensus       739 ~~~  741 (748)
                      +.+
T Consensus       743 ~~~  745 (1157)
T PRK11447        743 ITP  745 (1157)
T ss_pred             CCC
Confidence            543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.97  E-value=3.6e-25  Score=253.98  Aligned_cols=642  Identities=9%  Similarity=0.020  Sum_probs=438.0

Q ss_pred             hhHHHHHHHccCCchhhhhhhhcCCC---CchhhhhHHHHHhhcCCChhHHHHhhccCCC--CCchhH------------
Q 041741           26 CNRLIELYSKCNNTHSAQHLFDKMPH---KDIYSWNAILSAQCKSDDLEFAYKLFDEMPE--RNVVSW------------   88 (748)
Q Consensus        26 ~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~------------   88 (748)
                      .-..++.+...++.+.|...++++..   .|..++..+++.+.+.|+.++|.+.+++..+  |+...+            
T Consensus        31 Ll~q~~~~~~~~~~d~a~~~l~kl~~~~p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~~~~~  110 (1157)
T PRK11447         31 LLEQVRLGEATHREDLVRQSLYRLELIDPNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPDSNAYRSSRTTMLLSTP  110 (1157)
T ss_pred             HHHHHHHHHhhCChHHHHHHHHHHHccCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHhcCC
Confidence            55566777788888888888888764   4567778888888888999998888888765  333222            


Q ss_pred             -----HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcch-HHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHH
Q 041741           89 -----NNLISALVRNGLEEKALSVYNKMSNEGFVPTHIT-LASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALL  162 (748)
Q Consensus        89 -----~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  162 (748)
                           ..+.+.+...|++++|++.|+++.+.+ +|+... ...........|+.++|...++.+.+.. +.+...+..+.
T Consensus       111 ~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA  188 (1157)
T PRK11447        111 EGRQALQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLA  188 (1157)
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence                 223446778888888888888887642 333221 1111222234578888888888888875 33556677788


Q ss_pred             HHHHhcCChhhHHHHHhcCCCCCeeh---HHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhccCCCCC
Q 041741          163 SLYAKCGWTKHAVPVFEEMSEPNEVT---FTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVE  239 (748)
Q Consensus       163 ~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~~  239 (748)
                      ..+...|+.++|++.++++.+.....   -......+...+....+...+......  .|+...+.              
T Consensus       189 ~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~--~p~~~~~~--------------  252 (1157)
T PRK11447        189 LLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQV--FSDGDSVA--------------  252 (1157)
T ss_pred             HHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHH--CCCchHHH--------------
Confidence            88888888888888888765421110   000111111122223333333332221  11111000              


Q ss_pred             cchhcccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHHHHHhccCCC--C-CcccHHHHHHHHHhc
Q 041741          240 SDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPE--R-SVVSWNVMIAGYGQK  316 (748)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~  316 (748)
                                  .   +...+.........|+.. .......+...|++++|...|+...+  | +...+..+...+.+.
T Consensus       253 ------------~---A~~~L~~~~~~~~dp~~~-~~~~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~  316 (1157)
T PRK11447        253 ------------A---ARSQLAEQQKQLADPAFR-ARAQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQ  316 (1157)
T ss_pred             ------------H---HHHHHHHHHHhccCcchH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence                        0   112222222222223221 12345667789999999999998765  3 556788899999999


Q ss_pred             CChhHHHHHHHHHHhcCCCCCh-hhH------------HHHHHHHHhcCCHHHHHHHhccCCC---CCcchHHHHHHHHH
Q 041741          317 YQSTKAIELLQRMKSCGFEPDE-VTS------------INMLVACVRSGDIKTGREMFDSMPS---PSVSSWNAMLSSYS  380 (748)
Q Consensus       317 ~~~~~a~~~~~~m~~~g~~p~~-~~~------------~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~  380 (748)
                      |++++|+..|++..+....... ..+            ......+.+.|++++|...|+++..   .+...+..+...+.
T Consensus       317 g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~  396 (1157)
T PRK11447        317 GDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAM  396 (1157)
T ss_pred             CCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            9999999999999876432211 111            1123456789999999999998875   34456777889999


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHhhccCChHHHHHHHHHHHhhcCC--------chhHHHHHHHHHHHh
Q 041741          381 QSENHKEAIKLFREMQFRGVKPD-RTTLAIILSSCAAMGILESGKQVHAASLKTASH--------IDNYVASGLIGIYSK  451 (748)
Q Consensus       381 ~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--------~~~~~~~~l~~~~~~  451 (748)
                      ..|++++|++.|++..+.  .|+ ...+..+...+. .++.++|...+..+......        .....+..+...+..
T Consensus       397 ~~g~~~eA~~~y~~aL~~--~p~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~  473 (1157)
T PRK11447        397 ARKDYAAAERYYQQALRM--DPGNTNAVRGLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALEN  473 (1157)
T ss_pred             HCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            999999999999999875  344 445555555553 45778888777654332111        112234556778889


Q ss_pred             cCChHHHHHHHhhCCCC---CcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHH
Q 041741          452 CQRNELAERVFHRIPEL---DIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVH  528 (748)
Q Consensus       452 ~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  528 (748)
                      .|++++|.+.+++..+.   ++..+..+...|...|++++|...++++.+.. +.+...+..+...+...++.++|...+
T Consensus       474 ~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l  552 (1157)
T PRK11447        474 QGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHL  552 (1157)
T ss_pred             CCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            99999999999998753   34466778889999999999999999998653 224444444445567789999999988


Q ss_pred             HHHHHhCCCCchH---------HHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q 041741          529 AQIEKDGYVNDIF---------VGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIA  599 (748)
Q Consensus       529 ~~~~~~~~~~~~~---------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  599 (748)
                      +.+......+...         .+..+...+...|++++|.++++. ...+...+..+...+...|++++|+..|++..+
T Consensus       553 ~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~  631 (1157)
T PRK11447        553 NTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLT  631 (1157)
T ss_pred             HhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            8765433222221         223456778899999999999984 234566778899999999999999999999999


Q ss_pred             cCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCC---
Q 041741          600 SGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDD---  673 (748)
Q Consensus       600 ~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~---  673 (748)
                      .. +.+...+..++..+...|++++|+..++.+.   ...|+ ......++.++...|++++|.++++++.  .+++   
T Consensus       632 ~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll---~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~  707 (1157)
T PRK11447        632 RE-PGNADARLGLIEVDIAQGDLAAARAQLAKLP---ATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPS  707 (1157)
T ss_pred             hC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHh---ccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcc
Confidence            63 4456788899999999999999999999874   33444 5566778999999999999999999885  1211   


Q ss_pred             ---HhHHHHHHHHHHhcCCHHHHHHHHHHHHh---cCCCCCcc
Q 041741          674 ---PVIWEVLLSSCRLHANVRLAKRAAEELFR---LDPKNSAP  710 (748)
Q Consensus       674 ---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~p~~~~~  710 (748)
                         ...+..+...+...|++++|...+++++.   +.|..|..
T Consensus       708 ~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~~~~p~~  750 (1157)
T PRK11447        708 MESALVLRDAARFEAQTGQPQQALETYKDAMVASGITPTRPQD  750 (1157)
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCCCCCCC
Confidence               23556667788999999999999999986   44544443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.97  E-value=1.2e-24  Score=237.07  Aligned_cols=650  Identities=11%  Similarity=0.009  Sum_probs=391.5

Q ss_pred             ccchhhhHHHHHHHHhCCCCCcchhhHHHHHHHccCCchhhhhhhhcCCC--CchhhhhHHHHHhhcCCChhHHHHhhcc
Q 041741            2 KAHVAGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPH--KDIYSWNAILSAQCKSDDLEFAYKLFDE   79 (748)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~   79 (748)
                      .+++.|...+.+.++.. |-++..+..|...|...|++++|+..+++..+  |+-..|..++..+   +++++|..++++
T Consensus        58 Gd~~~A~~~l~~Al~~d-P~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~~~kA~~~ye~  133 (987)
T PRK09782         58 NDEATAIREFEYIHQQV-PDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDARLERSLAAI---PVEVKSVTTVEE  133 (987)
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHh---ccChhHHHHHHH
Confidence            45566777777777765 44466777888888888888888888888766  3333333333222   777777788877


Q ss_pred             CCC--C-CchhHHHHHHH--------HHhcCChhHHHHHHHHHHhCCCCCCcchHHHH-HHHhccccCcHHHhHHHHHHH
Q 041741           80 MPE--R-NVVSWNNLISA--------LVRNGLEEKALSVYNKMSNEGFVPTHITLASV-FKASTALLDVEHGRRCHGLVI  147 (748)
Q Consensus        80 ~~~--~-~~~~~~~l~~~--------~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~  147 (748)
                      +..  | +...+..+...        |.+.   ++|.+.++ .......|+..+.... .+.+.+.|+++.+..++..+.
T Consensus       134 l~~~~P~n~~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~  209 (987)
T PRK09782        134 LLAQQKACDAVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEAR  209 (987)
T ss_pred             HHHhCCCChhHHHHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHH
Confidence            754  3 23344444333        4444   45555554 3332233344444444 777778888888888888888


Q ss_pred             HHCCCCcHhHHHHHHHHHHh-cCChhhHHHHHhcCCCCCeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCC-CCcccHH
Q 041741          148 KIGLDKNIYVANALLSLYAK-CGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVS-IDSVSLS  225 (748)
Q Consensus       148 ~~~~~~~~~~~~~li~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-~~~~t~~  225 (748)
                      +.+.. +......|..+|.. .++ +++..+++...+.++..+..+...+.+.|+.++|..+++++...-.. |+..++.
T Consensus       210 k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~  287 (987)
T PRK09782        210 QQNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWL  287 (987)
T ss_pred             hcCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHH
Confidence            87643 34445556667776 366 77777766544456667777888888888888888888877654333 5555554


Q ss_pred             HHHHHHhccCCCCCcchhcccccccccccchhHHHHHHHHhcCCCc-hHHHHHHHHHHHhcCChhHHHHHhccCCCCCcc
Q 041741          226 SVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEAD-LHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVV  304 (748)
Q Consensus       226 ~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  304 (748)
                      ..+.-....   +          ....   + .+..     ...++ ....-.++..+.+.++++.++++.. ....+. 
T Consensus       288 ~~l~r~~~~---~----------~~~~---~-~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~-  343 (987)
T PRK09782        288 YLLSKYSAN---P----------VQAL---A-NYTV-----QFADNRQYVVGATLPVLLKEGQYDAAQKLLA-TLPANE-  343 (987)
T ss_pred             HHHHhccCc---h----------hhhc---c-chhh-----hhHHHHHHHHHHHHHHHHhccHHHHHHHHhc-CCCcch-
Confidence            443332221   0          0000   0 0000     00011 1122234666667777776665533 221122 


Q ss_pred             cHHHHHHHH--HhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCCCCcchHHHHHHHHHcc
Q 041741          305 SWNVMIAGY--GQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQS  382 (748)
Q Consensus       305 ~~~~l~~~~--~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~  382 (748)
                      .  ..++..  ...+...++...++.|....  |                              .+......+.-...+.
T Consensus       344 ~--~~~r~~~~~~~~~~~~~~~~~~~~y~~~--~------------------------------~~~~~l~q~~~~~~~~  389 (987)
T PRK09782        344 M--LEERYAVSVATRNKAEALRLARLLYQQE--P------------------------------ANLTRLDQLTWQLMQN  389 (987)
T ss_pred             H--HHHHHhhccccCchhHHHHHHHHHHhcC--C------------------------------CCHHHHHHHHHHHHHc
Confidence            1  122211  22244444444444444321  1                              1222222223333456


Q ss_pred             CCHHHHHHHHHHHHHc--CCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHH
Q 041741          383 ENHKEAIKLFREMQFR--GVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAER  460 (748)
Q Consensus       383 ~~~~~a~~~~~~m~~~--g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  460 (748)
                      |+.++|.++++.....  ...++......++..+.+.+.+.....+......    ++...-...   ..+.-....+..
T Consensus       390 ~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~----~~~~~~~~~---~~~~~~~~~~~~  462 (987)
T PRK09782        390 GQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKP----LPLAEQRQW---QSQLPGIADNCP  462 (987)
T ss_pred             ccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccc----cccchhHHH---HhhhhhhhhhHH
Confidence            6666666666665441  1222333333555555555543333222211110    000000000   000001111222


Q ss_pred             HHhhCCC---C--CcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhC
Q 041741          461 VFHRIPE---L--DIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDG  535 (748)
Q Consensus       461 ~~~~~~~---~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  535 (748)
                      .+.....   .  +...|..+..++.. +++++|+..+.+....  .|+......+...+...|+++.|...++.+... 
T Consensus       463 ~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~-  538 (987)
T PRK09782        463 AIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH-  538 (987)
T ss_pred             HHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc-
Confidence            2222221   1  44566666666665 7888888877777655  355554444455556788888888888876543 


Q ss_pred             CCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCH---HHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 041741          536 YVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNT---VTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAI  612 (748)
Q Consensus       536 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  612 (748)
                       +|+...+..+..++.+.|++++|...++...+.++   ..+..+.......|++++|+..+++..+.  .|+...+..+
T Consensus       539 -~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~L  615 (987)
T PRK09782        539 -DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVAR  615 (987)
T ss_pred             -CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHH
Confidence             34444455667778888999999999887765322   22223333444559999999999999884  5777788888


Q ss_pred             HHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCC
Q 041741          613 LTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHAN  689 (748)
Q Consensus       613 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~  689 (748)
                      ..++.+.|++++|+..+++..   ...|+ ...+..++.++...|++++|...+++..  .+.++..+..+...+...|+
T Consensus       616 A~~l~~lG~~deA~~~l~~AL---~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd  692 (987)
T PRK09782        616 ATIYRQRHNVPAAVSDLRAAL---ELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDD  692 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCC
Confidence            899999999999999999885   34555 5667788889999999999999998875  34467888889999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          690 VRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       690 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      +++|+..++++++++|++..+....+++.....+++.|.+.+++.-.
T Consensus       693 ~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~  739 (987)
T PRK09782        693 MAATQHYARLVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWT  739 (987)
T ss_pred             HHHHHHHHHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999988886433

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.96  E-value=1.4e-23  Score=228.95  Aligned_cols=619  Identities=11%  Similarity=0.041  Sum_probs=408.9

Q ss_pred             hhcCCChhHHHHhhccCCC--C-CchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHh
Q 041741           64 QCKSDDLEFAYKLFDEMPE--R-NVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGR  140 (748)
Q Consensus        64 ~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  140 (748)
                      +...|++++|...|+...+  | +..++..+.+.|...|++++|+..+++..+.  .|+...|..++..+   ++.+.|.
T Consensus        54 ~~~~Gd~~~A~~~l~~Al~~dP~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~l--dP~n~~~~~~La~i---~~~~kA~  128 (987)
T PRK09782         54 AQKNNDEATAIREFEYIHQQVPDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKR--HPGDARLERSLAAI---PVEVKSV  128 (987)
T ss_pred             HHhCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHHHHHHHh---ccChhHH
Confidence            3444888888888887764  3 4456788888889999999999999888874  45555555544333   8888888


Q ss_pred             HHHHHHHHHCCCCcHhHHHHHHHH--------HHhcCChhhHHHHHhcCCCCC--eehHHHH-HHHHHcCCCHHHHHHHH
Q 041741          141 RCHGLVIKIGLDKNIYVANALLSL--------YAKCGWTKHAVPVFEEMSEPN--EVTFTAM-MSGLAKTDRVVEALEMF  209 (748)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~~li~~--------~~~~g~~~~a~~~~~~~~~~~--~~~~~~l-i~~~~~~g~~~~a~~~~  209 (748)
                      .+++++.+.... +..++..+...        |.+.+...++++  .+...|+  ....... .+.|.+.|++++|+.++
T Consensus       129 ~~ye~l~~~~P~-n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~--lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL  205 (987)
T PRK09782        129 TTVEELLAQQKA-CDAVPTLRCRSEVGQNALRLAQLPVARAQLN--DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLY  205 (987)
T ss_pred             HHHHHHHHhCCC-ChhHHHHHHHHhhccchhhhhhHHHHHHHHH--HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHH
Confidence            999888888633 34444444444        666655566665  3333343  4434444 78888999999999999


Q ss_pred             HHHHHcCCCCCcccHHHHHHHHhc-cCCCCCcchhcccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCCh
Q 041741          210 RLMIRKAVSIDSVSLSSVLGVCAR-EGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDM  288 (748)
Q Consensus       210 ~~m~~~g~~~~~~t~~~ll~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  288 (748)
                      .++.+.+... ..-...+-.++.. .+             . +.   +..++.    ..+..++.+...+.+.|...|+.
T Consensus       206 ~~L~k~~pl~-~~~~~~L~~ay~q~l~-------------~-~~---a~al~~----~~lk~d~~l~~ala~~yi~~G~~  263 (987)
T PRK09782        206 NEARQQNTLS-AAERRQWFDVLLAGQL-------------D-DR---LLALQS----QGIFTDPQSRITYATALAYRGEK  263 (987)
T ss_pred             HHHHhcCCCC-HHHHHHHHHHHHHhhC-------------H-HH---HHHHhc----hhcccCHHHHHHHHHHHHHCCCH
Confidence            9999875333 2223333334433 11             0 11   222211    23346777888899999999999


Q ss_pred             hHHHHHhccCCC-----CCcccHHHHHHHHHhcCChh-HHHHHHHHHHhcCCCCChh-hHHHHHHHHHhcCCHHHHHHHh
Q 041741          289 DSAEVIFSNLPE-----RSVVSWNVMIAGYGQKYQST-KAIELLQRMKSCGFEPDEV-TSINMLVACVRSGDIKTGREMF  361 (748)
Q Consensus       289 ~~a~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~-~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~  361 (748)
                      +.|..++..++.     |...+|--.   +.+.+... .+..-|.+    ...++.. ....++..+.+.++++.++++.
T Consensus       264 ~~A~~~L~~~~~~~~~~~~~~~~~~~---l~r~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  336 (987)
T PRK09782        264 ARLQHYLIENKPLFTTDAQEKSWLYL---LSKYSANPVQALANYTV----QFADNRQYVVGATLPVLLKEGQYDAAQKLL  336 (987)
T ss_pred             HHHHHHHHhCcccccCCCccHHHHHH---HHhccCchhhhccchhh----hhHHHHHHHHHHHHHHHHhccHHHHHHHHh
Confidence            999999888764     222233222   33333322 11111111    0111111 1222356677888888777774


Q ss_pred             ccCCCCCcchHHHHHH--HHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhh-c-CCc
Q 041741          362 DSMPSPSVSSWNAMLS--SYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKT-A-SHI  437 (748)
Q Consensus       362 ~~~~~~~~~~~~~ll~--~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~-~~~  437 (748)
                      ..  .|....  ..+.  +....+...++...+..|.+. .+-+......+--.....|+.+.|..+++..... + ...
T Consensus       337 ~~--~~~~~~--~~~r~~~~~~~~~~~~~~~~~~~~y~~-~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  411 (987)
T PRK09782        337 AT--LPANEM--LEERYAVSVATRNKAEALRLARLLYQQ-EPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARL  411 (987)
T ss_pred             cC--CCcchH--HHHHHhhccccCchhHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCccccc
Confidence            42  222222  2222  223446777777777777665 1224455555555566788899999998888763 1 223


Q ss_pred             hhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHH---HHHHHHHHHCCCCC--CHHHHHHHH
Q 041741          438 DNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEA---FMFFKQMRQNEMYP--TQFSFATVL  512 (748)
Q Consensus       438 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a---~~~~~~m~~~~~~p--~~~~~~~l~  512 (748)
                      +..+...++..|.+.+......++..-....+...-      +.-.|+..++   ...+...... .++  +...+..+.
T Consensus       412 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~~~~~~~~~~~~~~~~~al~~-~p~~~~~~a~~~LG  484 (987)
T PRK09782        412 SQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQ------RQWQSQLPGIADNCPAIVRLLGD-MSPSYDAAAWNRLA  484 (987)
T ss_pred             CHHHHHHHHHHHHhCCcccchHHHHHhccccccchh------HHHHhhhhhhhhhHHHHHHhccc-CCCCCCHHHHHHHH
Confidence            455666888888888874444333332222221111      1122333333   3333333322 133  556667676


Q ss_pred             HhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--CCHHHHHHHHHHHHHcCChhHH
Q 041741          513 SSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG--KNTVTWNEMIHGYAQNGYGDEA  590 (748)
Q Consensus       513 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a  590 (748)
                      .++.. +++++|...+.......  |+......+...+...|++++|...|+++..  |+...+..+...+...|++++|
T Consensus       485 ~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA  561 (987)
T PRK09782        485 KCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAAR  561 (987)
T ss_pred             HHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHH
Confidence            66665 78888999777776654  4444333445555789999999999997664  4555677778889999999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-
Q 041741          591 VRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-  669 (748)
Q Consensus       591 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-  669 (748)
                      ...+++..+.+ +++...+..+...+...|++++|...+++..   ...|+...+..++.++.+.|++++|...+++.. 
T Consensus       562 ~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL---~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~  637 (987)
T PRK09782        562 DRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSL---NIAPSANAYVARATIYRQRHNVPAAVSDLRAALE  637 (987)
T ss_pred             HHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHH---HhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999864 3333344444555567799999999999885   456778889999999999999999999999886 


Q ss_pred             CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          670 CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       670 ~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      ..| ++..+..+...+...|++++|+..++++++.+|+++.++..++.++...|++++|+..+++..+..
T Consensus       638 l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        638 LEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            444 577888888899999999999999999999999999999999999999999999999999976544

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

Probab=99.90  E-value=2.1e-20  Score=180.10  Aligned_cols=440  Identities=14%  Similarity=0.080  Sum_probs=356.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHhccCCCCCcc---cHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 041741          275 SNSLLDMYAKNGDMDSAEVIFSNLPERSVV---SWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRS  351 (748)
Q Consensus       275 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  351 (748)
                      ...|.+-..+.|++.+|++.-..+-+.|..   ..-.+-..+.+..+.+.....-....+. .+.-..+|..+...+-..
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~-~~q~ae~ysn~aN~~ker  129 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQEDPTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRK-NPQGAEAYSNLANILKER  129 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccCCCcccceeeehhhhhcccchhhhhhhhhhhhhc-cchHHHHHHHHHHHHHHh
Confidence            345666677889999999987776554332   2223334555666666655443333332 233567899999999999


Q ss_pred             CCHHHHHHHhccCCC---CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHH-HHhhccCChHHHHHHH
Q 041741          352 GDIKTGREMFDSMPS---PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIIL-SSCAAMGILESGKQVH  427 (748)
Q Consensus       352 ~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll-~~~~~~~~~~~a~~~~  427 (748)
                      |++++|+.+++.+.+   ..+..|-.+..++...|+.+.|.+.|.+..+.  .|+......-+ ...-..|++.+|...+
T Consensus       130 g~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~cY  207 (966)
T KOG4626|consen  130 GQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKACY  207 (966)
T ss_pred             chHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHHH
Confidence            999999999998875   45677888999999999999999999888764  67655444433 3344578999999999


Q ss_pred             HHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcc---hHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCC
Q 041741          428 AASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIV---CWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPT  504 (748)
Q Consensus       428 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  504 (748)
                      .++++..+. -...|..|...+..+|+...|+.-|++....|+.   .|-.|...|...+.++.|+..|.+....  .|+
T Consensus       208 lkAi~~qp~-fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--rpn  284 (966)
T KOG4626|consen  208 LKAIETQPC-FAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--RPN  284 (966)
T ss_pred             HHHHhhCCc-eeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--CCc
Confidence            988886653 3456778888899999999999999999877664   6778888999999999999999888754  564


Q ss_pred             -HHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHH
Q 041741          505 -QFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHG  580 (748)
Q Consensus       505 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~  580 (748)
                       ...+..+...|..+|..+.|+..+++..+.. +.-+..|+.+..++-..|++.+|.+.+.+...   ....+.+.|...
T Consensus       285 ~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni  363 (966)
T KOG4626|consen  285 HAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNI  363 (966)
T ss_pred             chhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence             4567777788899999999999999988764 22467899999999999999999999998764   356788899999


Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCCh
Q 041741          581 YAQNGYGDEAVRLYKDMIASGVKPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHF  658 (748)
Q Consensus       581 ~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~  658 (748)
                      +...|.++.|..+|....+  +.|.- ..++.|...|-.+|++++|+..+++..   .++|+ .+.+..++..|...|+.
T Consensus       364 ~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fAda~~NmGnt~ke~g~v  438 (966)
T KOG4626|consen  364 YREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFADALSNMGNTYKEMGDV  438 (966)
T ss_pred             HHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHHHHHHhcchHHHHhhhH
Confidence            9999999999999999998  56665 578899999999999999999999885   78898 67899999999999999


Q ss_pred             HHHHHHHhhCC-CCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHH
Q 041741          659 HEAEMLIDEMP-CKDD-PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDD  726 (748)
Q Consensus       659 ~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  726 (748)
                      +.|...+.+.. +.|. ......|...+..+|+..+|++.|+.++.++|+.|.++-.++.+..---+|.+
T Consensus       439 ~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D  508 (966)
T KOG4626|consen  439 SAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTD  508 (966)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccc
Confidence            99999998886 6665 67788899999999999999999999999999999999999998776666654

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

Probab=99.90  E-value=9.6e-21  Score=182.44  Aligned_cols=420  Identities=12%  Similarity=0.073  Sum_probs=338.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCC---CCcchHHHHHHHHHcc
Q 041741          306 WNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPS---PSVSSWNAMLSSYSQS  382 (748)
Q Consensus       306 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~  382 (748)
                      ...+..-..+.|++.+|++.-...-... +.+..+...+-..+....+++....--.....   .-..+|..+...+-..
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~ker  129 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKER  129 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHh
Confidence            3445566778899999998877655443 12222222233345555555544332222222   4457899999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHH
Q 041741          383 ENHKEAIKLFREMQFRGVKPD-RTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERV  461 (748)
Q Consensus       383 ~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  461 (748)
                      |++++|+.+++.+.+.  +|+ ...|..+..++...|+.+.|...+...++..+.. ..+...+.......|++++|...
T Consensus       130 g~~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l-~ca~s~lgnLlka~Grl~ea~~c  206 (966)
T KOG4626|consen  130 GQLQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDL-YCARSDLGNLLKAEGRLEEAKAC  206 (966)
T ss_pred             chHHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcch-hhhhcchhHHHHhhcccchhHHH
Confidence            9999999999999886  554 5678888889999999999999999998866432 22334456667779999999999


Q ss_pred             HhhCCCCCc---chHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCC-HHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCC
Q 041741          462 FHRIPELDI---VCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPT-QFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYV  537 (748)
Q Consensus       462 ~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  537 (748)
                      +.+..+.++   +.|+.|...+..+|+...|+..|.+..+.  .|+ ...|..|...|...+.+++|...+....... +
T Consensus       207 YlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-p  283 (966)
T KOG4626|consen  207 YLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-P  283 (966)
T ss_pred             HHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-C
Confidence            988875443   57999999999999999999999999854  554 4578888899999999999998888776653 3


Q ss_pred             CchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--C-CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 041741          538 NDIFVGSALIEMYCKCGDIYGARQFFDMMHG--K-NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILT  614 (748)
Q Consensus       538 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~  614 (748)
                      .....+..+...|...|.++-|...+++..+  | -+..|+.|..++...|++.+|...+++.+... +--....+.|..
T Consensus       284 n~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgn  362 (966)
T KOG4626|consen  284 NHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGN  362 (966)
T ss_pred             cchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHH
Confidence            3566677788888899999999999998774  4 46789999999999999999999999999852 334467899999


Q ss_pred             HhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCC-HhHHHHHHHHHHhcCCHH
Q 041741          615 ACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDD-PVIWEVLLSSCRLHANVR  691 (748)
Q Consensus       615 ~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~  691 (748)
                      .+...|.++.|..+|....   .+.|. ....+.|+..|...|++++|+.-+++.. ++|. .+.+..+...|...|++.
T Consensus       363 i~~E~~~~e~A~~ly~~al---~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v~  439 (966)
T KOG4626|consen  363 IYREQGKIEEATRLYLKAL---EVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDVS  439 (966)
T ss_pred             HHHHhccchHHHHHHHHHH---hhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhHH
Confidence            9999999999999999774   66777 5668899999999999999999999886 6775 688999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          692 LAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       692 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .|.+.+.+++..+|.-+.++..|+.+|...|+..+|+.-|+...+
T Consensus       440 ~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLk  484 (966)
T KOG4626|consen  440 AAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALK  484 (966)
T ss_pred             HHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc
Confidence            999999999999999999999999999999999999999998654

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

Probab=99.89  E-value=7.7e-18  Score=171.63  Aligned_cols=461  Identities=12%  Similarity=0.096  Sum_probs=332.0

Q ss_pred             CCchHHHHHHHHHHHhcCChhHHHHHhccCCCCC------cccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhh--
Q 041741          269 EADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERS------VVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVT--  340 (748)
Q Consensus       269 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~--  340 (748)
                      +.++.+.+.|...|...|++..+..+...+...+      ..+|-.+.++|-..|++++|...|-+....  .|+..+  
T Consensus       267 ~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~--~~d~~~l~  344 (1018)
T KOG2002|consen  267 NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLP  344 (1018)
T ss_pred             CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCcccc
Confidence            4567778888888889999998888876655432      235778889999999999999998776654  444433  


Q ss_pred             HHHHHHHHHhcCCHHHHHHHhccCCC---CCcchHHHHHHHHHccC----CHHHHHHHHHHHHHcCCCCCHhhHHHHHHH
Q 041741          341 SINMLVACVRSGDIKTGREMFDSMPS---PSVSSWNAMLSSYSQSE----NHKEAIKLFREMQFRGVKPDRTTLAIILSS  413 (748)
Q Consensus       341 ~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~~----~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  413 (748)
                      +.-+...+.+.|+++.+...|+.+..   .+..+..+|...|...+    ..+.|..++.+..+.- +.|...|..+...
T Consensus       345 ~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql  423 (1018)
T KOG2002|consen  345 LVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQL  423 (1018)
T ss_pred             ccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHH
Confidence            44566688899999999999988875   23344555555565553    4566777776666542 3445555555555


Q ss_pred             hhccCChHHHHHHHHH----HHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCC-------CCcc------hHHHH
Q 041741          414 CAAMGILESGKQVHAA----SLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPE-------LDIV------CWNSM  476 (748)
Q Consensus       414 ~~~~~~~~~a~~~~~~----~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~~~------~~~~l  476 (748)
                      +.... +.....++..    +...+..+.+.+.+.+...+...|.++.|...|.....       ++..      +--.+
T Consensus       424 ~e~~d-~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNl  502 (1018)
T KOG2002|consen  424 LEQTD-PWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNL  502 (1018)
T ss_pred             HHhcC-hHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHH
Confidence            54443 3333555544    34556667888999999999999999999999887652       1221      12234


Q ss_pred             HHHHHhCCCchHHHHHHHHHHHCCCCCCHH-HHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCC
Q 041741          477 IAGLSLNSLDIEAFMFFKQMRQNEMYPTQF-SFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGD  555 (748)
Q Consensus       477 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  555 (748)
                      ...+-..++.+.|.+.|..+...  .|+-. .|..+.-.....++...|...+....... ..++..++.+...+.+..+
T Consensus       503 arl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~  579 (1018)
T KOG2002|consen  503 ARLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSE  579 (1018)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhh
Confidence            45566677899999999999876  56544 34344323334567788888888777653 3455566667778888888


Q ss_pred             HHHHHHHhhhcCC-----CCHHHHHHHHHHHHH------------cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC
Q 041741          556 IYGARQFFDMMHG-----KNTVTWNEMIHGYAQ------------NGYGDEAVRLYKDMIASGVKPDDITFVAILTACSH  618 (748)
Q Consensus       556 ~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~------------~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~  618 (748)
                      +..|.+-|..+.+     +|+.+.-.|.+.+..            .+..++|+++|.+.+... +-|...-+.+.-.++.
T Consensus       580 ~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~  658 (1018)
T KOG2002|consen  580 WKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAE  658 (1018)
T ss_pred             hcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhh
Confidence            8888886655442     466666666665543            245678999999988863 4566677888888999


Q ss_pred             CCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC----CCCCHhHHHHHHHHHHhcCCHHHHH
Q 041741          619 SGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP----CKDDPVIWEVLLSSCRLHANVRLAK  694 (748)
Q Consensus       619 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~a~  694 (748)
                      .|++.+|..+|.+.+....  ...++|..++.+|...|++-.|+++|+...    -..++.++..|..++...|.+.+|.
T Consensus       659 kg~~~~A~dIFsqVrEa~~--~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak  736 (1018)
T KOG2002|consen  659 KGRFSEARDIFSQVREATS--DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAK  736 (1018)
T ss_pred             ccCchHHHHHHHHHHHHHh--hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHH
Confidence            9999999999999954432  345568899999999999999999998774    3457889999999999999999999


Q ss_pred             HHHHHHHhcCCCCCcchHHHhHHHhhcC-------------------ChHHHHHHHHHHHhcCC
Q 041741          695 RAAEELFRLDPKNSAPYSLLANIYSSLG-------------------RWDDLRAVRELMSENCI  739 (748)
Q Consensus       695 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g-------------------~~~~A~~~~~~~~~~~~  739 (748)
                      +.+..++...|.|+.....++-+..+.+                   ..+.|.++|+.|...+-
T Consensus       737 ~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d  800 (1018)
T KOG2002|consen  737 EALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGD  800 (1018)
T ss_pred             HHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            9999999999999999888888765543                   34567777777766443

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

Probab=99.87  E-value=2.8e-18  Score=185.18  Aligned_cols=418  Identities=13%  Similarity=0.020  Sum_probs=282.1

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCC---CCcchHHHHHHHHHcc
Q 041741          306 WNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPS---PSVSSWNAMLSSYSQS  382 (748)
Q Consensus       306 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~  382 (748)
                      +......+.+.|++++|+..|++....  .|+...|..+..++...|++++|+..++...+   .+...|..+..++...
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~l  207 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGL  207 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHc
Confidence            344556677778888888888877653  56667777777788888888888888877664   2344677777888888


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHH
Q 041741          383 ENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVF  462 (748)
Q Consensus       383 ~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  462 (748)
                      |++++|+..+......+- .+......++.....    ..+........+.... +......+.. |...........-+
T Consensus       208 g~~~eA~~~~~~~~~~~~-~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~  280 (615)
T TIGR00990       208 GKYADALLDLTASCIIDG-FRNEQSAQAVERLLK----KFAESKAKEILETKPE-NLPSVTFVGN-YLQSFRPKPRPAGL  280 (615)
T ss_pred             CCHHHHHHHHHHHHHhCC-CccHHHHHHHHHHHH----HHHHHHHHHHHhcCCC-CCCCHHHHHH-HHHHccCCcchhhh
Confidence            888888887766554321 111111111111111    1111222222222211 1111111111 11111111111112


Q ss_pred             hhCCCCCcc---hHHHHHHH---HHhCCCchHHHHHHHHHHHCC-CCC-CHHHHHHHHHhhcCCCCchhHHHHHHHHHHh
Q 041741          463 HRIPELDIV---CWNSMIAG---LSLNSLDIEAFMFFKQMRQNE-MYP-TQFSFATVLSSCAKLSSSFQGRQVHAQIEKD  534 (748)
Q Consensus       463 ~~~~~~~~~---~~~~li~~---~~~~~~~~~a~~~~~~m~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  534 (748)
                      ....+.+..   .+..+...   ....+++++|++.|+.....+ ..| ....+..+...+...|+++.|...++...+.
T Consensus       281 ~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l  360 (615)
T TIGR00990       281 EDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL  360 (615)
T ss_pred             hcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            211111111   11111111   123467899999999998764 234 3456777777888899999999999998876


Q ss_pred             CCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHH
Q 041741          535 GYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVA  611 (748)
Q Consensus       535 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  611 (748)
                      . +.....+..+..++...|++++|...|+...+   .+...|..+...+...|++++|+..|++.++.. +.+...+..
T Consensus       361 ~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~  438 (615)
T TIGR00990       361 D-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQ  438 (615)
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHH
Confidence            4 23466778888889999999999999997753   467889999999999999999999999999863 344567778


Q ss_pred             HHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCC-Hh-------HHHHHHH
Q 041741          612 ILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDD-PV-------IWEVLLS  682 (748)
Q Consensus       612 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~-------~~~~l~~  682 (748)
                      +...+...|++++|+..+++....  .+.+...+..++.++...|++++|.+.+++.. ..|+ ..       .+.....
T Consensus       439 la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~  516 (615)
T TIGR00990       439 LGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALA  516 (615)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHH
Confidence            888999999999999999988532  22336778889999999999999999998864 3332 11       1122222


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          683 SCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       683 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .+...|++++|...++++++++|++..++..+++++...|++++|..+|+++.+
T Consensus       517 ~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~  570 (615)
T TIGR00990       517 LFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAE  570 (615)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            344569999999999999999999999999999999999999999999998765

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

Probab=99.86  E-value=8.4e-17  Score=164.18  Aligned_cols=433  Identities=12%  Similarity=0.050  Sum_probs=316.2

Q ss_pred             CCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCC--CChhhHHHHHHHHHhcCCHHHHHHHhccCCC--CCcch--HHH
Q 041741          301 RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFE--PDEVTSINMLVACVRSGDIKTGREMFDSMPS--PSVSS--WNA  374 (748)
Q Consensus       301 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~--~~~  374 (748)
                      .|+...+.+...|.-.|++..++.+...+......  .-...|-.+.+++...|+++.|...|-+..+  ++..+  +--
T Consensus       268 ~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~G  347 (1018)
T KOG2002|consen  268 ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVG  347 (1018)
T ss_pred             CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccc
Confidence            57888999999999999999999999998875411  2234578889999999999999999987765  33333  445


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHhhccC----ChHHHHHHHHHHHhhcCCchhHHHHHHHHHH
Q 041741          375 MLSSYSQSENHKEAIKLFREMQFRGVKPD-RTTLAIILSSCAAMG----ILESGKQVHAASLKTASHIDNYVASGLIGIY  449 (748)
Q Consensus       375 ll~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  449 (748)
                      +...+.+.|+.+.+...|+...+.  .|+ ..+...+...|...+    ..+.|..+.....+.. ..+...|-.+..++
T Consensus       348 lgQm~i~~~dle~s~~~fEkv~k~--~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~  424 (1018)
T KOG2002|consen  348 LGQMYIKRGDLEESKFCFEKVLKQ--LPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLL  424 (1018)
T ss_pred             hhHHHHHhchHHHHHHHHHHHHHh--CcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHH
Confidence            778999999999999999999876  455 455555555555554    4566666666666655 33666777777777


Q ss_pred             HhcCChH------HHHHHHhhCC-CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHC---CCCCCH-----H-HHHHHHH
Q 041741          450 SKCQRNE------LAERVFHRIP-ELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQN---EMYPTQ-----F-SFATVLS  513 (748)
Q Consensus       450 ~~~~~~~------~a~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~~-----~-~~~~l~~  513 (748)
                      ....-+.      .|..++.... ...+...|.+.......|++.+|...|......   ...++.     . +--.+..
T Consensus       425 e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlar  504 (1018)
T KOG2002|consen  425 EQTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLAR  504 (1018)
T ss_pred             HhcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHH
Confidence            6555443      3443333332 345667899999999999999999999988765   122332     1 2223455


Q ss_pred             hhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcC---CCCHHHHHHHHHHHHHcCChhHH
Q 041741          514 SCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMH---GKNTVTWNEMIHGYAQNGYGDEA  590 (748)
Q Consensus       514 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a  590 (748)
                      .....++.+.|.+.+..+.+.. +.-+..|-.+.-+....++..+|...+..+.   ..++..+.-+...+.+...+..|
T Consensus       505 l~E~l~~~~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a  583 (1018)
T KOG2002|consen  505 LLEELHDTEVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPA  583 (1018)
T ss_pred             HHHhhhhhhHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhccc
Confidence            5667789999999999988763 1122223333322233467889999998776   36788888889899999999889


Q ss_pred             HHHHHHHHHcC-CCCCHHHHHHHHHHhc------------CCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCC
Q 041741          591 VRLYKDMIASG-VKPDDITFVAILTACS------------HSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGH  657 (748)
Q Consensus       591 ~~~~~~m~~~~-~~p~~~~~~~l~~~~~------------~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  657 (748)
                      .+-|+...+.- ..+|..+...|...|.            ..+..++|+.+|.+..+  ..+-+...-+.++-+++..|+
T Consensus       584 ~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~--~dpkN~yAANGIgiVLA~kg~  661 (1018)
T KOG2002|consen  584 KKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLR--NDPKNMYAANGIGIVLAEKGR  661 (1018)
T ss_pred             ccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHh--cCcchhhhccchhhhhhhccC
Confidence            88777666532 2356666666666552            22356788888887741  223345666778889999999


Q ss_pred             hHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhc-C-CCCCcchHHHhHHHhhcCChHHHHHHHHH
Q 041741          658 FHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRL-D-PKNSAPYSLLANIYSSLGRWDDLRAVREL  733 (748)
Q Consensus       658 ~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  733 (748)
                      +.+|..+|.+..  ....+++|..++.+|...|++..|++.|+..++. . .+++.++..|+.+++..|++.+|.+.+..
T Consensus       662 ~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~  741 (1018)
T KOG2002|consen  662 FSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLK  741 (1018)
T ss_pred             chHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            999999999886  3346789999999999999999999999999985 3 34678999999999999999999999887


Q ss_pred             HHhcCC
Q 041741          734 MSENCI  739 (748)
Q Consensus       734 ~~~~~~  739 (748)
                      .+...+
T Consensus       742 a~~~~p  747 (1018)
T KOG2002|consen  742 ARHLAP  747 (1018)
T ss_pred             HHHhCC
Confidence            665433

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.84  E-value=9.1e-19  Score=179.75  Aligned_cols=268  Identities=12%  Similarity=0.067  Sum_probs=180.7

Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHHHHCCCCCC---HHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHH
Q 041741          473 WNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPT---QFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEM  549 (748)
Q Consensus       473 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  549 (748)
                      +..+...+...|++++|..+++.+...+..++   ..++..+...+...|+++.|..++..+.+.. +.+..++..++.+
T Consensus        72 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~  150 (389)
T PRK11788         72 HLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEI  150 (389)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHH
Confidence            33344444444555555555544443321111   1234444555555555555555555554431 2344555566666


Q ss_pred             HHhcCCHHHHHHHhhhcCC--CC------HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCC
Q 041741          550 YCKCGDIYGARQFFDMMHG--KN------TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGL  621 (748)
Q Consensus       550 ~~~~g~~~~A~~~~~~~~~--~~------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~  621 (748)
                      +.+.|++++|.+.++.+.+  |+      ...+..++..+...|++++|..+++++.+.. +.+...+..+...+...|+
T Consensus       151 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~  229 (389)
T PRK11788        151 YQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGD  229 (389)
T ss_pred             HHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCC
Confidence            6666666666666665543  11      1234567777888899999999999988753 3345577778888889999


Q ss_pred             hHHHHHHHHHhhhhhCCCCC--hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCHhHHHHHHHHHHhcCCHHHHHHHHH
Q 041741          622 VDVGVEIFNSMQLDHGVEPI--LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDPVIWEVLLSSCRLHANVRLAKRAAE  698 (748)
Q Consensus       622 ~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  698 (748)
                      +++|..+++++...   .|+  ...+..++.+|...|++++|...++++. ..|+...+..++..+...|++++|...++
T Consensus       230 ~~~A~~~~~~~~~~---~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~  306 (389)
T PRK11788        230 YAAAIEALERVEEQ---DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQALLR  306 (389)
T ss_pred             HHHHHHHHHHHHHH---ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHHHHHH
Confidence            99999999988422   333  3557788899999999999999998875 55666666778888999999999999999


Q ss_pred             HHHhcCCCCCcchHHHhHHHhh--cCChHHHHHHHHHHHhcCCCCCCCC
Q 041741          699 ELFRLDPKNSAPYSLLANIYSS--LGRWDDLRAVRELMSENCIVKDPAY  745 (748)
Q Consensus       699 ~~~~~~p~~~~~~~~l~~~~~~--~g~~~~A~~~~~~~~~~~~~~~~~~  745 (748)
                      ++++..|+++.....+...+..  .|+.++|...+++|.+++++++|.+
T Consensus       307 ~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~~  355 (389)
T PRK11788        307 EQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPRY  355 (389)
T ss_pred             HHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCCE
Confidence            9999999776444344433322  5699999999999999999999974

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.83  E-value=6.6e-17  Score=173.53  Aligned_cols=345  Identities=10%  Similarity=0.007  Sum_probs=244.2

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHh
Q 041741          372 WNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSK  451 (748)
Q Consensus       372 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  451 (748)
                      ...++..+.+.|+++.|..+++...... +-+...+..+..++...|+++.|...++.+....+. +...+..+...+..
T Consensus        45 ~~~~~~~~~~~g~~~~A~~l~~~~l~~~-p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~-~~~a~~~la~~l~~  122 (656)
T PRK15174         45 IILFAIACLRKDETDVGLTLLSDRVLTA-KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVC-QPEDVLLVASVLLK  122 (656)
T ss_pred             HHHHHHHHHhcCCcchhHHHhHHHHHhC-CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHH
Confidence            3445566677788888888877776652 222334444455566677788888777777776544 44556667777888


Q ss_pred             cCChHHHHHHHhhCCCC---CcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHH
Q 041741          452 CQRNELAERVFHRIPEL---DIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVH  528 (748)
Q Consensus       452 ~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  528 (748)
                      .|++++|...+++....   ++..+..+...+...|++++|...++.+......+ ...+..+ ..+...|++++|...+
T Consensus       123 ~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~-~~a~~~~-~~l~~~g~~~eA~~~~  200 (656)
T PRK15174        123 SKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPR-GDMIATC-LSFLNKSRLPEDHDLA  200 (656)
T ss_pred             cCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCC-HHHHHHH-HHHHHcCCHHHHHHHH
Confidence            88888888888777642   34467777888888888888888888776653222 2222222 3467788888888888


Q ss_pred             HHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhH----HHHHHHHHHHcC
Q 041741          529 AQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDE----AVRLYKDMIASG  601 (748)
Q Consensus       529 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~----a~~~~~~m~~~~  601 (748)
                      +.+.+....++......+..++...|++++|...++....   .+...+..+...+...|++++    |...++++.+..
T Consensus       201 ~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~  280 (656)
T PRK15174        201 RALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN  280 (656)
T ss_pred             HHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC
Confidence            8877664334444455566778888999999988887664   356677788888899998885    788999988852


Q ss_pred             CCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCH-hHHH
Q 041741          602 VKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDP-VIWE  678 (748)
Q Consensus       602 ~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~-~~~~  678 (748)
                       +.+...+..+...+...|++++|+..+++...   ..|+ ...+..++.++.+.|++++|...++++. ..|+. ..+.
T Consensus       281 -P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~---l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~  356 (656)
T PRK15174        281 -SDNVRIVTLYADALIRTGQNEKAIPLLQQSLA---THPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNR  356 (656)
T ss_pred             -CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHH
Confidence             33456788888888999999999999988852   3454 4556678888999999999999988875 44543 3333


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          679 VLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       679 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .+...+...|++++|...++++++.+|++.            ..++++|...|....+
T Consensus       357 ~~a~al~~~G~~deA~~~l~~al~~~P~~~------------~~~~~ea~~~~~~~~~  402 (656)
T PRK15174        357 YAAAALLQAGKTSEAESVFEHYIQARASHL------------PQSFEEGLLALDGQIS  402 (656)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhChhhc------------hhhHHHHHHHHHHHHH
Confidence            445667888999999999999999998764            2344455555555444

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.83  E-value=1.7e-16  Score=174.34  Aligned_cols=400  Identities=9%  Similarity=0.001  Sum_probs=251.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCC---CCcchHHHHHHHHHcc
Q 041741          306 WNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPS---PSVSSWNAMLSSYSQS  382 (748)
Q Consensus       306 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~  382 (748)
                      ..-.+......|+.++|++++.+..... +.+...+..+..++...|++++|...|+....   .+...+..+...+...
T Consensus        18 ~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~   96 (765)
T PRK10049         18 IADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADA   96 (765)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHC
Confidence            4445556667777777777777776522 23344566666677777777777777776442   3344555666667777


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHH
Q 041741          383 ENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVF  462 (748)
Q Consensus       383 ~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  462 (748)
                      |++++|+..++++.+.  .|+...+..+..++...|+.+.|...++.+.+..+. +......+..++...+..+.|+..+
T Consensus        97 g~~~eA~~~l~~~l~~--~P~~~~~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~Al~~l  173 (765)
T PRK10049         97 GQYDEALVKAKQLVSG--APDKANLLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPALGAI  173 (765)
T ss_pred             CCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHHHHHH
Confidence            7777777777777665  333222555555666667777777777777666554 2333334455555556666666666


Q ss_pred             hhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhh-----cCCCCc---hhHHHHHHHHHHh
Q 041741          463 HRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSC-----AKLSSS---FQGRQVHAQIEKD  534 (748)
Q Consensus       463 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~-----~~~~~~---~~a~~~~~~~~~~  534 (748)
                      +.+.. ++.....+ .                          ......++...     ...+.+   +.|...++.+.+.
T Consensus       174 ~~~~~-~p~~~~~l-~--------------------------~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~  225 (765)
T PRK10049        174 DDANL-TPAEKRDL-E--------------------------ADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEAL  225 (765)
T ss_pred             HhCCC-CHHHHHHH-H--------------------------HHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhh
Confidence            55543 21100000 0                          00000111111     111122   4455555555543


Q ss_pred             -CCCCchH-HH----HHHHHHHHhcCCHHHHHHHhhhcCCCC---HH-HHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC
Q 041741          535 -GYVNDIF-VG----SALIEMYCKCGDIYGARQFFDMMHGKN---TV-TWNEMIHGYAQNGYGDEAVRLYKDMIASGVKP  604 (748)
Q Consensus       535 -~~~~~~~-~~----~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~-~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p  604 (748)
                       ...|+.. .+    ...+..+...|++++|...|+.+.+.+   +. ....+...|...|++++|+.+|+++.+..  |
T Consensus       226 ~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~--p  303 (765)
T PRK10049        226 WHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHP--E  303 (765)
T ss_pred             cccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcC--C
Confidence             1222211 11    111233456688888888888876421   11 12224667888888888888888877643  2


Q ss_pred             C-----HHHHHHHHHHhcCCCChHHHHHHHHHhhhhhC----------CCCC---hhHHHHHHHHHHhcCChHHHHHHHh
Q 041741          605 D-----DITFVAILTACSHSGLVDVGVEIFNSMQLDHG----------VEPI---LDHYTCMIDCLGRAGHFHEAEMLID  666 (748)
Q Consensus       605 ~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----------~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~  666 (748)
                      .     ......+..++...|++++|..+++.+.....          -.|+   ...+..++..+...|++++|.+.++
T Consensus       304 ~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~  383 (765)
T PRK10049        304 TIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRAR  383 (765)
T ss_pred             CCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            2     23455666677888888888888888743211          1123   2244567888889999999999999


Q ss_pred             hCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          667 EMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       667 ~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      ++.  .+.++..+..++..+...|++++|++.++++++++|+++..+..++.++...|++++|+..++.+.+..+
T Consensus       384 ~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~P  458 (765)
T PRK10049        384 ELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREP  458 (765)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC
Confidence            875  4446788888888999999999999999999999999999999999999999999999999998876544

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.81  E-value=9.1e-17  Score=172.45  Aligned_cols=353  Identities=11%  Similarity=0.008  Sum_probs=276.7

Q ss_pred             HccCCHHHHHHHHHHHHHcC--CCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHH
Q 041741          380 SQSENHKEAIKLFREMQFRG--VKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNEL  457 (748)
Q Consensus       380 ~~~~~~~~a~~~~~~m~~~g--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  457 (748)
                      .+..+|+..--.+....++.  -.-+......++..+...|+++.|..++...+...+.... ....++.+....|+.+.
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~-~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNGRD-LLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchh-HHHHHhhhHhhcCCHHH
Confidence            45556655444444332210  1122334556677888999999999999999988777544 44445566677999999


Q ss_pred             HHHHHhhCCCC---CcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHh
Q 041741          458 AERVFHRIPEL---DIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKD  534 (748)
Q Consensus       458 a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  534 (748)
                      |...++++...   +...+..+...+...|++++|...+++..... +.+...+..+...+...|+++.|...+..+...
T Consensus        95 A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~  173 (656)
T PRK15174         95 VLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQE  173 (656)
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHh
Confidence            99999998753   44567888889999999999999999998752 335667788889999999999999999988776


Q ss_pred             CCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCC----CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHH
Q 041741          535 GYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGK----NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFV  610 (748)
Q Consensus       535 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  610 (748)
                      ...+. ..+..+ ..+...|++++|...++.+.+.    +...+..++..+...|++++|+..++++.+.. +.+...+.
T Consensus       174 ~P~~~-~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~  250 (656)
T PRK15174        174 VPPRG-DMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRR  250 (656)
T ss_pred             CCCCH-HHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHH
Confidence            54333 333333 3478899999999999987642    33344556778899999999999999999864 44556788


Q ss_pred             HHHHHhcCCCChHH----HHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHH
Q 041741          611 AILTACSHSGLVDV----GVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSS  683 (748)
Q Consensus       611 ~l~~~~~~~~~~~~----A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~  683 (748)
                      .+...+...|++++    |...++++.   ...|+ ...+..++..+...|++++|...+++.. ..| ++..+..+...
T Consensus       251 ~Lg~~l~~~G~~~eA~~~A~~~~~~Al---~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~  327 (656)
T PRK15174        251 SLGLAYYQSGRSREAKLQAAEHWRHAL---QFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARA  327 (656)
T ss_pred             HHHHHHHHcCCchhhHHHHHHHHHHHH---hhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            89999999999986    799999885   34455 6678899999999999999999999885 334 57778888889


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCCC
Q 041741          684 CRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIV  740 (748)
Q Consensus       684 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  740 (748)
                      +...|++++|...++++++.+|+++..+..++.++...|++++|...|+++.+..++
T Consensus       328 l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        328 LRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChh
Confidence            999999999999999999999988877778899999999999999999998776544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.80  E-value=1.7e-15  Score=166.43  Aligned_cols=408  Identities=9%  Similarity=0.023  Sum_probs=285.1

Q ss_pred             CCchHHHHHHHHHHHhcCChhHHHHHhccCCC-C--CcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHH
Q 041741          269 EADLHLSNSLLDMYAKNGDMDSAEVIFSNLPE-R--SVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINML  345 (748)
Q Consensus       269 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  345 (748)
                      +.++....-.+.+....|+.++|++++..... .  +...+..+...+...|++++|.++|++..+.. +.+......+.
T Consensus        12 ~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la   90 (765)
T PRK10049         12 ALSNNQIADWLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLI   90 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            34555666778888999999999999998764 2  33358889999999999999999999988753 23455566777


Q ss_pred             HHHHhcCCHHHHHHHhccCCC---CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-hhHHHHHHHhhccCChH
Q 041741          346 VACVRSGDIKTGREMFDSMPS---PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDR-TTLAIILSSCAAMGILE  421 (748)
Q Consensus       346 ~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~  421 (748)
                      ..+...|+.++|...++++..   .+.. +..+...+...|+.++|+..++++.+.  .|+. ..+..+..++...+..+
T Consensus        91 ~~l~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~--~P~~~~~~~~la~~l~~~~~~e  167 (765)
T PRK10049         91 LTLADAGQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPR--APQTQQYPTEYVQALRNNRLSA  167 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCChH
Confidence            788999999999999998865   3445 777888999999999999999999986  4554 44455666777788888


Q ss_pred             HHHHHHHHHHhhcCCchhH------HHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCc---hHHHHH
Q 041741          422 SGKQVHAASLKTASHIDNY------VASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLD---IEAFMF  492 (748)
Q Consensus       422 ~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~---~~a~~~  492 (748)
                      .|...++.+..   .|+..      ....++..+..                          ......+++   ++|++.
T Consensus       168 ~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~--------------------------~~~~~~~r~~~ad~Al~~  218 (765)
T PRK10049        168 PALGAIDDANL---TPAEKRDLEADAAAELVRLSFM--------------------------PTRSEKERYAIADRALAQ  218 (765)
T ss_pred             HHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcc--------------------------cccChhHHHHHHHHHHHH
Confidence            88888776554   22210      00111111100                          000111122   556666


Q ss_pred             HHHHHHC-CCCCCHH-HHH----HHHHhhcCCCCchhHHHHHHHHHHhCCC-CchHHHHHHHHHHHhcCCHHHHHHHhhh
Q 041741          493 FKQMRQN-EMYPTQF-SFA----TVLSSCAKLSSSFQGRQVHAQIEKDGYV-NDIFVGSALIEMYCKCGDIYGARQFFDM  565 (748)
Q Consensus       493 ~~~m~~~-~~~p~~~-~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~  565 (748)
                      ++.+.+. ...|+.. .+.    ..+..+...|+.++|...|+.+.+.+.+ |+- ....+..+|...|++++|...|+.
T Consensus       219 ~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~  297 (765)
T PRK10049        219 YDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTE  297 (765)
T ss_pred             HHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHH
Confidence            6666643 1222211 111    1122334557778888888877776532 221 222246678888888888888887


Q ss_pred             cCCCC-------HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCC-----------CCCH---HHHHHHHHHhcCCCChHH
Q 041741          566 MHGKN-------TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGV-----------KPDD---ITFVAILTACSHSGLVDV  624 (748)
Q Consensus       566 ~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-----------~p~~---~~~~~l~~~~~~~~~~~~  624 (748)
                      +.+.+       ......+..++...|++++|..+++++.....           .|+.   ..+..+...+...|++++
T Consensus       298 ~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~e  377 (765)
T PRK10049        298 LFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQ  377 (765)
T ss_pred             HhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHH
Confidence            65321       23455566677888999999999988887521           1232   245567778889999999


Q ss_pred             HHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 041741          625 GVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFR  702 (748)
Q Consensus       625 A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  702 (748)
                      |+.+++++...  .+.+...+..++.++...|++++|.+.+++.. ..| ++..+...+..+...|++++|+..++++++
T Consensus       378 A~~~l~~al~~--~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~  455 (765)
T PRK10049        378 AEMRARELAYN--APGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVA  455 (765)
T ss_pred             HHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            99999998533  23336778889999999999999999999886 445 467777778888999999999999999999


Q ss_pred             cCCCCCcchH
Q 041741          703 LDPKNSAPYS  712 (748)
Q Consensus       703 ~~p~~~~~~~  712 (748)
                      ..|+++.+..
T Consensus       456 ~~Pd~~~~~~  465 (765)
T PRK10049        456 REPQDPGVQR  465 (765)
T ss_pred             hCCCCHHHHH
Confidence            9998875543

>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=99.79  E-value=1.3e-15  Score=164.65  Aligned_cols=419  Identities=11%  Similarity=-0.032  Sum_probs=288.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHhccCCC--CCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcC
Q 041741          275 SNSLLDMYAKNGDMDSAEVIFSNLPE--RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSG  352 (748)
Q Consensus       275 ~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  352 (748)
                      +......+.+.|+++.|...|+....  |+...|..+..+|.+.|++++|++.++...+.. +.+...+..+..++...|
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg  208 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLG  208 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcC
Confidence            44567788899999999999998654  666788889999999999999999999998764 224567778888999999


Q ss_pred             CHHHHHHHhccCCC---CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHH
Q 041741          353 DIKTGREMFDSMPS---PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAA  429 (748)
Q Consensus       353 ~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  429 (748)
                      ++++|...|..+..   .+......++..+..    ..+........+.. +++..... .+..+............+..
T Consensus       209 ~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  282 (615)
T TIGR00990       209 KYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILETK-PENLPSVT-FVGNYLQSFRPKPRPAGLED  282 (615)
T ss_pred             CHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHH-HHHHHHHHccCCcchhhhhc
Confidence            99999987765432   111111122221111    12222222222221 11111111 11111111111111111111


Q ss_pred             HHhhcCCchhHHHHHHHHH---HHhcCChHHHHHHHhhCCCC------CcchHHHHHHHHHhCCCchHHHHHHHHHHHCC
Q 041741          430 SLKTASHIDNYVASGLIGI---YSKCQRNELAERVFHRIPEL------DIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNE  500 (748)
Q Consensus       430 ~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  500 (748)
                      ..+..... ...+..+...   ....+++++|.+.|+...+.      ....++.+...+...|++++|+..|++.... 
T Consensus       283 ~~~~~~~~-~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l-  360 (615)
T TIGR00990       283 SNELDEET-GNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL-  360 (615)
T ss_pred             cccccccc-ccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-
Confidence            11111000 0001111111   12346788999998887643      2345777788888999999999999999865 


Q ss_pred             CCCC-HHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHH
Q 041741          501 MYPT-QFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNE  576 (748)
Q Consensus       501 ~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~  576 (748)
                       .|+ ...|..+...+...|+++.|...++.+.+.. +.++.++..+..++...|++++|...|++..+   .+...+..
T Consensus       361 -~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~  438 (615)
T TIGR00990       361 -DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQ  438 (615)
T ss_pred             -CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHH
Confidence             454 5577888888899999999999999987764 44678888999999999999999999998764   35677888


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCCh-----hH---HHHH
Q 041741          577 MIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPIL-----DH---YTCM  648 (748)
Q Consensus       577 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-----~~---~~~l  648 (748)
                      +..++.+.|++++|+..+++.++. .+.+...+..+...+...|++++|+..|++...   +.|+.     ..   +...
T Consensus       439 la~~~~~~g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~---l~p~~~~~~~~~~~l~~~a  514 (615)
T TIGR00990       439 LGVTQYKEGSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIE---LEKETKPMYMNVLPLINKA  514 (615)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHh---cCCccccccccHHHHHHHH
Confidence            899999999999999999999985 244567888999999999999999999998742   23321     11   1112


Q ss_pred             HHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 041741          649 IDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS  708 (748)
Q Consensus       649 ~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  708 (748)
                      ...+...|++++|..++++.. ..| +...+..++..+...|++++|...+++++++.+...
T Consensus       515 ~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~~  576 (615)
T TIGR00990       515 LALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAELARTEG  576 (615)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccHH
Confidence            223344699999999999864 444 456788889999999999999999999999987533

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.79  E-value=7.7e-17  Score=165.48  Aligned_cols=300  Identities=11%  Similarity=0.025  Sum_probs=150.7

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCC-CC------cchHHHHHHHHHcc
Q 041741          310 IAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPS-PS------VSSWNAMLSSYSQS  382 (748)
Q Consensus       310 ~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~------~~~~~~ll~~~~~~  382 (748)
                      ...+...|++++|+..|+++.+.+ +.+..++..+...+...|+++.|...++.+.. ++      ...+..+...|.+.
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHC
Confidence            344566777888888888877653 12334555666666666666666666665543 11      12345556666666


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHH
Q 041741          383 ENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVF  462 (748)
Q Consensus       383 ~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  462 (748)
                      |++++|..+|+++.+. -+++..++..+...+...|+++.|.+.+..+.+.+..+....                     
T Consensus       121 g~~~~A~~~~~~~l~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---------------------  178 (389)
T PRK11788        121 GLLDRAEELFLQLVDE-GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVE---------------------  178 (389)
T ss_pred             CCHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHH---------------------
Confidence            6666666666666553 123344455555555555555555555555544332211100                     


Q ss_pred             hhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHH
Q 041741          463 HRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFV  542 (748)
Q Consensus       463 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  542 (748)
                            ....+..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|..+++.+.+.+......+
T Consensus       179 ------~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  251 (389)
T PRK11788        179 ------IAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEV  251 (389)
T ss_pred             ------HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHH
Confidence                  00012233334444455555555555544332 11223334444444455555555555555444332222334


Q ss_pred             HHHHHHHHHhcCCHHHHHHHhhhcCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC--
Q 041741          543 GSALIEMYCKCGDIYGARQFFDMMHG--KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSH--  618 (748)
Q Consensus       543 ~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~--  618 (748)
                      ++.++.+|.+.|++++|...++.+.+  |+...+..++..+.+.|++++|..+++++.+.  .|+..++..++..+..  
T Consensus       252 ~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~  329 (389)
T PRK11788        252 LPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEA  329 (389)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhcc
Confidence            44555555555555555555555432  44444455555555555555555555555553  4555555544444332  


Q ss_pred             -CCChHHHHHHHHHhhhhhCCCCCh
Q 041741          619 -SGLVDVGVEIFNSMQLDHGVEPIL  642 (748)
Q Consensus       619 -~~~~~~A~~~~~~~~~~~~~~~~~  642 (748)
                       .|+.++++.+++++. ..++.|++
T Consensus       330 ~~g~~~~a~~~~~~~~-~~~~~~~p  353 (389)
T PRK11788        330 EEGRAKESLLLLRDLV-GEQLKRKP  353 (389)
T ss_pred             CCccchhHHHHHHHHH-HHHHhCCC
Confidence             335555555555552 33444443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.78  E-value=6.8e-15  Score=158.01  Aligned_cols=420  Identities=10%  Similarity=0.055  Sum_probs=252.6

Q ss_pred             HHHhcCChhHHHHHhccCCCCCcc---cHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhH---HHHHHHHHhcCCH
Q 041741          281 MYAKNGDMDSAEVIFSNLPERSVV---SWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTS---INMLVACVRSGDI  354 (748)
Q Consensus       281 ~~~~~~~~~~a~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~---~~ll~~~~~~~~~  354 (748)
                      ...+.|+++.|...|++..+.++.   ....++..+...|+.++|+..+++..    .|+...+   ..+...+...|++
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~----~p~n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQ----SSMNISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhc----cCCCCCHHHHHHHHHHHHHcCCH
Confidence            456889999999999988764333   13377888888899999999999887    3332222   2234467778999


Q ss_pred             HHHHHHhccCCC---CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHH
Q 041741          355 KTGREMFDSMPS---PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASL  431 (748)
Q Consensus       355 ~~a~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  431 (748)
                      ++|.++|+++.+   .++..+..++..+...++.++|++.++.+.+.  .|+...+..+...+...++...|.+.++.++
T Consensus       119 d~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll  196 (822)
T PRK14574        119 DQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAV  196 (822)
T ss_pred             HHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            999999998875   34455667778888899999999999988776  5666666444444444566656888888888


Q ss_pred             hhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCC-CcchH--------HHHHHHH-H----hCCC---chHHHHHHH
Q 041741          432 KTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPEL-DIVCW--------NSMIAGL-S----LNSL---DIEAFMFFK  494 (748)
Q Consensus       432 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~--------~~li~~~-~----~~~~---~~~a~~~~~  494 (748)
                      +..+. +...+..+..+..+.|-...|.++..+-+.. +...+        ..++..- .    ...+   .+.|+.-++
T Consensus       197 ~~~P~-n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~  275 (822)
T PRK14574        197 RLAPT-SEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQ  275 (822)
T ss_pred             HhCCC-CHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHH
Confidence            87644 5666777778888888888888888775531 11111        1111100 0    1111   134455555


Q ss_pred             HHHHC-CCCCCH-HHH----HHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC
Q 041741          495 QMRQN-EMYPTQ-FSF----ATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG  568 (748)
Q Consensus       495 ~m~~~-~~~p~~-~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  568 (748)
                      .+... +..|.. .-|    .--+-++...++...++..++.+...+.+....+...+..+|...+++++|..+++.+..
T Consensus       276 ~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~  355 (822)
T PRK14574        276 NLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYY  355 (822)
T ss_pred             HHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhh
Confidence            54441 111221 111    123345556666666666666666666555555666666666666667777666666532


Q ss_pred             C---------CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCC-----------CCCH--H-HHHHHHHHhcCCCChHHH
Q 041741          569 K---------NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGV-----------KPDD--I-TFVAILTACSHSGLVDVG  625 (748)
Q Consensus       569 ~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-----------~p~~--~-~~~~l~~~~~~~~~~~~A  625 (748)
                      +         +......|.-++...+++++|..+++++.+.-.           .||.  . .+..++..+...|++.+|
T Consensus       356 ~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~A  435 (822)
T PRK14574        356 SDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTA  435 (822)
T ss_pred             ccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHH
Confidence            1         122234556666666666666666666665210           1111  1 223344445566666666


Q ss_pred             HHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 041741          626 VEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRL  703 (748)
Q Consensus       626 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  703 (748)
                      ++.++++...  .+-|......+++++...|.+.+|...++... ..| +..+....+..+...+++.+|....+.+++.
T Consensus       436 e~~le~l~~~--aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~  513 (822)
T PRK14574        436 QKKLEDLSST--APANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISR  513 (822)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh
Confidence            6666666321  22334555566666666666666666665543 233 3344444555555666666666666666666


Q ss_pred             CCCCCc
Q 041741          704 DPKNSA  709 (748)
Q Consensus       704 ~p~~~~  709 (748)
                      .|+++.
T Consensus       514 ~Pe~~~  519 (822)
T PRK14574        514 SPEDIP  519 (822)
T ss_pred             CCCchh
Confidence            665553

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.78  E-value=2.3e-14  Score=144.86  Aligned_cols=679  Identities=12%  Similarity=0.033  Sum_probs=380.4

Q ss_pred             hHHHHHHHHhCCCCCcchhhHHHHHHHccCCchhhhhhhhcCCCC----chhhhhHHHHHhhcCCChhHHHHhhccCCCC
Q 041741            8 KLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHK----DIYSWNAILSAQCKSDDLEFAYKLFDEMPER   83 (748)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   83 (748)
                      ..+|+.+...|..|+..+|.+||--|+..|+.+.|- +|.-|.-.    +...++.++..-.+.++.+.+.       +|
T Consensus        10 tnfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep   81 (1088)
T KOG4318|consen   10 TNFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EP   81 (1088)
T ss_pred             chHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CC
Confidence            368999999999999999999999999999999999 88777642    3456777777777777755544       68


Q ss_pred             CchhHHHHHHHHHhcCChhHHHHHHHH-HHh-------CCCCCCcchHHHHHHHhccccCcHHH---------hHHHHHH
Q 041741           84 NVVSWNNLISALVRNGLEEKALSVYNK-MSN-------EGFVPTHITLASVFKASTALLDVEHG---------RRCHGLV  146 (748)
Q Consensus        84 ~~~~~~~l~~~~~~~~~~~~a~~~~~~-m~~-------~~~~p~~~~~~~ll~~~~~~~~~~~a---------~~~~~~~  146 (748)
                      .+.+|..|..+|.++||... ++..++ |..       .|+..-..-+...++++  .+-...+         +.+++..
T Consensus        82 ~aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~--p~~lpda~n~illlv~eglwaql  158 (1088)
T KOG4318|consen   82 LADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCC--PHSLPDAENAILLLVLEGLWAQL  158 (1088)
T ss_pred             chhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccC--cccchhHHHHHHHHHHHHHHHHH
Confidence            88999999999999999876 333333 322       22221111121122222  1111111         2233334


Q ss_pred             HHHCC-CCcHhHHHH---HHHHHHhc-CChhhHHHHHhcCCC-CCeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCC
Q 041741          147 IKIGL-DKNIYVANA---LLSLYAKC-GWTKHAVPVFEEMSE-PNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSID  220 (748)
Q Consensus       147 ~~~~~-~~~~~~~~~---li~~~~~~-g~~~~a~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~  220 (748)
                      .+.+. .|...-++.   .++-.... ..+++-........+ ++..+|..++..-...|+.+.|..++..|++.|++.+
T Consensus       159 lkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir  238 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIR  238 (1088)
T ss_pred             HHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcc
Confidence            44331 111111111   12222111 122233333333333 8999999999999999999999999999999999999


Q ss_pred             cccHHHHHHHHhccCCCCCcchhcccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHHHHHhccCCC
Q 041741          221 SVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPE  300 (748)
Q Consensus       221 ~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  300 (748)
                      .+-|-.++-+   .             +....   .+.+...|...|+.|+..|+...+-.+..+|....+..    .. 
T Consensus       239 ~HyFwpLl~g---~-------------~~~q~---~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e----~s-  294 (1088)
T KOG4318|consen  239 AHYFWPLLLG---I-------------NAAQV---FEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEE----GS-  294 (1088)
T ss_pred             cccchhhhhc---C-------------ccchH---HHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhccc----cc-
Confidence            9988888876   2             33333   77888889999999999999877777666554222211    11 


Q ss_pred             CCcccHHHHHHHHHhcC-----Ch-----hHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCC----
Q 041741          301 RSVVSWNVMIAGYGQKY-----QS-----TKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPS----  366 (748)
Q Consensus       301 ~~~~~~~~l~~~~~~~~-----~~-----~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----  366 (748)
                      ++...+++-..+-+..|     +.     .-....+.+..-.|.......|...+. ....|.-+...++-..+..    
T Consensus       295 q~~hg~tAavrsaa~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~-l~hQgk~e~veqlvg~l~npt~r  373 (1088)
T KOG4318|consen  295 QLAHGFTAAVRSAACRGLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEK-LRHQGKGEEVEQLVGQLLNPTLR  373 (1088)
T ss_pred             chhhhhhHHHHHHHhcccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHH-HHHcCCCchHHHHHhhhcCCccc
Confidence            22222223232222233     11     112222333233344444433333333 3336666666666655543    


Q ss_pred             ---CCcchHHHHHHHHHccCC----------------------HHHHHHHHHHHHHcCCCCCHh----------------
Q 041741          367 ---PSVSSWNAMLSSYSQSEN----------------------HKEAIKLFREMQFRGVKPDRT----------------  405 (748)
Q Consensus       367 ---~~~~~~~~ll~~~~~~~~----------------------~~~a~~~~~~m~~~g~~p~~~----------------  405 (748)
                         .++..|..++.-|.+.-.                      ..+..+++...     .|+..                
T Consensus       374 ~s~~~V~a~~~~lrqyFrr~e~~~~~~i~~~~qgls~~l~se~tp~vsell~~l-----rkns~lr~lv~Lss~Eler~h  448 (1088)
T KOG4318|consen  374 DSGQNVDAFGALLRQYFRRIERHICSRIYYAGQGLSLNLNSEDTPRVSELLENL-----RKNSFLRQLVGLSSTELERSH  448 (1088)
T ss_pred             cCcchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhhchhhhHHHHHHHHHh-----CcchHHHHHhhhhHHHHhccc
Confidence               234445554444433211                      11111111111     12111                


Q ss_pred             ------------hHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCc---
Q 041741          406 ------------TLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDI---  470 (748)
Q Consensus       406 ------------~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---  470 (748)
                                  .-..++..|++.-+..++....+.....-   -...|..+++.+...+..+.|..+..++..++.   
T Consensus       449 e~~~~~~h~irdi~~ql~l~l~se~n~lK~l~~~ekye~~l---f~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~  525 (1088)
T KOG4318|consen  449 EPWPLIAHLIRDIANQLHLTLNSEYNKLKILCDEEKYEDLL---FAGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIH  525 (1088)
T ss_pred             ccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hhhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhh
Confidence                        11122223333333333332222221111   124567788888888888888888888876543   


Q ss_pred             ---chHHHHHHHHHhCCCchHHHHHHHHHHHCC-CCC-CHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHH
Q 041741          471 ---VCWNSMIAGLSLNSLDIEAFMFFKQMRQNE-MYP-TQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSA  545 (748)
Q Consensus       471 ---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  545 (748)
                         .-+..+.+.+.+.+....+..++.++.+.- ..| ...++-.+++.....|+.+...++++.+...|+..+    ..
T Consensus       526 Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~et----gP  601 (1088)
T KOG4318|consen  526 LDLPLMTSLQDLLQRLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSET----GP  601 (1088)
T ss_pred             cccHhHHHHHHHHHHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhhc----cc
Confidence               457778888888888899999998887732 122 244566777888888999999999888888876653    34


Q ss_pred             HHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHH--cCChhHHHHHHHHH---HHcCC---------CCCHHH
Q 041741          546 LIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQ--NGYGDEAVRLYKDM---IASGV---------KPDDIT  608 (748)
Q Consensus       546 l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~--~~~~~~a~~~~~~m---~~~~~---------~p~~~~  608 (748)
                      ++....+.++...|.+.++...+   +.+.....+.+.+.+  ..+++.+..+-...   .+.|-         .|...+
T Consensus       602 l~~vhLrkdd~s~a~ea~e~~~qkyk~~P~~~e~lcrlv~ke~td~~qk~mDls~~iq~f~k~g~~~~a~di~etpG~r~  681 (1088)
T KOG4318|consen  602 LWMVHLRKDDQSAAQEAPEPEEQKYKPYPKDLEGLCRLVYKETTDSPQKTMDLSIPIQKFEKLGSCVDAGDITETPGVRC  681 (1088)
T ss_pred             ceEEEeeccchhhhhhcchHHHHHhcCChHHHHHHHHHHHhhccccHHHHHhhcchhHHHHhcccccchhhccccCcccc
Confidence            55556677888888877765542   333222222222211  11122221111100   00000         000000


Q ss_pred             HHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcC
Q 041741          609 FVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHA  688 (748)
Q Consensus       609 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~  688 (748)
                      -+.- .-|...|...--....+.+ ..      ......+...|.+.|+++.|..++.++...|.+.....++..+...+
T Consensus       682 r~~R-Dr~~de~e~~~lEll~elt-~~------lg~~dRLL~sy~~~g~~erA~glwnK~QV~k~~~~l~~LAsIlr~~n  753 (1088)
T KOG4318|consen  682 RNGR-DRDTDEGEIVPLELLLELT-HE------LGKNDRLLQSYLEEGRIERASGLWNKDQVSKSPMKLFHLASILRRMN  753 (1088)
T ss_pred             cCCC-ccccccCccccHHHHHHHH-hH------hHHHHHHHHHHHhhhHHHHHHhHHhhCcCCcchHHHHHHHHHHHhhc
Confidence            0000 1112222222222222222 11      11123467788888888888888888887788888777777776544


Q ss_pred             ---CHHHHHHHHHHHHhcCCCCCcc---hHHHhHHHhhcCChHHHHHHHHHHHhcCCCCC
Q 041741          689 ---NVRLAKRAAEELFRLDPKNSAP---YSLLANIYSSLGRWDDLRAVRELMSENCIVKD  742 (748)
Q Consensus       689 ---~~~~a~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  742 (748)
                         |+-++....+++-+..|..+.+   +.--+.+..+....+-|.+.+++..++.+...
T Consensus       754 ~evdvPe~q~e~ekas~~~~~f~ttt~~~~~~a~~a~q~~qkkaAkk~f~r~eeq~~v~t  813 (1088)
T KOG4318|consen  754 EEVDVPEIQAETEKASELRTLFPTTTCYYEGYAFFATQTEQKKAAKKCFERLEEQLTVST  813 (1088)
T ss_pred             hhccchhHHHHHHHHHhcccccccchHhhhhhHHHHhhHHHHHHHHHHHHHHHHccCCCc
Confidence               5666777777777776654432   33333444444555577778888777655443

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

Probab=99.78  E-value=5.3e-14  Score=143.18  Aligned_cols=199  Identities=9%  Similarity=0.026  Sum_probs=150.3

Q ss_pred             CcchhhHHHHHHHccCCchhhhhhhhcCCC---CchhhhhHHHHHhhcCCChhHHHHhhccC---CCCCchhHHHHHHHH
Q 041741           22 DTFLCNRLIELYSKCNNTHSAQHLFDKMPH---KDIYSWNAILSAQCKSDDLEFAYKLFDEM---PERNVVSWNNLISAL   95 (748)
Q Consensus        22 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~l~~~~   95 (748)
                      +++-.-..+......|+.++|.+++.+++.   .+...|..|...|-++|+.+++...+--.   ...|...|-.+....
T Consensus       138 ~l~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls  217 (895)
T KOG2076|consen  138 ELRQLLGEANNLFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLS  217 (895)
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHH
Confidence            344444555556666999999999999876   34568999999999999999988766433   235667888888989


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHH----HHHHHhcCCh
Q 041741           96 VRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANAL----LSLYAKCGWT  171 (748)
Q Consensus        96 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l----i~~~~~~g~~  171 (748)
                      .+.|++.+|.-+|.+.++.. +++...+---...|-+.|+...|...+..+.....+.|..-...+    ++.+...++-
T Consensus       218 ~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~  296 (895)
T KOG2076|consen  218 EQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNER  296 (895)
T ss_pred             HhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHH
Confidence            99999999999999998863 455555555667788899999999999999988765555444444    4445566777


Q ss_pred             hhHHHHHhcCCC-----CCeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCc
Q 041741          172 KHAVPVFEEMSE-----PNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDS  221 (748)
Q Consensus       172 ~~a~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~  221 (748)
                      +.|.+.++....     -+...+++++..+.+...++.|......+......+|.
T Consensus       297 e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~  351 (895)
T KOG2076|consen  297 ERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDD  351 (895)
T ss_pred             HHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCCh
Confidence            888888776543     45567888899999999999999998888874444444

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.77  E-value=1.8e-14  Score=133.48  Aligned_cols=209  Identities=20%  Similarity=0.232  Sum_probs=148.9

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccC--cHHH-hHHHHHHHHHCCCCcHhHHHHHH
Q 041741           86 VSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLD--VEHG-RRCHGLVIKIGLDKNIYVANALL  162 (748)
Q Consensus        86 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~--~~~a-~~~~~~~~~~~~~~~~~~~~~li  162 (748)
                      ++-|.|+. +...|....+--+|+.|...|+..+...-..+++..+-.+.  ..-+ .+.|-.|.+.|-.. ..+|    
T Consensus       117 ~~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S-~~sW----  190 (625)
T KOG4422|consen  117 ETENNLLK-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDS-TSSW----  190 (625)
T ss_pred             cchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccc-cccc----
Confidence            45566665 34567888888899999999988888777777665543332  2211 22333444444222 2222    


Q ss_pred             HHHHhcCChhhHHHHHhcCCCCCeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhccCCCCCcch
Q 041741          163 SLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDV  242 (748)
Q Consensus       163 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~~~~~  242 (748)
                          +.|...+   ++-+....+..+|.++|.++|+--..++|.++|++-.....+.+..+|+.+|.+.+-.-       
T Consensus       191 ----K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~-------  256 (625)
T KOG4422|consen  191 ----KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV-------  256 (625)
T ss_pred             ----ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc-------
Confidence                2333333   44444455778999999999999999999999999999999999999999998866542       


Q ss_pred             hcccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHHHHHhccCCCCCcccHHHHHHHHHhcCChhHH
Q 041741          243 FAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKA  322 (748)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  322 (748)
                                   .+++...|....+.||..++|+++....+.|+++.|.+.                           |
T Consensus       257 -------------~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~a---------------------------a  296 (625)
T KOG4422|consen  257 -------------GKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKA---------------------------A  296 (625)
T ss_pred             -------------cHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHH---------------------------H
Confidence                         688999999999999999999999999999999887765                           4


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH
Q 041741          323 IELLQRMKSCGFEPDEVTSINMLVACVRSGDI  354 (748)
Q Consensus       323 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  354 (748)
                      .+++.+|++-|+.|.-.+|..+|..+++.++.
T Consensus       297 lqil~EmKeiGVePsLsSyh~iik~f~re~dp  328 (625)
T KOG4422|consen  297 LQILGEMKEIGVEPSLSSYHLIIKNFKRESDP  328 (625)
T ss_pred             HHHHHHHHHhCCCcchhhHHHHHHHhcccCCc
Confidence            55556666666666666666666655555554

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.76  E-value=8.7e-14  Score=149.62  Aligned_cols=430  Identities=10%  Similarity=0.063  Sum_probs=308.1

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhccCCCCCcchhcccccccccccchhHHHHHHHHhcCCCch
Q 041741          193 MSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADL  272 (748)
Q Consensus       193 i~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  272 (748)
                      +....+.|+++.|++.|++..+.                                                     .|+.
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~~-----------------------------------------------------~P~~   67 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESKA-----------------------------------------------------GPLQ   67 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhh-----------------------------------------------------Cccc
Confidence            34457899999999999998764                                                     2222


Q ss_pred             --HHHHHHHHHHHhcCChhHHHHHhccCCCCCccc-HHHH--HHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 041741          273 --HLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVS-WNVM--IAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVA  347 (748)
Q Consensus       273 --~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~l--~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  347 (748)
                        .++ .++..+...|+.++|+..++....|+... +..+  ...+...|++++|+++|+++.+.... +...+..++..
T Consensus        68 ~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~-n~~~l~gLa~~  145 (822)
T PRK14574         68 SGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKDPT-NPDLISGMIMT  145 (822)
T ss_pred             hhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHH
Confidence              223 67777888899999999999988765443 4444  45778889999999999999987533 35566677788


Q ss_pred             HHhcCCHHHHHHHhccCCC--CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHH
Q 041741          348 CVRSGDIKTGREMFDSMPS--PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQ  425 (748)
Q Consensus       348 ~~~~~~~~~a~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~  425 (748)
                      +...++.++|++.++.+.+  |+...+..++..+...++..+|++.++++.+.. +-+...+..+..++.+.|-...|.+
T Consensus       146 y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~  224 (822)
T PRK14574        146 QADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALR  224 (822)
T ss_pred             HhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHH
Confidence            8999999999999999987  444444333344444566666999999999872 3356667888888899998888887


Q ss_pred             HHHHHHhhcCCchhH-----HHHHHHHHH---H--hcCC---hHHHHHHHhhCCC---CCcc---hH----HHHHHHHHh
Q 041741          426 VHAASLKTASHIDNY-----VASGLIGIY---S--KCQR---NELAERVFHRIPE---LDIV---CW----NSMIAGLSL  482 (748)
Q Consensus       426 ~~~~~~~~~~~~~~~-----~~~~l~~~~---~--~~~~---~~~a~~~~~~~~~---~~~~---~~----~~li~~~~~  482 (748)
                      +...-...-...+..     .....++.-   .  ...+   .+.|+.-++.+..   .++.   .|    --.+-++..
T Consensus       225 l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~  304 (822)
T PRK14574        225 LAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLV  304 (822)
T ss_pred             HHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHH
Confidence            765422111111100     001111100   0  1111   2334444444332   2221   11    234557788


Q ss_pred             CCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhC-----CCCchHHHHHHHHHHHhcCCHH
Q 041741          483 NSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDG-----YVNDIFVGSALIEMYCKCGDIY  557 (748)
Q Consensus       483 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~  557 (748)
                      .++..++++.|+.+...+.+....+-..+..+|...+.+++|..++..+....     .+++......|..+|...++++
T Consensus       305 r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~  384 (822)
T PRK14574        305 RHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLD  384 (822)
T ss_pred             hhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHH
Confidence            99999999999999999877666688899999999999999999999997753     2334444678999999999999


Q ss_pred             HHHHHhhhcCC--C---------------CH-HHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC
Q 041741          558 GARQFFDMMHG--K---------------NT-VTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHS  619 (748)
Q Consensus       558 ~A~~~~~~~~~--~---------------~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  619 (748)
                      +|..+++.+.+  |               |- ..+..++..+...|+..+|.+.++++.... +-|......+...+...
T Consensus       385 ~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~R  463 (822)
T PRK14574        385 KAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLAR  463 (822)
T ss_pred             HHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            99999998864  2               11 134456778899999999999999998863 66777888999999999


Q ss_pred             CChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCHhHHHHHHH
Q 041741          620 GLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDPVIWEVLLS  682 (748)
Q Consensus       620 ~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~  682 (748)
                      |.+..|...++...   ...|+ .......+.++...|++.+|..+.+.+. ..|+......+-.
T Consensus       464 g~p~~A~~~~k~a~---~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~~~l~r  525 (822)
T PRK14574        464 DLPRKAEQELKAVE---SLAPRSLILERAQAETAMALQEWHQMELLTDDVISRSPEDIPSQELDR  525 (822)
T ss_pred             CCHHHHHHHHHHHh---hhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCchhHHHHHH
Confidence            99999999997764   44565 5566688889999999999999998875 4454444333333

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.74  E-value=4.2e-14  Score=131.17  Aligned_cols=443  Identities=13%  Similarity=0.085  Sum_probs=294.4

Q ss_pred             eehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhccCCCCCcchhcccccccccccchhHHHHHHHH
Q 041741          186 EVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIK  265 (748)
Q Consensus       186 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (748)
                      +.+-|.|+. +...|.+..+.-+|+.|.+.|+..+...-..++...+-.+.....  +.           ..+-+-.+.+
T Consensus       116 V~~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~--~~-----------E~~~Fv~~~~  181 (625)
T KOG4422|consen  116 VETENNLLK-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVP--FA-----------EWEEFVGMRN  181 (625)
T ss_pred             hcchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCc--ch-----------hHHHHhhccc
Confidence            445566555 356788999999999999999988888777777665444221111  00           1111111112


Q ss_pred             hcCCCchHHHHHHHHHHHhcCChhHHHHHhccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHH
Q 041741          266 LGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINML  345 (748)
Q Consensus       266 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  345 (748)
                      .|-. +..+|        +.|..  |. ++-+...++..+|..||.++++--..+.|.+++++......+.+..+|+.+|
T Consensus       182 ~~E~-S~~sW--------K~G~v--Ad-L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI  249 (625)
T KOG4422|consen  182 FGED-STSSW--------KSGAV--AD-LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLI  249 (625)
T ss_pred             cccc-ccccc--------ccccH--HH-HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhh
Confidence            2211 11111        22322  22 5555566777899999999999999999999999999998999999999999


Q ss_pred             HHHHhcCCHHHHHHHhccCCCCCcchHHHHHHHHHccCCHHH----HHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChH
Q 041741          346 VACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKE----AIKLFREMQFRGVKPDRTTLAIILSSCAAMGILE  421 (748)
Q Consensus       346 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~----a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  421 (748)
                      .+-.-..+-+-.-++...-..||..+||+++.+..+.|+++.    |++++.+|++-|+.|...+|..++..+.+.++..
T Consensus       250 ~~~S~~~~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~  329 (625)
T KOG4422|consen  250 GASSYSVGKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQ  329 (625)
T ss_pred             hHHHhhccHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCch
Confidence            976665554444444444446999999999999999998765    5678899999999999999999999999888876


Q ss_pred             HHH-HHHHHHH----hhcCC----chhHHHHHHHHHHHhcCChHHHHHHHhhCCCC--------C---cchHHHHHHHHH
Q 041741          422 SGK-QVHAASL----KTASH----IDNYVASGLIGIYSKCQRNELAERVFHRIPEL--------D---IVCWNSMIAGLS  481 (748)
Q Consensus       422 ~a~-~~~~~~~----~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~---~~~~~~li~~~~  481 (748)
                      +.. .++..+.    ...+.    .+...+...+..|....+.+.|.++..-....        +   ..-|..+....+
T Consensus       330 k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~lic  409 (625)
T KOG4422|consen  330 KVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLIC  409 (625)
T ss_pred             hhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHH
Confidence            543 3333332    22222    25567777888888999988888876554421        1   123556777778


Q ss_pred             hCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHH
Q 041741          482 LNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQ  561 (748)
Q Consensus       482 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  561 (748)
                      .....+..+..|+.|.-.-.-|+..+...++++....+.++-..+++..+...|......+...+...+++..       
T Consensus       410 q~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k-------  482 (625)
T KOG4422|consen  410 QMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDK-------  482 (625)
T ss_pred             HHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCC-------
Confidence            8888899999999999888889999999999999999999999999999888775444333333333333221       


Q ss_pred             HhhhcCCCCHHH---HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCC
Q 041741          562 FFDMMHGKNTVT---WNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGV  638 (748)
Q Consensus       562 ~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  638 (748)
                           ..|+...   +.....-++. .-.+.....-.+|.+..++|.  ..+.++-.+.+.|..++|.+++..+.+...-
T Consensus       483 -----~hp~tp~r~Ql~~~~ak~aa-d~~e~~e~~~~R~r~~~~~~t--~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~  554 (625)
T KOG4422|consen  483 -----LHPLTPEREQLQVAFAKCAA-DIKEAYESQPIRQRAQDWPAT--SLNCIAILLLRAGRTQKAWEMLGLFLRKHNK  554 (625)
T ss_pred             -----CCCCChHHHHHHHHHHHHHH-HHHHHHHhhHHHHHhccCChh--HHHHHHHHHHHcchHHHHHHHHHHHHhcCCc
Confidence                 0122111   1111111110 111222233345555544444  4555556677889999999998887444333


Q ss_pred             CCChhH---HHHHHHHHHhcCChHHHHHHHhhCC
Q 041741          639 EPILDH---YTCMIDCLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       639 ~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~  669 (748)
                      .|....   ...+++.-.+.++...|...++-+.
T Consensus       555 ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~  588 (625)
T KOG4422|consen  555 IPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLAS  588 (625)
T ss_pred             CCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            344333   4456666677888888988888774

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

Probab=99.72  E-value=9.9e-13  Score=134.11  Aligned_cols=366  Identities=11%  Similarity=-0.026  Sum_probs=212.6

Q ss_pred             CcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHH
Q 041741          368 SVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIG  447 (748)
Q Consensus       368 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  447 (748)
                      +...|.-+..++...|.+.+|+.++..+......-+...|..+.+++...|..+.|.+.++.++...+. +..+.-.|..
T Consensus       413 ~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~-~~D~Ri~Las  491 (895)
T KOG2076|consen  413 DVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPD-NLDARITLAS  491 (895)
T ss_pred             hHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-chhhhhhHHH
Confidence            344566677777777888888888777776644444556677777777777788888777777765543 3344456677


Q ss_pred             HHHhcCChHHHHHHHhhCCCCCcc------------hHHHHHHHHHhCCCchHHHHHHHHHHHCC---------------
Q 041741          448 IYSKCQRNELAERVFHRIPELDIV------------CWNSMIAGLSLNSLDIEAFMFFKQMRQNE---------------  500 (748)
Q Consensus       448 ~~~~~~~~~~a~~~~~~~~~~~~~------------~~~~li~~~~~~~~~~~a~~~~~~m~~~~---------------  500 (748)
                      .+.+.|+.++|.++++.+..+|..            ........+.+.|+.++-+..-..|....               
T Consensus       492 l~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~  571 (895)
T KOG2076|consen  492 LYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTASTLVDDFLKKRYIFPRNKKKRR  571 (895)
T ss_pred             HHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHH
Confidence            777888888888888877655522            11223345566666665444444333211               


Q ss_pred             -------CCCCHHHHHHHHHhhcCCCCchhHHHHHHH------HHHhCCCCch--HHHHHHHHHHHhcCCHHHHHHHhhh
Q 041741          501 -------MYPTQFSFATVLSSCAKLSSSFQGRQVHAQ------IEKDGYVNDI--FVGSALIEMYCKCGDIYGARQFFDM  565 (748)
Q Consensus       501 -------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~------~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~  565 (748)
                             .+-...+...++.+-.+.++..........      -...+...+.  ..+.-++..+++.+++++|..+...
T Consensus       572 ~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~  651 (895)
T KOG2076|consen  572 RAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDWFELFRELILSLAKLQRVQEALSVVFT  651 (895)
T ss_pred             HhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence                   111222333333343333332222221111      1112222221  3455677788899999999999887


Q ss_pred             cCCC-----CH----HHHHHHHHHHHHcCChhHHHHHHHHHHHc-CC--CCCH-HHHHHHHHHhcCCCChHHHHHHHHHh
Q 041741          566 MHGK-----NT----VTWNEMIHGYAQNGYGDEAVRLYKDMIAS-GV--KPDD-ITFVAILTACSHSGLVDVGVEIFNSM  632 (748)
Q Consensus       566 ~~~~-----~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~--~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~  632 (748)
                      +..-     +.    ..-...+.+.+..+++..|...++.|... +.  .|.. ..|+..++...+.++-.--..++..+
T Consensus       652 a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~q~~l~n~~~s~~~~~~q~v~~~R~~~~~  731 (895)
T KOG2076|consen  652 ALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVYQLNLWNLDFSYFSKYGQRVCYLRLIMRL  731 (895)
T ss_pred             HHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7642     22    22345567778889999999999998875 11  2222 23444444444444332222332222


Q ss_pred             hhhhCCCCC--hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCHhHHHHH-HHHHH----------hcCCHHHHHHHHH
Q 041741          633 QLDHGVEPI--LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDPVIWEVL-LSSCR----------LHANVRLAKRAAE  698 (748)
Q Consensus       633 ~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l-~~~~~----------~~~~~~~a~~~~~  698 (748)
                      .   -..|+  .......+..+...+.+.-|+..+-+.- ..|+....+.. +.++.          ++-..-++...++
T Consensus       732 ~---~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~pd~Pl~nl~lglafih~a~qr~v~~Rh~~i~qG~afL~  808 (895)
T KOG2076|consen  732 L---VKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQNPDSPLINLCLGLAFIHLALQRRVSNRHAQIAQGFAFLK  808 (895)
T ss_pred             h---ccCccCCcceeeeechhHhhccchHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            1   11222  2223334555667888888888765553 45553332222 22221          1223556677777


Q ss_pred             HHHhcCCC--CCcchHHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          699 ELFRLDPK--NSAPYSLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       699 ~~~~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      +..++.-.  .-.+.+.+|++|...|-..-|..+|++..+-
T Consensus       809 RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~  849 (895)
T KOG2076|consen  809 RYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEV  849 (895)
T ss_pred             HHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCC
Confidence            77666543  4468999999999999999999999987653

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

Probab=99.72  E-value=7.3e-14  Score=130.40  Aligned_cols=422  Identities=13%  Similarity=0.059  Sum_probs=276.1

Q ss_pred             HHhcCChhHHHHHhccCCC--CC------cccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 041741          282 YAKNGDMDSAEVIFSNLPE--RS------VVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGD  353 (748)
Q Consensus       282 ~~~~~~~~~a~~~~~~~~~--~~------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  353 (748)
                      +.+...+..|.+++.....  |+      +...+.+...+.+.|.++.|+..|+...+.  .|+..+-..++-++..-|+
T Consensus       247 ~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d  324 (840)
T KOG2003|consen  247 HFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGD  324 (840)
T ss_pred             eeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCc
Confidence            4455556666666555433  11      123444445567788888888888887764  5777776677777777788


Q ss_pred             HHHHHHHhccCCC----CC--------cchHHHHHHHHHccC-----------CHHHHHHHHHHHHHcCCCCCHhh-HHH
Q 041741          354 IKTGREMFDSMPS----PS--------VSSWNAMLSSYSQSE-----------NHKEAIKLFREMQFRGVKPDRTT-LAI  409 (748)
Q Consensus       354 ~~~a~~~~~~~~~----~~--------~~~~~~ll~~~~~~~-----------~~~~a~~~~~~m~~~g~~p~~~~-~~~  409 (748)
                      .++..+.|.+|..    ++        ...-..|+.-..+..           +.++++-.--++..--+.|+-.. +..
T Consensus       325 ~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dw  404 (840)
T KOG2003|consen  325 AEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDW  404 (840)
T ss_pred             HHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHH
Confidence            8888888777653    11        111122222222111           11222222222222223333211 111


Q ss_pred             HHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHH----HHH-HHHh-C
Q 041741          410 ILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNS----MIA-GLSL-N  483 (748)
Q Consensus       410 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----li~-~~~~-~  483 (748)
                      .+...-.+...+.|               ..+--.-...|.+.|+++.|.++++-..+.|..+-.+    |-. -|.+ .
T Consensus       405 cle~lk~s~~~~la---------------~dlei~ka~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqgg  469 (840)
T KOG2003|consen  405 CLESLKASQHAELA---------------IDLEINKAGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGG  469 (840)
T ss_pred             HHHHHHHhhhhhhh---------------hhhhhhHHHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcc
Confidence            11111111000100               0111112235778999999999988887665543322    211 1222 3


Q ss_pred             CCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHh
Q 041741          484 SLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFF  563 (748)
Q Consensus       484 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  563 (748)
                      .++..|.+.-+...... .-+....+.-.+.....|++++|.+.+.+.....-.-....| .+.-.+.+.|++++|++.|
T Consensus       470 k~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealf-niglt~e~~~~ldeald~f  547 (840)
T KOG2003|consen  470 KDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEALF-NIGLTAEALGNLDEALDCF  547 (840)
T ss_pred             cchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHH-HhcccHHHhcCHHHHHHHH
Confidence            45566666666554321 223333333334456679999999999998876533333333 3455677889999999999


Q ss_pred             hhcC---CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC
Q 041741          564 DMMH---GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP  640 (748)
Q Consensus       564 ~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  640 (748)
                      -++.   ..+......+...|-...+...|++++.+.... ++.|+..+..|...|-+.|+-..|+..+-.-  -.-++-
T Consensus       548 ~klh~il~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~yds--yryfp~  624 (840)
T KOG2003|consen  548 LKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDS--YRYFPC  624 (840)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhc--ccccCc
Confidence            8765   478888888999999999999999999988875 5667788999999999999999999876543  124566


Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCHhHHHHHHHH-HHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHH
Q 041741          641 ILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDPVIWEVLLSS-CRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIY  718 (748)
Q Consensus       641 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  718 (748)
                      +..+...|+..|....-+++|+.+|++.. ..|+..-|..++.+ +++.|++.+|...|+...+.-|+|...+..|.+++
T Consensus       625 nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~  704 (840)
T KOG2003|consen  625 NIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIA  704 (840)
T ss_pred             chHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHh
Confidence            78899999999999999999999999886 88999999888776 57899999999999999999999999999999999


Q ss_pred             hhcCChH
Q 041741          719 SSLGRWD  725 (748)
Q Consensus       719 ~~~g~~~  725 (748)
                      -..|..+
T Consensus       705 ~dlgl~d  711 (840)
T KOG2003|consen  705 GDLGLKD  711 (840)
T ss_pred             ccccchh
Confidence            8888643

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

Probab=99.72  E-value=1.9e-11  Score=119.93  Aligned_cols=596  Identities=13%  Similarity=0.074  Sum_probs=363.7

Q ss_pred             cCCchhhhhhhhcCCC---CchhhhhHHHHHhhcCCChhHHHHhhccCCC---CCchhHHHHHHHHHhcCChhHHHHHHH
Q 041741           36 CNNTHSAQHLFDKMPH---KDIYSWNAILSAQCKSDDLEFAYKLFDEMPE---RNVVSWNNLISALVRNGLEEKALSVYN  109 (748)
Q Consensus        36 ~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~  109 (748)
                      .++..+|+.++....+   .+...|.+-.+.--..|++..|..+..+-=+   .+...|..-+    +....+.|..+.-
T Consensus       264 l~DikKaR~llKSvretnP~hp~gWIAsArLEEvagKl~~Ar~~I~~GCe~cprSeDvWLeai----RLhp~d~aK~vvA  339 (913)
T KOG0495|consen  264 LEDIKKARLLLKSVRETNPKHPPGWIASARLEEVAGKLSVARNLIMKGCEECPRSEDVWLEAI----RLHPPDVAKTVVA  339 (913)
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCchHHHHHHHHHHhhHHHHHHHHHHHHHhhCCchHHHHHHHH----hcCChHHHHHHHH
Confidence            4567788888888876   4556788877777788899999888765433   3444554433    3445666777776


Q ss_pred             HHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCCCCeehH
Q 041741          110 KMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTF  189 (748)
Q Consensus       110 ~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  189 (748)
                      ...+.  -|+.  -..-+.+.--..+...=.+++....+. ++.++..|...    ......++|+-++.+..+--+.+.
T Consensus       340 ~Avr~--~P~S--v~lW~kA~dLE~~~~~K~RVlRKALe~-iP~sv~LWKaA----VelE~~~darilL~rAveccp~s~  410 (913)
T KOG0495|consen  340 NAVRF--LPTS--VRLWLKAADLESDTKNKKRVLRKALEH-IPRSVRLWKAA----VELEEPEDARILLERAVECCPQSM  410 (913)
T ss_pred             HHHHh--CCCC--hhhhhhHHhhhhHHHHHHHHHHHHHHh-CCchHHHHHHH----HhccChHHHHHHHHHHHHhccchH
Confidence            66653  2332  222333333334444445555555554 24444444443    344555667777776655211111


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhccCCCCCcchhcccccccccccchhHHHHHHHHhcCC
Q 041741          190 TAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFE  269 (748)
Q Consensus       190 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  269 (748)
                       -|..+|++...++.|..+++..++. ++.+.                                                
T Consensus       411 -dLwlAlarLetYenAkkvLNkaRe~-iptd~------------------------------------------------  440 (913)
T KOG0495|consen  411 -DLWLALARLETYENAKKVLNKAREI-IPTDR------------------------------------------------  440 (913)
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHHHhh-CCCCh------------------------------------------------
Confidence             1233455566677777777776653 22222                                                


Q ss_pred             CchHHHHHHHHHHHhcCChhHHHHHhccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 041741          270 ADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACV  349 (748)
Q Consensus       270 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  349 (748)
                         .++......--..|+.+...++.+.-                           +..+...|+..+...|..=...|-
T Consensus       441 ---~IWitaa~LEE~ngn~~mv~kii~rg---------------------------l~~L~~ngv~i~rdqWl~eAe~~e  490 (913)
T KOG0495|consen  441 ---EIWITAAKLEEANGNVDMVEKIIDRG---------------------------LSELQANGVEINRDQWLKEAEACE  490 (913)
T ss_pred             ---hHHHHHHHHHHhcCCHHHHHHHHHHH---------------------------HHHHhhcceeecHHHHHHHHHHHh
Confidence               22222222222333433333333221                           111222333333333333333333


Q ss_pred             hcCCHHHHHHHhccCC------CCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHH
Q 041741          350 RSGDIKTGREMFDSMP------SPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESG  423 (748)
Q Consensus       350 ~~~~~~~a~~~~~~~~------~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a  423 (748)
                      ..|..-.+..+.....      +.--.+|..-...|.+.+.++-|..+|....+. .+-+...+......=-..|..+..
T Consensus       491 ~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl  569 (913)
T KOG0495|consen  491 DAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESL  569 (913)
T ss_pred             hcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHH
Confidence            3333333322222221      123345666666777777777777777766653 222333444444444455667777


Q ss_pred             HHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCC---cchHHHHHHHHHhCCCchHHHHHHHHHHHCC
Q 041741          424 KQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELD---IVCWNSMIAGLSLNSLDIEAFMFFKQMRQNE  500 (748)
Q Consensus       424 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  500 (748)
                      ..+++.++..-+. ....+...+..+-..|++..|..++..+.+.+   ...|-+-+..-....+++.|..+|.+.... 
T Consensus       570 ~Allqkav~~~pk-ae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~-  647 (913)
T KOG0495|consen  570 EALLQKAVEQCPK-AEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI-  647 (913)
T ss_pred             HHHHHHHHHhCCc-chhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc-
Confidence            7777777766543 44445555666667788888877777766433   334666666667777788888888877754 


Q ss_pred             CCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--C-CHHHHHHH
Q 041741          501 MYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG--K-NTVTWNEM  577 (748)
Q Consensus       501 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l  577 (748)
                       .|+...|.--+..---+++.++|.+++++..+. ++.-...|..+.+.+.+.++++.|.+.|..-.+  | .+..|-.|
T Consensus       648 -sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllL  725 (913)
T KOG0495|consen  648 -SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLL  725 (913)
T ss_pred             -CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHH
Confidence             556666655555555567788888888776664 233456777788888888888888888877654  3 45567777


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCC
Q 041741          578 IHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGH  657 (748)
Q Consensus       578 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  657 (748)
                      ...--+.|.+-+|..++++.+-.+ +-+...|...++.=.+.|..+.|..++.+..++  ++.+...|..-|....+.++
T Consensus       726 akleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe--cp~sg~LWaEaI~le~~~~r  802 (913)
T KOG0495|consen  726 AKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQE--CPSSGLLWAEAIWLEPRPQR  802 (913)
T ss_pred             HHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccchhHHHHHHhccCccc
Confidence            777777788888888888887764 455567888888888888888888887776433  34445556666777777777


Q ss_pred             hHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHH
Q 041741          658 FHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELM  734 (748)
Q Consensus       658 ~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  734 (748)
                      ...+...+++..  .|+-++..+...+-....+++|.+.|++++..+|++..++..+-..+...|.-++-.+++...
T Consensus       803 kTks~DALkkce--~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c  877 (913)
T KOG0495|consen  803 KTKSIDALKKCE--HDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKC  877 (913)
T ss_pred             chHHHHHHHhcc--CCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            777777777655  455555566666667778888888888888888888888888888888888888777777764

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.70  E-value=1.3e-13  Score=139.53  Aligned_cols=604  Identities=12%  Similarity=0.052  Sum_probs=301.8

Q ss_pred             CCchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHH
Q 041741           83 RNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALL  162 (748)
Q Consensus        83 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  162 (748)
                      ||.++|..+|.-|+..|+.+.|- +|.-|.-+..+.+...|+.++.+....++.+.++           .|.+.+|+.|.
T Consensus        23 PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aDtyt~Ll   90 (1088)
T KOG4318|consen   23 PNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLADTYTNLL   90 (1088)
T ss_pred             CchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCchhHHHHHH
Confidence            66677777777777777777766 7777766666667777777777777777766665           56667777777


Q ss_pred             HHHHhcCChhh---HHHHHhcCCC-------CCeehHHHHHHHHHcCCCHHHHHH-----HHH----HHHHcC-CCCCcc
Q 041741          163 SLYAKCGWTKH---AVPVFEEMSE-------PNEVTFTAMMSGLAKTDRVVEALE-----MFR----LMIRKA-VSIDSV  222 (748)
Q Consensus       163 ~~~~~~g~~~~---a~~~~~~~~~-------~~~~~~~~li~~~~~~g~~~~a~~-----~~~----~m~~~g-~~~~~~  222 (748)
                      .+|...|+...   +++.+..+..       .....|-.+.-.|+..- ...|..     +++    ...+.+ ..|...
T Consensus        91 ~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~-lpda~n~illlv~eglwaqllkll~~~Pvsa  169 (1088)
T KOG4318|consen   91 KAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHS-LPDAENAILLLVLEGLWAQLLKLLAKVPVSA  169 (1088)
T ss_pred             HHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCccc-chhHHHHHHHHHHHHHHHHHHHHHhhCCccc
Confidence            77777776544   2221111111       11111221211222111 111111     111    111111 112111


Q ss_pred             c---HHHHHHHHhccCCCCCcchhcccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHHHHHhccCC
Q 041741          223 S---LSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLP  299 (748)
Q Consensus       223 t---~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  299 (748)
                      -   +..++.-+.               .....   .+++.......--.|++.++..+++.-..+|+.+.|..++..|.
T Consensus       170 ~~~p~~vfLrqnv---------------~~ntp---vekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emk  231 (1088)
T KOG4318|consen  170 WNAPFQVFLRQNV---------------VDNTP---VEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMK  231 (1088)
T ss_pred             ccchHHHHHHHhc---------------cCCch---HHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence            1   111122221               11222   55565555544336899999999999999999999999999998


Q ss_pred             CCC----cccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCCCCcchHHHH
Q 041741          300 ERS----VVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAM  375 (748)
Q Consensus       300 ~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l  375 (748)
                      +..    ..-|..++-+   .++...+..+++-|.+.|+.|+..|+...+..+...|....+...     .++...+++-
T Consensus       232 e~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~-----sq~~hg~tAa  303 (1088)
T KOG4318|consen  232 EKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEG-----SQLAHGFTAA  303 (1088)
T ss_pred             HcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccc-----cchhhhhhHH
Confidence            753    3345555544   788888899999999999999999999888887776653333222     1222223332


Q ss_pred             HHHHHccC-----CHH-----HHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCch---hHHH
Q 041741          376 LSSYSQSE-----NHK-----EAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHID---NYVA  442 (748)
Q Consensus       376 l~~~~~~~-----~~~-----~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~  442 (748)
                      +..-.-.|     +.+     -....+.+..-.|+.....++....+. ...|.-+..+++...+.......+   ...+
T Consensus       304 vrsaa~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~l-~hQgk~e~veqlvg~l~npt~r~s~~~V~a~  382 (1088)
T KOG4318|consen  304 VRSAACRGLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEKL-RHQGKGEEVEQLVGQLLNPTLRDSGQNVDAF  382 (1088)
T ss_pred             HHHHHhcccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHHH-HHcCCCchHHHHHhhhcCCccccCcchHHHH
Confidence            22222223     111     122222222223444444333333322 225665666665555543322221   1222


Q ss_pred             HHHHHHHHhcCChHHHHHHHh--hCCCC--CcchHHHHHHHHHhCCCchHHHHHHHHHHHCC----CC-------CCHHH
Q 041741          443 SGLIGIYSKCQRNELAERVFH--RIPEL--DIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNE----MY-------PTQFS  507 (748)
Q Consensus       443 ~~l~~~~~~~~~~~~a~~~~~--~~~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~-------p~~~~  507 (748)
                      ..++.-|.+.-+......++.  +..+.  ++..-..+... ...-+...++.-+..+....    ..       +-...
T Consensus       383 ~~~lrqyFrr~e~~~~~~i~~~~qgls~~l~se~tp~vsel-l~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi  461 (1088)
T KOG4318|consen  383 GALLRQYFRRIERHICSRIYYAGQGLSLNLNSEDTPRVSEL-LENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDI  461 (1088)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHhhhchhhhHHHHHH-HHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHH
Confidence            223333322111111111100  00000  00000000111 11111111111111111100    00       11112


Q ss_pred             HHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCH------HHHHHHHHHH
Q 041741          508 FATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNT------VTWNEMIHGY  581 (748)
Q Consensus       508 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~------~~~~~l~~~~  581 (748)
                      -+.++..|++.-+..++...-+.....-+   +..|..+++.+....+.+.|..+.+++..++.      .-+..+.+.+
T Consensus       462 ~~ql~l~l~se~n~lK~l~~~ekye~~lf---~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL  538 (1088)
T KOG4318|consen  462 ANQLHLTLNSEYNKLKILCDEEKYEDLLF---AGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLL  538 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHh---hhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHH
Confidence            23344444444444444433333333222   25677888888888888888888888776543      3466677777


Q ss_pred             HHcCChhHHHHHHHHHHHcCC-CCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChH
Q 041741          582 AQNGYGDEAVRLYKDMIASGV-KPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFH  659 (748)
Q Consensus       582 ~~~~~~~~a~~~~~~m~~~~~-~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  659 (748)
                      .+.+...++..+++++.+.-. .|+. .++-.++......|+.+.-.++++-+ ...|+.-+    ..++....+.++..
T Consensus       539 ~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~l-vslgl~et----gPl~~vhLrkdd~s  613 (1088)
T KOG4318|consen  539 QRLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADIL-VSLGLSET----GPLWMVHLRKDDQS  613 (1088)
T ss_pred             HHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHH-HHhhhhhc----ccceEEEeeccchh
Confidence            888888888888888876421 2222 34445555666667776666666655 34444332    22344455666666


Q ss_pred             HHHHHHhhCC--CCCCHhHHHHHHHHHHhc--CCHHHHHHHHHHHH---------------h------cCCCC-------
Q 041741          660 EAEMLIDEMP--CKDDPVIWEVLLSSCRLH--ANVRLAKRAAEELF---------------R------LDPKN-------  707 (748)
Q Consensus       660 ~A~~~~~~~~--~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~---------------~------~~p~~-------  707 (748)
                      .|.+..+...  .+|.|.....+.....+.  .+++++........               +      .+|.|       
T Consensus       614 ~a~ea~e~~~qkyk~~P~~~e~lcrlv~ke~td~~qk~mDls~~iq~f~k~g~~~~a~di~etpG~r~r~~RDr~~de~e  693 (1088)
T KOG4318|consen  614 AAQEAPEPEEQKYKPYPKDLEGLCRLVYKETTDSPQKTMDLSIPIQKFEKLGSCVDAGDITETPGVRCRNGRDRDTDEGE  693 (1088)
T ss_pred             hhhhcchHHHHHhcCChHHHHHHHHHHHhhccccHHHHHhhcchhHHHHhcccccchhhccccCcccccCCCccccccCc
Confidence            6666554432  445554444444443311  12222221111111               0      01111       


Q ss_pred             -------------CcchHHHhHHHhhcCChHHHHHHHHHHH
Q 041741          708 -------------SAPYSLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       708 -------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                                   -.-...|...|.+.|+++.|..+|.++.
T Consensus       694 ~~~lEll~elt~~lg~~dRLL~sy~~~g~~erA~glwnK~Q  734 (1088)
T KOG4318|consen  694 IVPLELLLELTHELGKNDRLLQSYLEEGRIERASGLWNKDQ  734 (1088)
T ss_pred             cccHHHHHHHHhHhHHHHHHHHHHHhhhHHHHHHhHHhhCc
Confidence                         1114457789999999999999999865

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

Probab=99.70  E-value=1.4e-14  Score=135.10  Aligned_cols=423  Identities=13%  Similarity=0.078  Sum_probs=297.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHH-HHHHHHhcCCHHHHHHHhccCCC--CCc------chHHHHHHH
Q 041741          308 VMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSIN-MLVACVRSGDIKTGREMFDSMPS--PSV------SSWNAMLSS  378 (748)
Q Consensus       308 ~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~--~~~------~~~~~ll~~  378 (748)
                      .+...|..+....+|+..++-+.....-|+...... +-..+.+...+.+|++.++....  |++      ...+.+.-.
T Consensus       206 nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvt  285 (840)
T KOG2003|consen  206 NLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVT  285 (840)
T ss_pred             HHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCee
Confidence            345566777888999999999988888887765543 33467788889999988876553  222      234455567


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchh------------HHHHHHH
Q 041741          379 YSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDN------------YVASGLI  446 (748)
Q Consensus       379 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------------~~~~~l~  446 (748)
                      +.+.|+++.|+..|+...+.  .|+..+-..++-++...|+.++..+.+..++.....++.            .+.+..+
T Consensus       286 fiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai  363 (840)
T KOG2003|consen  286 FIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAI  363 (840)
T ss_pred             EEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHH
Confidence            78999999999999988775  688888777888888899999999999998875443322            2222211


Q ss_pred             -----HHHHhcCC--hHHH----HHHHhhCCCCCcch---HH----------H--------HHHHHHhCCCchHHHHHHH
Q 041741          447 -----GIYSKCQR--NELA----ERVFHRIPELDIVC---WN----------S--------MIAGLSLNSLDIEAFMFFK  494 (748)
Q Consensus       447 -----~~~~~~~~--~~~a----~~~~~~~~~~~~~~---~~----------~--------li~~~~~~~~~~~a~~~~~  494 (748)
                           .-..+.+.  -+++    .++...+..|+-..   |.          .        -...+.+.|+++.|+++++
T Consensus       364 ~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilk  443 (840)
T KOG2003|consen  364 KNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILK  443 (840)
T ss_pred             hhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHH
Confidence                 11222111  1122    22222222332210   11          0        1124778999999999998


Q ss_pred             HHHHCCCCCCHHHHHH--HHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHH
Q 041741          495 QMRQNEMYPTQFSFAT--VLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTV  572 (748)
Q Consensus       495 ~m~~~~~~p~~~~~~~--l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  572 (748)
                      -+.+..-+..+..-+.  .+.-+...+++..|.++-+...... .-++.....-.......|++++|.+.+++....|..
T Consensus       444 v~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndas  522 (840)
T KOG2003|consen  444 VFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDAS  522 (840)
T ss_pred             HHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchH
Confidence            8876643333333222  2333333456667777666555432 112222222223344579999999999999988776


Q ss_pred             HHHHHH---HHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHH
Q 041741          573 TWNEMI---HGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCM  648 (748)
Q Consensus       573 ~~~~l~---~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l  648 (748)
                      +-..|.   -.+...|+.++|++.|-++..- +..+...+..+...|....+...|++++.+..   .+.| |+..+..|
T Consensus       523 c~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~---slip~dp~ilskl  598 (840)
T KOG2003|consen  523 CTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQAN---SLIPNDPAILSKL  598 (840)
T ss_pred             HHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhc---ccCCCCHHHHHHH
Confidence            555444   4577889999999999887764 34566678888889999999999999988763   4444 57889999


Q ss_pred             HHHHHhcCChHHHHHHH-hhCC-CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHH
Q 041741          649 IDCLGRAGHFHEAEMLI-DEMP-CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDD  726 (748)
Q Consensus       649 ~~~~~~~g~~~~A~~~~-~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  726 (748)
                      ++.|-+.|+..+|.+.+ ++.. ++.+..+...|...|....-+++|+..++++--+.|+...+....+.++.+.|++.+
T Consensus       599 ~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqk  678 (840)
T KOG2003|consen  599 ADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQK  678 (840)
T ss_pred             HHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHH
Confidence            99999999999999874 4444 666777888888888888889999999999999999888899999999999999999


Q ss_pred             HHHHHHHHHhc
Q 041741          727 LRAVRELMSEN  737 (748)
Q Consensus       727 A~~~~~~~~~~  737 (748)
                      |.+.|+.+.++
T Consensus       679 a~d~yk~~hrk  689 (840)
T KOG2003|consen  679 AFDLYKDIHRK  689 (840)
T ss_pred             HHHHHHHHHHh
Confidence            99999998664

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.64  E-value=4.9e-16  Score=150.33  Aligned_cols=255  Identities=16%  Similarity=0.122  Sum_probs=113.0

Q ss_pred             HHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHH-HHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCC
Q 041741          477 IAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFA-TVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGD  555 (748)
Q Consensus       477 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  555 (748)
                      ...+...|++++|+++++.......+|+...|. .+...+...++.+.|...++.+...+.. ++..+..++.. ...++
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~   92 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGD   92 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccccc
Confidence            444556677777777775544433234333333 3444555677777777777777765432 45556666666 67888


Q ss_pred             HHHHHHHhhhcCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcC-CCCCHHHHHHHHHHhcCCCChHHHHHHHHHh
Q 041741          556 IYGARQFFDMMHG--KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASG-VKPDDITFVAILTACSHSGLVDVGVEIFNSM  632 (748)
Q Consensus       556 ~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~  632 (748)
                      +++|.+++....+  +++..+..++..+...++++++.++++++.... .+++...|..+...+.+.|+.++|+..+++.
T Consensus        93 ~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~a  172 (280)
T PF13429_consen   93 PEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKA  172 (280)
T ss_dssp             -------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8998888876543  566677788888999999999999999977543 2456677888888999999999999999998


Q ss_pred             hhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 041741          633 QLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSA  709 (748)
Q Consensus       633 ~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  709 (748)
                      .   ...|+ ......++..+...|+.+++.++++...  .+.++..|..+..++...|++++|...++++...+|+|+.
T Consensus       173 l---~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~  249 (280)
T PF13429_consen  173 L---ELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPL  249 (280)
T ss_dssp             H---HH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HH
T ss_pred             H---HcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccccc
Confidence            5   33564 6677889999999999999888887774  3567888899999999999999999999999999999999


Q ss_pred             chHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          710 PYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       710 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      ++..++.++...|+.++|.++++++.+
T Consensus       250 ~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  250 WLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccc
Confidence            999999999999999999999887643

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

Probab=99.62  E-value=4.2e-10  Score=110.79  Aligned_cols=386  Identities=11%  Similarity=0.084  Sum_probs=230.3

Q ss_pred             HHHhcCCHHHHHHHhccCCC---CCcchHHHHHHHHHccCCHHHHHHHHHH----HHHcCCCCCHhhHHHHHHHhhccCC
Q 041741          347 ACVRSGDIKTGREMFDSMPS---PSVSSWNAMLSSYSQSENHKEAIKLFRE----MQFRGVKPDRTTLAIILSSCAAMGI  419 (748)
Q Consensus       347 ~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~----m~~~g~~p~~~~~~~ll~~~~~~~~  419 (748)
                      ++.+..-++.|..++....+   .+...|-+-...--++|+.+.+.+++++    +...|+..+...+..=...|-..|.
T Consensus       415 AlarLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~ags  494 (913)
T KOG0495|consen  415 ALARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGS  494 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCC
Confidence            34444445555555444332   3444444444444455666666655543    3445666666666666666666677


Q ss_pred             hHHHHHHHHHHHhhcCCch--hHHHHHHHHHHHhcCChHHHHHHHhhCCCC---CcchHHHHHHHHHhCCCchHHHHHHH
Q 041741          420 LESGKQVHAASLKTASHID--NYVASGLIGIYSKCQRNELAERVFHRIPEL---DIVCWNSMIAGLSLNSLDIEAFMFFK  494 (748)
Q Consensus       420 ~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~  494 (748)
                      .-.+..+....+..|+.-.  ..++..-...|.+.+.++-|..+|....+-   +...|......--..|..+....+|+
T Consensus       495 v~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allq  574 (913)
T KOG0495|consen  495 VITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQ  574 (913)
T ss_pred             hhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            7777777777666666542  244555666666777777776666665542   33345555544455666666666666


Q ss_pred             HHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--CCHH
Q 041741          495 QMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG--KNTV  572 (748)
Q Consensus       495 ~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~  572 (748)
                      +....- +-....+.......-..|+...|..++....+... .+..+|-.-+..-.....++.|+.+|.+...  +...
T Consensus       575 kav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~p-nseeiwlaavKle~en~e~eraR~llakar~~sgTeR  652 (913)
T KOG0495|consen  575 KAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANP-NSEEIWLAAVKLEFENDELERARDLLAKARSISGTER  652 (913)
T ss_pred             HHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCC-CcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcch
Confidence            666541 22233333444445555677777776666666542 2556666666666666677777777766543  4555


Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHH
Q 041741          573 TWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDC  651 (748)
Q Consensus       573 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  651 (748)
                      .|..-+....-.++.++|++++++.++.  .|+- ..|..+.+.+.+.++++.|.+.|..=.  ...+-.+..|..+++.
T Consensus       653 v~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~--k~cP~~ipLWllLakl  728 (913)
T KOG0495|consen  653 VWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGT--KKCPNSIPLWLLLAKL  728 (913)
T ss_pred             hhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcc--ccCCCCchHHHHHHHH
Confidence            5555555555566666777777666663  3444 356666666666666666666655432  1222224455566666


Q ss_pred             HHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC------------------------
Q 041741          652 LGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDP------------------------  705 (748)
Q Consensus       652 ~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p------------------------  705 (748)
                      =.+.|..-.|..++++..  .+.+...|...+..-.+.|+.+.|....-++++.-|                        
T Consensus       729 eEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~D  808 (913)
T KOG0495|consen  729 EEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSID  808 (913)
T ss_pred             HHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHH
Confidence            666666666766666653  333556666666666666666666666666665433                        


Q ss_pred             ------CCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          706 ------KNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       706 ------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                            +||..+...+.+++...++++|++.|++..+.+
T Consensus       809 ALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d  847 (913)
T KOG0495|consen  809 ALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD  847 (913)
T ss_pred             HHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence                  366778889999999999999999999864433

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.56  E-value=2.1e-12  Score=130.76  Aligned_cols=275  Identities=12%  Similarity=0.053  Sum_probs=192.4

Q ss_pred             cCChHHHHHHHhhCCCC--Ccch-HHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHH--HHHHhhcCCCCchhHHH
Q 041741          452 CQRNELAERVFHRIPEL--DIVC-WNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFA--TVLSSCAKLSSSFQGRQ  526 (748)
Q Consensus       452 ~~~~~~a~~~~~~~~~~--~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~--~l~~~~~~~~~~~~a~~  526 (748)
                      .|+++.|.+.+....+.  ++.. +........+.|+++.|...+.++.+.  .|+.....  .....+...|+++.|..
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            46666666666554432  1222 222233446778888888888887754  44443222  33556677788888888


Q ss_pred             HHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCC---CHH--------HHHHHHHHHHHcCChhHHHHHHH
Q 041741          527 VHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGK---NTV--------TWNEMIHGYAQNGYGDEAVRLYK  595 (748)
Q Consensus       527 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~--------~~~~l~~~~~~~~~~~~a~~~~~  595 (748)
                      .++.+.+.. +-++.....+...|.+.|++++|.+++..+.+.   +..        .|..++.......+.+...++|+
T Consensus       175 ~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~  253 (398)
T PRK10747        175 GVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWK  253 (398)
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            888877765 446677778888888888888888888777642   111        23333443444455566667777


Q ss_pred             HHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCC
Q 041741          596 DMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDD  673 (748)
Q Consensus       596 ~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~  673 (748)
                      .+-+. .+.+......+..++...|+.++|...+++..   ...|+....  ++......++.+++.+.+++..  .+.+
T Consensus       254 ~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l---~~~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~~  327 (398)
T PRK10747        254 NQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGL---KRQYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGDT  327 (398)
T ss_pred             hCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH---hcCCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCCC
Confidence            66443 35566778888899999999999999998874   235555333  2333345689999999988875  4456


Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          674 PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       674 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      +.....+...+...+++++|.+.++++++.+| +...+..++.++.+.|+.++|.++|++...
T Consensus       328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P-~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        328 PLLWSTLGQLLMKHGEWQEASLAFRAALKQRP-DAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            77788888999999999999999999999999 456677899999999999999999997644

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.55  E-value=2.4e-11  Score=115.28  Aligned_cols=213  Identities=14%  Similarity=0.128  Sum_probs=166.3

Q ss_pred             cCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHH
Q 041741          516 AKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVR  592 (748)
Q Consensus       516 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~  592 (748)
                      .-.|+.-.+.+-|+...+....++. .|--+..+|....+.++-+..|+...+   .|+.+|..-.+.+.-.++++.|..
T Consensus       337 fL~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~a  415 (606)
T KOG0547|consen  337 FLKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIA  415 (606)
T ss_pred             hhcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHH
Confidence            3457777888888888777544332 244556678888888888888887663   467788888888888889999999


Q ss_pred             HHHHHHHcCCCCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-C
Q 041741          593 LYKDMIASGVKPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-C  670 (748)
Q Consensus       593 ~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~  670 (748)
                      =|++.+..  .|+. ..|..+..+..+.++++++...|+...+++  +--+..|+..++++...+++++|.+.|+... .
T Consensus       416 DF~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkF--P~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  416 DFQKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKKKF--PNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            99999884  4544 567777777788899999999999986444  3335667889999999999999999998764 2


Q ss_pred             CCC---------HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHH
Q 041741          671 KDD---------PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELM  734 (748)
Q Consensus       671 ~~~---------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  734 (748)
                      .|+         |.+-. -+..++..+|+..|..++.++++++|+...++..|+.+-.+.|+.++|+++|++.
T Consensus       492 E~~~~~~~v~~~plV~K-a~l~~qwk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEks  563 (606)
T KOG0547|consen  492 EPREHLIIVNAAPLVHK-ALLVLQWKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKS  563 (606)
T ss_pred             ccccccccccchhhhhh-hHhhhchhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            332         33322 3333445689999999999999999999999999999999999999999999964

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.54  E-value=8.5e-13  Score=130.35  Aligned_cols=277  Identities=16%  Similarity=0.034  Sum_probs=217.6

Q ss_pred             ChHHHHHHHhhCCC--CCc-chHHHHHHHHHhCCCchHHHHHHHHHHHCC--CCCCHHHHHHHHHhhcCCCCchhHHHHH
Q 041741          454 RNELAERVFHRIPE--LDI-VCWNSMIAGLSLNSLDIEAFMFFKQMRQNE--MYPTQFSFATVLSSCAKLSSSFQGRQVH  528 (748)
Q Consensus       454 ~~~~a~~~~~~~~~--~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~  528 (748)
                      ..++|...|..+++  +++ .....+..+|...+++++|.++|+.+++..  ..-+...|.+.++.+-+.    -+..++
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~L  409 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHHH
Confidence            45677777777553  233 334556778888888999999998888753  122566787777665331    222233


Q ss_pred             HHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--C-CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC
Q 041741          529 AQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG--K-NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPD  605 (748)
Q Consensus       529 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  605 (748)
                      .+-.-..-+.++.+|.++..+|.-+++.+.|.+.|++..+  | ...+|..+..-+.....+|.|...|+..+.  +.|.
T Consensus       410 aq~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~~~r  487 (638)
T KOG1126|consen  410 AQDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG--VDPR  487 (638)
T ss_pred             HHHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc--CCch
Confidence            2222223356789999999999999999999999998875  3 667888888889999999999999999886  4454


Q ss_pred             H-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHH
Q 041741          606 D-ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLL  681 (748)
Q Consensus       606 ~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~  681 (748)
                      . ..|..+...|.++++++.|.-.|+++.   .+.|. ....-.++..+.+.|+.++|+.+++++.  .+.++.....-+
T Consensus       488 hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~  564 (638)
T KOG1126|consen  488 HYNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRA  564 (638)
T ss_pred             hhHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHH
Confidence            4 577888999999999999999999885   67776 4455678889999999999999999985  344666666667


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          682 SSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       682 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      ..+...+++++|...++++.++-|++..++..++.+|.+.|+.+.|+..+--|..-.+
T Consensus       565 ~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldp  622 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDP  622 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCC
Confidence            7788889999999999999999999999999999999999999999999887665333

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.52  E-value=8.5e-11  Score=110.93  Aligned_cols=315  Identities=11%  Similarity=0.067  Sum_probs=227.4

Q ss_pred             HhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCc-chHHHHHHHHHhCCCchHHHH
Q 041741          413 SCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDI-VCWNSMIAGLSLNSLDIEAFM  491 (748)
Q Consensus       413 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~  491 (748)
                      .....|..+.|...+...+..-+    ..|.+-+....-..+.+.+..+....++.+. ..---+..++....+.+++..
T Consensus       173 v~k~~~~~s~A~~sfv~~v~~~P----~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~~el~q~~e~~~  248 (559)
T KOG1155|consen  173 VLKELGLLSLAIDSFVEVVNRYP----WFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAYQELHQHEEALQ  248 (559)
T ss_pred             HHHhhchHHHHHHHHHHHHhcCC----cchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455666666666555543221    2222222222223333333333323322111 111123345555667788888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCC--CchHHHHHHHHHHHhcCCHHHHHHHhhhcCCC
Q 041741          492 FFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYV--NDIFVGSALIEMYCKCGDIYGARQFFDMMHGK  569 (748)
Q Consensus       492 ~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  569 (748)
                      -.......|++-+...-+....+.-...|+++|+.+|+++.+..+-  -|..+|+.++-.-..+.++.--....-.+.+-
T Consensus       249 k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idKy  328 (559)
T KOG1155|consen  249 KKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDKY  328 (559)
T ss_pred             HHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhccC
Confidence            8888888887777666666666777889999999999999988321  26778877765544444444333333444455


Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHH
Q 041741          570 NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTC  647 (748)
Q Consensus       570 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~  647 (748)
                      -+.|..++.+-|.-.++.++|+..|++.++.  .|.. ..|+.+..-|...++...|++.++.++   .+.| |-..|-.
T Consensus       329 R~ETCCiIaNYYSlr~eHEKAv~YFkRALkL--Np~~~~aWTLmGHEyvEmKNt~AAi~sYRrAv---di~p~DyRAWYG  403 (559)
T KOG1155|consen  329 RPETCCIIANYYSLRSEHEKAVMYFKRALKL--NPKYLSAWTLMGHEYVEMKNTHAAIESYRRAV---DINPRDYRAWYG  403 (559)
T ss_pred             CccceeeehhHHHHHHhHHHHHHHHHHHHhc--CcchhHHHHHhhHHHHHhcccHHHHHHHHHHH---hcCchhHHHHhh
Confidence            5667778888888899999999999999995  4554 578889999999999999999999885   4444 5677889


Q ss_pred             HHHHHHhcCChHHHHHHHhhCC-CC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChH
Q 041741          648 MIDCLGRAGHFHEAEMLIDEMP-CK-DDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWD  725 (748)
Q Consensus       648 l~~~~~~~g~~~~A~~~~~~~~-~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  725 (748)
                      ++.+|.-.+.+.=|+-+|++.. .+ .|+..|.+|+..|.+.++.++|+..+++++.....+..++..||++|.+.++.+
T Consensus       404 LGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~  483 (559)
T KOG1155|consen  404 LGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLN  483 (559)
T ss_pred             hhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHH
Confidence            9999999999999999999985 44 489999999999999999999999999999998888899999999999999999


Q ss_pred             HHHHHHHHHHh
Q 041741          726 DLRAVRELMSE  736 (748)
Q Consensus       726 ~A~~~~~~~~~  736 (748)
                      +|..+|++-.+
T Consensus       484 eAa~~yek~v~  494 (559)
T KOG1155|consen  484 EAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHH
Confidence            99999987544

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.52  E-value=7.6e-11  Score=111.24  Aligned_cols=246  Identities=14%  Similarity=0.103  Sum_probs=175.4

Q ss_pred             HHhCCCchHHHHHHHHHHHCCCC--CCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHH
Q 041741          480 LSLNSLDIEAFMFFKQMRQNEMY--PTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIY  557 (748)
Q Consensus       480 ~~~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  557 (748)
                      .-...++++|+.+|+++.+...-  .|..+|..++-.-....    ...++.+-.-.--+.-+.++..+..-|+-.++.+
T Consensus       272 ~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~s----kLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHE  347 (559)
T KOG1155|consen  272 SYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKS----KLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHE  347 (559)
T ss_pred             HhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhH----HHHHHHHHHHHhccCCccceeeehhHHHHHHhHH
Confidence            34456667777777777665211  14456655554322211    1122222221111334556667777788888888


Q ss_pred             HHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhh
Q 041741          558 GARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQL  634 (748)
Q Consensus       558 ~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  634 (748)
                      +|...|+...+   .....|..+++-|...++...|++-++++++-+ +-|-..|-.|.++|...+...-|+-+|++.. 
T Consensus       348 KAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~-  425 (559)
T KOG1155|consen  348 KAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKAL-  425 (559)
T ss_pred             HHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHH-
Confidence            99998888765   345678888888999888999999999988853 5566788899999988888888999988874 


Q ss_pred             hhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHh-------cC
Q 041741          635 DHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFR-------LD  704 (748)
Q Consensus       635 ~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~  704 (748)
                        .++|+ ...|.+|+++|.+.++.++|.+-|++..  ...+...+..++..+...++.++|...+++-++       ..
T Consensus       426 --~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~  503 (559)
T KOG1155|consen  426 --ELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEID  503 (559)
T ss_pred             --hcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccc
Confidence              55564 6778889999999999999999888875  333457788888888888899999999888888       34


Q ss_pred             CCCCcchHHHhHHHhhcCChHHHHHHHHH
Q 041741          705 PKNSAPYSLLANIYSSLGRWDDLRAVREL  733 (748)
Q Consensus       705 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  733 (748)
                      |+...+...|+.-+.+.+++++|..+...
T Consensus       504 ~~t~ka~~fLA~~f~k~~~~~~As~Ya~~  532 (559)
T KOG1155|consen  504 DETIKARLFLAEYFKKMKDFDEASYYATL  532 (559)
T ss_pred             hHHHHHHHHHHHHHHhhcchHHHHHHHHH
Confidence            55556677788888888888888775543

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.52  E-value=7.4e-13  Score=130.77  Aligned_cols=249  Identities=16%  Similarity=0.126  Sum_probs=197.2

Q ss_pred             CchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCC--CCchHHHHHHHHHHHhcCCHHHHHHH
Q 041741          485 LDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGY--VNDIFVGSALIEMYCKCGDIYGARQF  562 (748)
Q Consensus       485 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~  562 (748)
                      +..+|+..|..+... +.-+......+..+|...++++++..+|+.+.+...  .-+..+|...+--+-+.=.+.--.+-
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            457889999884443 344456777889999999999999999999988732  22677777665433222222222222


Q ss_pred             hhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC
Q 041741          563 FDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKP-DDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI  641 (748)
Q Consensus       563 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  641 (748)
                      +-...+..+.+|.++.++|.-+++++.|++.|++..+  +.| ...+|+.+..-+.....+|+|...|+...   ++.|+
T Consensus       413 Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ--ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al---~~~~r  487 (638)
T KOG1126|consen  413 LIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ--LDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL---GVDPR  487 (638)
T ss_pred             HHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc--cCCccchhhhhcCChhhhhHHHHhHHHHHHhhh---cCCch
Confidence            2233345789999999999999999999999999999  467 56788888888889999999999999774   44554


Q ss_pred             -hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHH
Q 041741          642 -LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDD-PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIY  718 (748)
Q Consensus       642 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  718 (748)
                       -..|-.++-.|.+.++++.|.-.|+++. +.|. .+....++..+.+.|+.++|++.++++.-++|.|+..-+..+.++
T Consensus       488 hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il  567 (638)
T KOG1126|consen  488 HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASIL  567 (638)
T ss_pred             hhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHH
Confidence             3345567889999999999999999986 6664 556666777789999999999999999999999999999999999


Q ss_pred             hhcCChHHHHHHHHHHHhcCC
Q 041741          719 SSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       719 ~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      ...+++++|+..++++++--+
T Consensus       568 ~~~~~~~eal~~LEeLk~~vP  588 (638)
T KOG1126|consen  568 FSLGRYVEALQELEELKELVP  588 (638)
T ss_pred             HhhcchHHHHHHHHHHHHhCc
Confidence            999999999999999887433

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.50  E-value=1.7e-09  Score=102.57  Aligned_cols=455  Identities=10%  Similarity=0.069  Sum_probs=328.0

Q ss_pred             hHHHHHHHHHHHhcCChhHHHHHhccCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 041741          272 LHLSNSLLDMYAKNGDMDSAEVIFSNLPE---RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVAC  348 (748)
Q Consensus       272 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  348 (748)
                      ...+-...+.-...+++..|..+|+....   +++..|-..+..-.++..+..|..++++....=...|.. +-..+..=
T Consensus        73 ~~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdql-WyKY~ymE  151 (677)
T KOG1915|consen   73 MQVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQL-WYKYIYME  151 (677)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHH-HHHHHHHH
Confidence            33444444444556778889999988776   456678888888889999999999999988753333332 33334444


Q ss_pred             HhcCCHHHHHHHhccCC--CCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHH
Q 041741          349 VRSGDIKTGREMFDSMP--SPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQV  426 (748)
Q Consensus       349 ~~~~~~~~a~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~  426 (748)
                      -..|++..|.++|+.-.  +|+...|.+.+..-.+.+.++.|..+++...-.  .|+..++....+-=.+.|+...+..+
T Consensus       152 E~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~V  229 (677)
T KOG1915|consen  152 EMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSV  229 (677)
T ss_pred             HHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHH
Confidence            56799999999998766  499999999999999999999999999998864  69999998888888889999999999


Q ss_pred             HHHHHhhcCC--chhHHHHHHHHHHHhcCChHHHHHHHhhCCCC--C---cchHHHHHHHHHhCCCc---hHHHH-----
Q 041741          427 HAASLKTASH--IDNYVASGLIGIYSKCQRNELAERVFHRIPEL--D---IVCWNSMIAGLSLNSLD---IEAFM-----  491 (748)
Q Consensus       427 ~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~---~~~~~~li~~~~~~~~~---~~a~~-----  491 (748)
                      ++.+++.-..  ....++.+...-=..++.++.|.-+|+-..+.  .   ...|..+...=-+-|+.   ++++-     
T Consensus       230 yerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~  309 (677)
T KOG1915|consen  230 YERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKF  309 (677)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhh
Confidence            9988774322  13344555555555677888888887655531  1   12233333333334443   33332     


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCch-HHHHHHHHH--------HHhcCCHHHHHHH
Q 041741          492 FFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDI-FVGSALIEM--------YCKCGDIYGARQF  562 (748)
Q Consensus       492 ~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~--------~~~~g~~~~A~~~  562 (748)
                      -+..+.+.+ +-|-.++--.+..-...|+.+...++++.....-.+.+. ..|...|..        -....+++.+.++
T Consensus       310 qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~v  388 (677)
T KOG1915|consen  310 QYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQV  388 (677)
T ss_pred             HHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            233444442 456677777777777889999999999998876433221 122222211        1246789999999


Q ss_pred             hhhcCC--C-C----HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhh
Q 041741          563 FDMMHG--K-N----TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLD  635 (748)
Q Consensus       563 ~~~~~~--~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  635 (748)
                      ++.+.+  | .    ...|-....-..++.+...|.+++-..+.  .-|...+|...|..=.+.+.++.+..++++..  
T Consensus       389 yq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG--~cPK~KlFk~YIelElqL~efDRcRkLYEkfl--  464 (677)
T KOG1915|consen  389 YQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIG--KCPKDKLFKGYIELELQLREFDRCRKLYEKFL--  464 (677)
T ss_pred             HHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhc--cCCchhHHHHHHHHHHHHhhHHHHHHHHHHHH--
Confidence            987764  2 2    23455555566778899999999998876  46888889988888889999999999999985  


Q ss_pred             hCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCCCCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc
Q 041741          636 HGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDD----PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAP  710 (748)
Q Consensus       636 ~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  710 (748)
                       ...|. ..+|...+..=...|+.+.|..+|+-....|.    ...|...+..-...|.+++|..+|+++++..+.- ..
T Consensus       465 -e~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~-kv  542 (677)
T KOG1915|consen  465 -EFSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHV-KV  542 (677)
T ss_pred             -hcChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccc-hH
Confidence             44554 67788888888899999999999998876663    4677888888888999999999999999998844 46


Q ss_pred             hHHHhHHHh-----hcC-----------ChHHHHHHHHHHHh
Q 041741          711 YSLLANIYS-----SLG-----------RWDDLRAVRELMSE  736 (748)
Q Consensus       711 ~~~l~~~~~-----~~g-----------~~~~A~~~~~~~~~  736 (748)
                      +.+.+..-.     +.|           ....|+.+|+++..
T Consensus       543 WisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~  584 (677)
T KOG1915|consen  543 WISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANT  584 (677)
T ss_pred             HHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHH
Confidence            666666554     444           55678888877644

>TIGR00540 hemY_coli hemY protein

Probab=99.50  E-value=2.9e-11  Score=123.35  Aligned_cols=280  Identities=12%  Similarity=0.012  Sum_probs=154.9

Q ss_pred             cCChHHHHHHHhhCCCC--Ccc-hHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHH
Q 041741          452 CQRNELAERVFHRIPEL--DIV-CWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVH  528 (748)
Q Consensus       452 ~~~~~~a~~~~~~~~~~--~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  528 (748)
                      .|+++.|.+.+.+..+.  ++. .+-....++...|+++.|.+.+.+..+....+...........+...|+++.|...+
T Consensus        97 ~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l  176 (409)
T TIGR00540        97 EGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGV  176 (409)
T ss_pred             CCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHH
Confidence            45555555555444332  111 122223444555666666666666554321111112222344555566666666666


Q ss_pred             HHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHH----HHHHHHHHcCChhHHHHHHHHHHHcC
Q 041741          529 AQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWN----EMIHGYAQNGYGDEAVRLYKDMIASG  601 (748)
Q Consensus       529 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~----~l~~~~~~~~~~~~a~~~~~~m~~~~  601 (748)
                      +.+.+.. |-++.+...+...+...|++++|.+.+..+.+   .+...+.    .........+..+.+.+.+..+.+..
T Consensus       177 ~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~  255 (409)
T TIGR00540       177 DKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQ  255 (409)
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHC
Confidence            6666554 33445556666666666666666666665553   1222221    11111122222333334444444431


Q ss_pred             C---CCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhH---HHHHHHHHHhcCChHHHHHHHhhCC--CCCC
Q 041741          602 V---KPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDH---YTCMIDCLGRAGHFHEAEMLIDEMP--CKDD  673 (748)
Q Consensus       602 ~---~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~  673 (748)
                      .   +.+...+..+...+...|+.++|.+.+++..+.   .|+...   .....-.....++.+.+.+.+++..  .+.+
T Consensus       256 p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~  332 (409)
T TIGR00540       256 PRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDK  332 (409)
T ss_pred             CHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCC
Confidence            1   125566666777777777777777777776422   333221   1111112233466677777776653  3334


Q ss_pred             H--hHHHHHHHHHHhcCCHHHHHHHHH--HHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          674 P--VIWEVLLSSCRLHANVRLAKRAAE--ELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       674 ~--~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      +  .....++..+.+.|++++|.+.++  .+.+..| ++..+..++.++.+.|+.++|.++|++...
T Consensus       333 ~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p-~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       333 PKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQL-DANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             hhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5  677788888888888888888888  5666778 445577888888888888888888887543

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.48  E-value=4.3e-11  Score=121.30  Aligned_cols=152  Identities=11%  Similarity=0.056  Sum_probs=114.9

Q ss_pred             HHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChH
Q 041741          547 IEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVD  623 (748)
Q Consensus       547 ~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  623 (748)
                      +.......+.+...++++.+.+   .++.....+...+...|+.++|.+++++..+.  +|+....  ++.+....++.+
T Consensus       236 ~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~  311 (398)
T PRK10747        236 MDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPE  311 (398)
T ss_pred             HHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChH
Confidence            3333344556666677776653   47778888889999999999999999998884  5555322  233444568899


Q ss_pred             HHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 041741          624 VGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFR  702 (748)
Q Consensus       624 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  702 (748)
                      +++...+...+.+  +-|...+..++..+.+.|++++|.+.|+.+. ..|+...+..+...+...|+.++|.+++++.+.
T Consensus       312 ~al~~~e~~lk~~--P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        312 QLEKVLRQQIKQH--GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHhhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9999988885332  3335567788999999999999999998886 678888888888889999999999999999887


Q ss_pred             cC
Q 041741          703 LD  704 (748)
Q Consensus       703 ~~  704 (748)
                      +-
T Consensus       390 ~~  391 (398)
T PRK10747        390 LT  391 (398)
T ss_pred             hh
Confidence            54

>TIGR00540 hemY_coli hemY protein

Probab=99.46  E-value=1.6e-10  Score=117.84  Aligned_cols=288  Identities=10%  Similarity=-0.020  Sum_probs=179.4

Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCHhhH-HHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHH
Q 041741          380 SQSENHKEAIKLFREMQFRGVKPDRTTL-AIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELA  458 (748)
Q Consensus       380 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  458 (748)
                      ...|+++.|.+.+....+.  .|++..+ .....+....|+.+.+...+..+.+....+...+.....            
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a------------  160 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIART------------  160 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHH------------
Confidence            4578888888888776654  4544333 223355556677777777766665543322222222223            


Q ss_pred             HHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCC
Q 041741          459 ERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVN  538 (748)
Q Consensus       459 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  538 (748)
                                         ..+...|+++.|...++.+.+.. +-+......+...+...|+++.+.+.+..+.+.+..+
T Consensus       161 -------------------~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~  220 (409)
T TIGR00540       161 -------------------RILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFD  220 (409)
T ss_pred             -------------------HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCC
Confidence                               34444555555555555555442 2233444555555555666666666666555554332


Q ss_pred             chHHHH-------HHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHH
Q 041741          539 DIFVGS-------ALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDIT  608 (748)
Q Consensus       539 ~~~~~~-------~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  608 (748)
                      +.....       .++..-......+...+.++...+   .++..+..++..+...|++++|.+++++..+.  .||...
T Consensus       221 ~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~  298 (409)
T TIGR00540       221 DEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRA  298 (409)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCccc
Confidence            221111       111111122233445555555543   47888888999999999999999999999986  344432


Q ss_pred             --H-HHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhh--C-CCCCCHhHHHHHHH
Q 041741          609 --F-VAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDE--M-PCKDDPVIWEVLLS  682 (748)
Q Consensus       609 --~-~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~--~-~~~~~~~~~~~l~~  682 (748)
                        + ..........++.+.+...+++..+.....|+......++..+.+.|++++|.+.|+.  . ...|++..+..+..
T Consensus       299 ~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~  378 (409)
T TIGR00540       299 ISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAAD  378 (409)
T ss_pred             chhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHH
Confidence              1 1112222445778888888888754433333325677899999999999999999994  3 36788888889999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhc
Q 041741          683 SCRLHANVRLAKRAAEELFRL  703 (748)
Q Consensus       683 ~~~~~~~~~~a~~~~~~~~~~  703 (748)
                      .+...|+.++|.+++++++..
T Consensus       379 ll~~~g~~~~A~~~~~~~l~~  399 (409)
T TIGR00540       379 AFDQAGDKAEAAAMRQDSLGL  399 (409)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999999998663

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.45  E-value=2.3e-13  Score=131.66  Aligned_cols=227  Identities=15%  Similarity=0.123  Sum_probs=104.8

Q ss_pred             HHHHhhcCCCCchhHHHHHHHHHHhC-CCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCC---CHHHHHHHHHHHHHcC
Q 041741          510 TVLSSCAKLSSSFQGRQVHAQIEKDG-YVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGK---NTVTWNEMIHGYAQNG  585 (748)
Q Consensus       510 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~  585 (748)
                      .+...+...|++++|.+++....... .+.++..|..+.......++++.|.+.++.+...   ++..+..++.. ...+
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccc
Confidence            45777889999999999996655444 3456677777778888899999999999998753   44566667776 7899


Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHH
Q 041741          586 YGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLI  665 (748)
Q Consensus       586 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  665 (748)
                      ++++|.+++++..+.  .++...+..++..+...++++++..+++.+......+++...|..++..+.+.|+.++|.+.+
T Consensus        92 ~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   92 DPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             ccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999888765  466677788888899999999999999998544445667888889999999999999999999


Q ss_pred             hhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          666 DEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       666 ~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      ++..  .+.++.....++..+...|+.+++.++++...+..|.|+..+..++.+|...|+.++|+.++++..+..+
T Consensus       170 ~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p  245 (280)
T PF13429_consen  170 RKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNP  245 (280)
T ss_dssp             HHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccc
Confidence            9986  4446888999999999999999999999999999899999999999999999999999999999876444

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.44  E-value=6.1e-09  Score=98.86  Aligned_cols=231  Identities=13%  Similarity=0.081  Sum_probs=152.6

Q ss_pred             cchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHH-------HHHH---HHHhhcCCCCchhHHHHHHHHHHhCCCCc
Q 041741          470 IVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQF-------SFAT---VLSSCAKLSSSFQGRQVHAQIEKDGYVND  539 (748)
Q Consensus       470 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-------~~~~---l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  539 (748)
                      -.+|--.++.-...|+.+...++|...+.. ++|-..       .|.-   .+-.-....|.+.+.+++....+. +|..
T Consensus       322 YDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IPHk  399 (677)
T KOG1915|consen  322 YDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IPHK  399 (677)
T ss_pred             chHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcc
Confidence            345555566666678888888888877755 344221       1111   111223567788888888887772 3334


Q ss_pred             hHHHHHHH----HHHHhcCCHHHHHHHhhhcCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 041741          540 IFVGSALI----EMYCKCGDIYGARQFFDMMHG--KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAIL  613 (748)
Q Consensus       540 ~~~~~~l~----~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~  613 (748)
                      ..++.-+-    +.-.++.++..|.+++.....  |-..++...|..-.+.++++.+..++++.++-+ +-|..+|....
T Consensus       400 kFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe~c~~W~kya  478 (677)
T KOG1915|consen  400 KFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS-PENCYAWSKYA  478 (677)
T ss_pred             cchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHHHH
Confidence            44444433    333467888889998887664  777788888888888888999999999988853 34446777777


Q ss_pred             HHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCHhHHHHHHHHHH-----hc
Q 041741          614 TACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDPVIWEVLLSSCR-----LH  687 (748)
Q Consensus       614 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~-----~~  687 (748)
                      ..=...|+.+.|..+|+-+.....+....-.+...++.=...|.++.|..+++++. ..+-..+|-.....-.     ..
T Consensus       479 ElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~kvWisFA~fe~s~~~~~~  558 (677)
T KOG1915|consen  479 ELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVKVWISFAKFEASASEGQE  558 (677)
T ss_pred             HHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccchHHHhHHHHhcccccccc
Confidence            77677889999999988775443333334456666666678889999999988885 3344446665554422     22


Q ss_pred             C-----------CHHHHHHHHHHHHhc
Q 041741          688 A-----------NVRLAKRAAEELFRL  703 (748)
Q Consensus       688 ~-----------~~~~a~~~~~~~~~~  703 (748)
                      +           ....|..+++++...
T Consensus       559 ~~~~~~~e~~~~~~~~AR~iferAn~~  585 (677)
T KOG1915|consen  559 DEDLAELEITDENIKRARKIFERANTY  585 (677)
T ss_pred             ccchhhhhcchhHHHHHHHHHHHHHHH
Confidence            3           456778888887764

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.42  E-value=2.9e-11  Score=114.69  Aligned_cols=198  Identities=15%  Similarity=0.081  Sum_probs=166.7

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 041741          539 DIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTA  615 (748)
Q Consensus       539 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  615 (748)
                      ....+..+...+...|++++|.+.+++..+   .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            456677788899999999999999987653   356778888999999999999999999999864 4455678888889


Q ss_pred             hcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHH
Q 041741          616 CSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLA  693 (748)
Q Consensus       616 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a  693 (748)
                      +...|++++|...+++.............+..++.++...|++++|...+++..  .+.++..+..+...+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999985432223335567788999999999999999998875  334567788888889999999999


Q ss_pred             HHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          694 KRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       694 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      ...++++++..|.++..+..++.++...|+.++|..+.+.+.+.
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            99999999998988889999999999999999999998887553

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.

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.42  E-value=8.5e-08  Score=94.87  Aligned_cols=551  Identities=14%  Similarity=0.131  Sum_probs=267.2

Q ss_pred             hHHHHHHHhccccCcHHHhHHHHHHHHH-CCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCCCCeehHHHHHHHHHcCC
Q 041741          122 TLASVFKASTALLDVEHGRRCHGLVIKI-GLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTD  200 (748)
Q Consensus       122 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g  200 (748)
                      .|...+..+...|+.......|+..... .+.--..+|...+......|-.+.+.+++++..+.++..-+-.|..++..+
T Consensus       104 Iwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d  183 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSD  183 (835)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcc
Confidence            4444455555566666666666555433 222223456667776777777778888888777766666777788888888


Q ss_pred             CHHHHHHHHHHHHHcC------CCCCcccHHHHHHHHhccCCCCCcchhcccccccccccchhHHHHHHHHhcCCCch--
Q 041741          201 RVVEALEMFRLMIRKA------VSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADL--  272 (748)
Q Consensus       201 ~~~~a~~~~~~m~~~g------~~~~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  272 (748)
                      ++++|-+.+...+...      .+-+...|.-+....++.             .+.........+...+..  .-+|.  
T Consensus       184 ~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~-------------p~~~~slnvdaiiR~gi~--rftDq~g  248 (835)
T KOG2047|consen  184 RLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQN-------------PDKVQSLNVDAIIRGGIR--RFTDQLG  248 (835)
T ss_pred             chHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhC-------------cchhcccCHHHHHHhhcc--cCcHHHH
Confidence            8888888877765432      122223333343333333             111111112222222211  12332  


Q ss_pred             HHHHHHHHHHHhcCChhHHHHHhccCCCC--CcccHHHHHHHHHhcCChhHHHHHHHHHHhc-CCCCChhhHHHHHHHHH
Q 041741          273 HLSNSLLDMYAKNGDMDSAEVIFSNLPER--SVVSWNVMIAGYGQKYQSTKAIELLQRMKSC-GFEPDEVTSINMLVACV  349 (748)
Q Consensus       273 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~ll~~~~  349 (748)
                      ..+.+|.+-|.+.|.++.|.+++++..+.  ++.-|..+..+|++.....-+..+ +...+. |-.-+..          
T Consensus       249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~m-e~a~~~~~n~ed~~----------  317 (835)
T KOG2047|consen  249 FLWCSLADYYIRSGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKM-ELADEESGNEEDDV----------  317 (835)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHH-hhhhhcccChhhhh----------
Confidence            35677788888888888888877765542  233455555555432211111110 000000 1000111          


Q ss_pred             hcCCHHHHHHHhccCCC---------------CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC------HhhHH
Q 041741          350 RSGDIKTGREMFDSMPS---------------PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPD------RTTLA  408 (748)
Q Consensus       350 ~~~~~~~a~~~~~~~~~---------------~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~------~~~~~  408 (748)
                         +++-....|+.+..               .++..|..  +.-+..|+..+....+.+..+. +.|.      ...+.
T Consensus       318 ---dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~k--RV~l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~  391 (835)
T KOG2047|consen  318 ---DLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHK--RVKLYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWV  391 (835)
T ss_pred             ---hHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHh--hhhhhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHH
Confidence               11222222222221               12222222  2223455666666666666553 2332      12234


Q ss_pred             HHHHHhhccCChHHHHHHHHHHHhhcCCch---hHHHHHHHHHHHhcCChHHHHHHHhhCCC-CCcchHHHHHHHHHhCC
Q 041741          409 IILSSCAAMGILESGKQVHAASLKTASHID---NYVASGLIGIYSKCQRNELAERVFHRIPE-LDIVCWNSMIAGLSLNS  484 (748)
Q Consensus       409 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~li~~~~~~~  484 (748)
                      .+.+.|-+.|+++.|..+++...+.....-   ..+|-.-..+=.+..+++.|.++.+.... |....     ..+...+
T Consensus       392 ~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~-----~~~yd~~  466 (835)
T KOG2047|consen  392 EFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPE-----LEYYDNS  466 (835)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchh-----hhhhcCC
Confidence            444555555666666666655555433221   12222222333334444444444444331 11100     0111111


Q ss_pred             CchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhh
Q 041741          485 LDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFD  564 (748)
Q Consensus       485 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  564 (748)
                      .+-++ .+         .-+...|...+..-...|-++....+++.+....+.. +.+.......+-.+.-++++.++++
T Consensus       467 ~pvQ~-rl---------hrSlkiWs~y~DleEs~gtfestk~vYdriidLriaT-Pqii~NyAmfLEeh~yfeesFk~YE  535 (835)
T KOG2047|consen  467 EPVQA-RL---------HRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIAT-PQIIINYAMFLEEHKYFEESFKAYE  535 (835)
T ss_pred             CcHHH-HH---------HHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCC-HHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            11000 00         0122234444444455667778888888888776433 3322233344455667888888888


Q ss_pred             hcCC----CCH-HHHHHHHHHHHHc---CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHh--cCCCChHHHHHHHHHhhh
Q 041741          565 MMHG----KNT-VTWNEMIHGYAQN---GYGDEAVRLYKDMIASGVKPDDITFVAILTAC--SHSGLVDVGVEIFNSMQL  634 (748)
Q Consensus       565 ~~~~----~~~-~~~~~l~~~~~~~---~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~--~~~~~~~~A~~~~~~~~~  634 (748)
                      +-..    |++ ..|+..+.-+.++   ...+.|..+|++.++ |++|...-+..|+-+-  ..-|....|++++++.. 
T Consensus       536 rgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat-  613 (835)
T KOG2047|consen  536 RGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERAT-  613 (835)
T ss_pred             cCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH-
Confidence            7653    444 3577666655542   357889999999988 6777664333332221  34477778888888763 


Q ss_pred             hhCCCCC--hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCHhH---HHHHHHHHHhcCCHHHHHHHHHHHHhc-CCC-
Q 041741          635 DHGVEPI--LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDPVI---WEVLLSSCRLHANVRLAKRAAEELFRL-DPK-  706 (748)
Q Consensus       635 ~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~-~p~-  706 (748)
                       .++++.  ...|+..+.--...=-...-..+|++.. .-|+...   -......-...|..++|..+|.-.-++ +|. 
T Consensus       614 -~~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~  692 (835)
T KOG2047|consen  614 -SAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRV  692 (835)
T ss_pred             -hcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcC
Confidence             233333  2334433321111101111222232221 1122211   122233345567777777777766664 443 


Q ss_pred             CCcchHHHhHHHhhcCC
Q 041741          707 NSAPYSLLANIYSSLGR  723 (748)
Q Consensus       707 ~~~~~~~l~~~~~~~g~  723 (748)
                      ++..+...-..-.+.|+
T Consensus       693 ~~~fW~twk~FEvrHGn  709 (835)
T KOG2047|consen  693 TTEFWDTWKEFEVRHGN  709 (835)
T ss_pred             ChHHHHHHHHHHHhcCC
Confidence            44556666666667777

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.40  E-value=1.4e-09  Score=105.79  Aligned_cols=275  Identities=12%  Similarity=-0.005  Sum_probs=136.2

Q ss_pred             hhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcc---hHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHh
Q 041741          438 DNYVASGLIGIYSKCQRNELAERVFHRIPELDIV---CWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSS  514 (748)
Q Consensus       438 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  514 (748)
                      +..+...-.+-+....++.+..++++.+.+.|+.   .+..-|.++.+.|+..+-..+=.++.+. .+....+|-++.--
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~Y  321 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCY  321 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHH
Confidence            4444445555566666667777666666654443   3444455666666666666555555544 12234455555555


Q ss_pred             hcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHH
Q 041741          515 CAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAV  591 (748)
Q Consensus       515 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~  591 (748)
                      |...|+.++|+.+|......... -...|-...+.|.-.|..++|...+....+   .....+--+..-|.+.++.+.|.
T Consensus       322 Yl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe  400 (611)
T KOG1173|consen  322 YLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAE  400 (611)
T ss_pred             HHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHH
Confidence            55555566666655554443211 122344455555555555555544443322   01111111233344555555555


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhC-CCC----ChhHHHHHHHHHHhcCChHHHHHHHh
Q 041741          592 RLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHG-VEP----ILDHYTCMIDCLGRAGHFHEAEMLID  666 (748)
Q Consensus       592 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~  666 (748)
                      +.|.+.... .+.|+..++-+.-.....+.+.+|..+|+....... +.+    -..++..|+.+|.+.+.+++|+..++
T Consensus       401 ~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q  479 (611)
T KOG1173|consen  401 KFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQ  479 (611)
T ss_pred             HHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHH
Confidence            555555553 123334444444444445555555555554421100 000    12334555555555555555555555


Q ss_pred             hCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHh
Q 041741          667 EMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLA  715 (748)
Q Consensus       667 ~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  715 (748)
                      +..  .+.+..++..++..+...|+++.|.+.+.+++.++|+|..+-..|.
T Consensus       480 ~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  480 KALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLK  530 (611)
T ss_pred             HHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            543  3345555555555555555555555555555555555544444433

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.38  E-value=2.5e-09  Score=99.70  Aligned_cols=287  Identities=10%  Similarity=0.034  Sum_probs=172.0

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHH
Q 041741          382 SENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERV  461 (748)
Q Consensus       382 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  461 (748)
                      .|+|.+|.+++.+-.+.+-.|- ..|..-.++....|+.+.+-.++.++.+....++..+.-.........|+.+.|..-
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 EGDFQQAEKLLRRNAEHGEQPV-LAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchH-HHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            4667777777666555543221 223333455555666666666666665554444444444445555555555555544


Q ss_pred             HhhCCC---CCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCC
Q 041741          462 FHRIPE---LDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVN  538 (748)
Q Consensus       462 ~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  538 (748)
                      +.++.+   .++........+|.+.|++.....++..|.+.|.-.++..-..                            
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~l----------------------------  227 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARL----------------------------  227 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHH----------------------------
Confidence            444332   2344455555666666666666666666666554333221100                            


Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHhhhcC---CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 041741          539 DIFVGSALIEMYCKCGDIYGARQFFDMMH---GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTA  615 (748)
Q Consensus       539 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  615 (748)
                      ...++..+++-....+..+.-...++..+   +.++..-.+++.-+...|+.++|.++.++..+.+..|+..    ..-.
T Consensus       228 e~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~----~~~~  303 (400)
T COG3071         228 EQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLC----RLIP  303 (400)
T ss_pred             HHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH----HHHh
Confidence            11233344444444444444455666655   3467777777888888888889988888888887766622    2234


Q ss_pred             hcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCHhHHHHHHHHHHhcCCHHHHH
Q 041741          616 CSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDPVIWEVLLSSCRLHANVRLAK  694 (748)
Q Consensus       616 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~  694 (748)
                      +.+.++.+.-++..+.-.+..+..|  ..+.+|+..|.+.+.|.+|...++... ..|+...+..+...+.+.|++++|.
T Consensus       304 ~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~  381 (400)
T COG3071         304 RLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAE  381 (400)
T ss_pred             hcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHH
Confidence            5666777766666666555555555  556677777888888888877777654 6677777777777777778877777


Q ss_pred             HHHHHHHhc
Q 041741          695 RAAEELFRL  703 (748)
Q Consensus       695 ~~~~~~~~~  703 (748)
                      ++.++++..
T Consensus       382 ~~r~e~L~~  390 (400)
T COG3071         382 QVRREALLL  390 (400)
T ss_pred             HHHHHHHHH
Confidence            777777653

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.38  E-value=2.5e-07  Score=96.09  Aligned_cols=194  Identities=12%  Similarity=0.156  Sum_probs=116.6

Q ss_pred             HHHHhCCCCCcchhhHHHHHHHccCCchhhhhhhhcCCC--CchhhhhHHHHHhhcCCChhHHHHhhccCCC--------
Q 041741           13 HILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPH--KDIYSWNAILSAQCKSDDLEFAYKLFDEMPE--------   82 (748)
Q Consensus        13 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------   82 (748)
                      ...+-|..|+-.   -+|+...+ -+++.+..+...+++  +...-++.+...+...+-...+...+-...+        
T Consensus       503 Y~kKvGyTPdym---flLq~l~r-~sPD~~~qFa~~l~Q~~~~~~die~I~DlFme~N~iQq~TSFLLdaLK~~~Pd~g~  578 (1666)
T KOG0985|consen  503 YAKKVGYTPDYM---FLLQQLKR-SSPDQALQFAMMLVQDEEPLADIEQIVDLFMELNLIQQCTSFLLDALKLNSPDEGH  578 (1666)
T ss_pred             HHHHcCCCccHH---HHHHHHHc-cChhHHHHHHHHhhccCCCcccHHHHHHHHHHHHhhhhhHHHHHHHhcCCChhhhh
Confidence            345567777733   34555555 567888887777776  3333344444444444443333322211110        


Q ss_pred             -------------CC---------ch---hHHHHHHHHHhcCChhHHHHHHHHHHhC--CCC-CCcchHHHHHHHhcccc
Q 041741           83 -------------RN---------VV---SWNNLISALVRNGLEEKALSVYNKMSNE--GFV-PTHITLASVFKASTALL  134 (748)
Q Consensus        83 -------------~~---------~~---~~~~l~~~~~~~~~~~~a~~~~~~m~~~--~~~-p~~~~~~~ll~~~~~~~  134 (748)
                                   |+         ..   -+..+.+.|.++|-..+|++.|..+..-  -+. .+...-. -+-.+...-
T Consensus       579 LQTrLLE~NL~~aPqVADAILgN~mFtHyDra~IAqLCEKAGL~qraLehytDl~DIKR~vVhth~L~pE-wLv~yFg~l  657 (1666)
T KOG0985|consen  579 LQTRLLEMNLVHAPQVADAILGNDMFTHYDRAEIAQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPE-WLVNYFGSL  657 (1666)
T ss_pred             HHHHHHHHHhccchHHHHHHHhccccccccHHHHHHHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHH-HHHHHHHhc
Confidence                         21         11   2567888899999999999877766431  010 0100111 122333444


Q ss_pred             CcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCC---------------CCeehHHHHHHHHHcC
Q 041741          135 DVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSE---------------PNEVTFTAMMSGLAKT  199 (748)
Q Consensus       135 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---------------~~~~~~~~li~~~~~~  199 (748)
                      .++.+.+++..|...++.-+..+.-.+..-|..+=-.+...++|+....               .|+......|.+.++.
T Consensus       658 sve~s~eclkaml~~NirqNlQi~VQvatky~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt  737 (1666)
T KOG0985|consen  658 SVEDSLECLKAMLSANIRQNLQIVVQVATKYHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKT  737 (1666)
T ss_pred             CHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhh
Confidence            6788889999999988887776666666666666566667777776542               4666667788889999


Q ss_pred             CCHHHHHHHHHH
Q 041741          200 DRVVEALEMFRL  211 (748)
Q Consensus       200 g~~~~a~~~~~~  211 (748)
                      |.+.+...+.++
T Consensus       738 ~QikEvERicre  749 (1666)
T KOG0985|consen  738 GQIKEVERICRE  749 (1666)
T ss_pred             ccHHHHHHHHhc
Confidence            998888877654

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.38  E-value=2.4e-09  Score=104.11  Aligned_cols=452  Identities=12%  Similarity=0.022  Sum_probs=282.6

Q ss_pred             chHHHHHHHHHHHhcCChhHHHHHhccCCC--CCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 041741          271 DLHLSNSLLDMYAKNGDMDSAEVIFSNLPE--RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVAC  348 (748)
Q Consensus       271 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  348 (748)
                      +..-+..+++-+....++..|.-+-+++..  .|+...--+++++.-.|+++.|..++..-.-.  ..|..+......++
T Consensus        15 s~~~~~~~~r~~l~q~~y~~a~f~adkV~~l~~dp~d~~~~aq~l~~~~~y~ra~~lit~~~le--~~d~~cryL~~~~l   92 (611)
T KOG1173|consen   15 SLEKYRRLVRDALMQHRYKTALFWADKVAGLTNDPADIYWLAQVLYLGRQYERAAHLITTYKLE--KRDIACRYLAAKCL   92 (611)
T ss_pred             cHHHHHHHHHHHHHHHhhhHHHHHHHHHHhccCChHHHHHHHHHHHhhhHHHHHHHHHHHhhhh--hhhHHHHHHHHHHH
Confidence            344555666666666666666665555432  45555556677777777777777776654332  34556666666777


Q ss_pred             HhcCCHHHHHHHhccCCC-----------------CCcch----HHHHH-------HHHHccCCHHHHHHHHHHHHHcCC
Q 041741          349 VRSGDIKTGREMFDSMPS-----------------PSVSS----WNAML-------SSYSQSENHKEAIKLFREMQFRGV  400 (748)
Q Consensus       349 ~~~~~~~~a~~~~~~~~~-----------------~~~~~----~~~ll-------~~~~~~~~~~~a~~~~~~m~~~g~  400 (748)
                      .+..+++.|..++.....                 +|..-    -+.-.       ..|....+.++|...+.+....  
T Consensus        93 ~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~--  170 (611)
T KOG1173|consen   93 VKLKEWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALLA--  170 (611)
T ss_pred             HHHHHHHHHHHHhcccchhhcchhhcchhhhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHhc--
Confidence            788888888887773211                 00000    00001       1223334445555555444322  


Q ss_pred             CCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCC----chhHHHHHHHHHHHhcCChHHHHHHH--hhCC--CCCcch
Q 041741          401 KPDRTTLAIILSSCAAMGILESGKQVHAASLKTASH----IDNYVASGLIGIYSKCQRNELAERVF--HRIP--ELDIVC  472 (748)
Q Consensus       401 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~--~~~~--~~~~~~  472 (748)
                        |..-+..+...-.  ...-.+.+.++.+......    .+......+.....-...-+.....-  ..+.  +.++..
T Consensus       171 --D~~c~Ea~~~lvs--~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dl  246 (611)
T KOG1173|consen  171 --DAKCFEAFEKLVS--AHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDL  246 (611)
T ss_pred             --chhhHHHHHHHHH--HHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHH
Confidence              2222222111000  0000111111111110000    01111111111110000000000000  0000  123333


Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHh
Q 041741          473 WNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCK  552 (748)
Q Consensus       473 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  552 (748)
                      ...-..-+...+++.+..+++....+.. ++....+..=|.++...|+..+-..+-..+.+. .|..+.+|-++.-.|..
T Consensus       247 l~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~  324 (611)
T KOG1173|consen  247 LAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLM  324 (611)
T ss_pred             HHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHH
Confidence            4444556677889999999999988753 455555555566777888877766666666654 35567888889888989


Q ss_pred             cCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHH
Q 041741          553 CGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIF  629 (748)
Q Consensus       553 ~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~  629 (748)
                      .|+..+|++.|.+...   .-...|-..+.+|.-.|..++|+..+..+-+. ++-....+-.+.--|.+.+..+.|...|
T Consensus       325 i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff  403 (611)
T KOG1173|consen  325 IGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFF  403 (611)
T ss_pred             hcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHH
Confidence            9999999999998764   34568999999999999999999999888774 2222233445566788899999999999


Q ss_pred             HHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-----CCC----CHhHHHHHHHHHHhcCCHHHHHHHHHH
Q 041741          630 NSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-----CKD----DPVIWEVLLSSCRLHANVRLAKRAAEE  699 (748)
Q Consensus       630 ~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~  699 (748)
                      .+..   ++-|+ +-.+..++-.....+.+.+|..+|+...     ..+    -..++..|+..+++.+.+++|+..+++
T Consensus       404 ~~A~---ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~  480 (611)
T KOG1173|consen  404 KQAL---AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQK  480 (611)
T ss_pred             HHHH---hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHH
Confidence            9875   66665 5566677777788999999999998763     111    245678888999999999999999999


Q ss_pred             HHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          700 LFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       700 ~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      ++.+.|+++.++..+|-+|...|+.+.|.++|.+...
T Consensus       481 aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~  517 (611)
T KOG1173|consen  481 ALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALA  517 (611)
T ss_pred             HHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh
Confidence            9999999999999999999999999999999997543

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.37  E-value=9.3e-08  Score=94.59  Aligned_cols=587  Identities=14%  Similarity=0.116  Sum_probs=340.3

Q ss_pred             chhhhHHHHHHH------HhCCCCCcchhhHHHHHHHccCCchhhhhhhhcCCCCchhhhhHHHHHhhcCCChhHHHHhh
Q 041741            4 HVAGKLLHAHIL------RNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLF   77 (748)
Q Consensus         4 ~~~~~~~~~~~~------~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   77 (748)
                      |+..=.||-.-+      -.+..|+...|..+=+.      ++.+.....+|+    ..|...+..+.+++++..-...|
T Consensus        56 lp~sykiW~~YL~~R~~~vk~~~~T~~~~~~vn~c------~er~lv~mHkmp----RIwl~Ylq~l~~Q~~iT~tR~tf  125 (835)
T KOG2047|consen   56 LPGSYKIWYDYLKARRAQVKHLCPTDPAYESVNNC------FERCLVFMHKMP----RIWLDYLQFLIKQGLITRTRRTF  125 (835)
T ss_pred             CCCchHHHHHHHHHHHHHhhccCCCChHHHHHHHH------HHHHHHHHhcCC----HHHHHHHHHHHhcchHHHHHHHH
Confidence            344444555444      22556665555544332      445667777776    57888888999999999999888


Q ss_pred             ccCCC-----CCchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHC--
Q 041741           78 DEMPE-----RNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIG--  150 (748)
Q Consensus        78 ~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--  150 (748)
                      ++...     .....|...+.-...++-++-+..+|++-++  +.|  ..-.-.+..++..++.++|.+.+.......  
T Consensus       126 drALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk--~~P--~~~eeyie~L~~~d~~~eaa~~la~vln~d~f  201 (835)
T KOG2047|consen  126 DRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLK--VAP--EAREEYIEYLAKSDRLDEAAQRLATVLNQDEF  201 (835)
T ss_pred             HHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHh--cCH--HHHHHHHHHHHhccchHHHHHHHHHhcCchhh
Confidence            87653     3445688888888888888889999998876  334  346677888888999999988887776542  


Q ss_pred             ----CCCcHhHHHHHHHHHHhcCC---hhhHHHHHhcCCC--CC--eehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC
Q 041741          151 ----LDKNIYVANALLSLYAKCGW---TKHAVPVFEEMSE--PN--EVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSI  219 (748)
Q Consensus       151 ----~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~--~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~  219 (748)
                          .+.+...|.-+-+..++.-+   --.+..+++.+..  +|  ...|..|...|.+.|.+++|.++|++..+.  ..
T Consensus       202 ~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~  279 (835)
T KOG2047|consen  202 VSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT--VM  279 (835)
T ss_pred             hhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh--he
Confidence                35556667766666655432   2234445555543  33  236889999999999999999999998775  34


Q ss_pred             CcccHHHHHHHHhccCCCCCcchhcccccccccccchhHHHH-HHH----HhcCCCchHHHHHHHHHHHhcCChhHHHHH
Q 041741          220 DSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHC-LTI----KLGFEADLHLSNSLLDMYAKNGDMDSAEVI  294 (748)
Q Consensus       220 ~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~----~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  294 (748)
                      ....|..+.++|+...                     +.... .|.    +.+-+-+.             -+++-....
T Consensus       280 tvrDFt~ifd~Ya~FE---------------------E~~~~~~me~a~~~~~n~ed~-------------~dl~~~~a~  325 (835)
T KOG2047|consen  280 TVRDFTQIFDAYAQFE---------------------ESCVAAKMELADEESGNEEDD-------------VDLELHMAR  325 (835)
T ss_pred             ehhhHHHHHHHHHHHH---------------------HHHHHHHHhhhhhcccChhhh-------------hhHHHHHHH
Confidence            5556777888876651                     11111 111    01111111             112222222


Q ss_pred             hccCCC---------------CCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCC------hhhHHHHHHHHHhcCC
Q 041741          295 FSNLPE---------------RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPD------EVTSINMLVACVRSGD  353 (748)
Q Consensus       295 ~~~~~~---------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~------~~~~~~ll~~~~~~~~  353 (748)
                      |+.+..               .++..|..-  .-+..|+..+-+..+.+.... +.|.      ...+..+...|-..|+
T Consensus       326 ~e~lm~rr~~~lNsVlLRQn~~nV~eW~kR--V~l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~  402 (835)
T KOG2047|consen  326 FESLMNRRPLLLNSVLLRQNPHNVEEWHKR--VKLYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGD  402 (835)
T ss_pred             HHHHHhccchHHHHHHHhcCCccHHHHHhh--hhhhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCc
Confidence            333221               122233332  334566777777777777653 2221      2346667778888999


Q ss_pred             HHHHHHHhccCCCCCc-------chHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHH
Q 041741          354 IKTGREMFDSMPSPSV-------SSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQV  426 (748)
Q Consensus       354 ~~~a~~~~~~~~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~  426 (748)
                      ++.|..+|++....+-       .+|......=.+..+++.|+++++....   .|....    + .+...+.+-.+   
T Consensus       403 l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~---vP~~~~----~-~~yd~~~pvQ~---  471 (835)
T KOG2047|consen  403 LDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATH---VPTNPE----L-EYYDNSEPVQA---  471 (835)
T ss_pred             HHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhc---CCCchh----h-hhhcCCCcHHH---
Confidence            9999999998876333       2344444455566778888887776543   343322    1 11111111111   


Q ss_pred             HHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHH---HHHhCCCchHHHHHHHHHHHCCCCC
Q 041741          427 HAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIA---GLSLNSLDIEAFMFFKQMRQNEMYP  503 (748)
Q Consensus       427 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~---~~~~~~~~~~a~~~~~~m~~~~~~p  503 (748)
                             .+..+..++...++.--..|-++....+++++.+.-+.+=..+++   .+-.+.-++++.++|++-+..=..|
T Consensus       472 -------rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p  544 (835)
T KOG2047|consen  472 -------RLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWP  544 (835)
T ss_pred             -------HHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCc
Confidence                   011133444445555555666677777777776543333222222   2233444567777776555443345


Q ss_pred             CHH----HHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchH--HHHHHHHHHHhcCCHHHHHHHhhhcCCC-----CHH
Q 041741          504 TQF----SFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIF--VGSALIEMYCKCGDIYGARQFFDMMHGK-----NTV  572 (748)
Q Consensus       504 ~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~  572 (748)
                      +..    ||....-.-.....++.|..+|++..+ |.+|...  +|-.....=.+.|-...|.+++++....     -..
T Consensus       545 ~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~  623 (835)
T KOG2047|consen  545 NVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLD  623 (835)
T ss_pred             cHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHH
Confidence            443    232222222334567888888888877 6555321  1222222223457778888888876642     234


Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH---HhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHH
Q 041741          573 TWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILT---ACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMI  649 (748)
Q Consensus       573 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~---~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  649 (748)
                      .||+.|.-....=-+.....+|++.++.  -|+...-...++   .=.+.|..+.|..++....+-..-..+...|...=
T Consensus       624 myni~I~kaae~yGv~~TR~iYekaIe~--Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk  701 (835)
T KOG2047|consen  624 MYNIYIKKAAEIYGVPRTREIYEKAIES--LPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWK  701 (835)
T ss_pred             HHHHHHHHHHHHhCCcccHHHHHHHHHh--CChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHH
Confidence            5777666554444456677788888884  566654333333   22567888888888776532222233355666666


Q ss_pred             HHHHhcCChHHHHHH
Q 041741          650 DCLGRAGHFHEAEML  664 (748)
Q Consensus       650 ~~~~~~g~~~~A~~~  664 (748)
                      ..=.+.|+-+.-.++
T Consensus       702 ~FEvrHGnedT~keM  716 (835)
T KOG2047|consen  702 EFEVRHGNEDTYKEM  716 (835)
T ss_pred             HHHHhcCCHHHHHHH
Confidence            666777874443333

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.36  E-value=5.9e-09  Score=95.15  Aligned_cols=153  Identities=15%  Similarity=0.136  Sum_probs=101.4

Q ss_pred             HHHHHHHhhhcCC-----CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHH
Q 041741          556 IYGARQFFDMMHG-----KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFN  630 (748)
Q Consensus       556 ~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~  630 (748)
                      +.-|.+.|+-.-+     ..+..-.++...+.-..++++++.+++....- +..|....-.+.++.+..|.+.+|.++|-
T Consensus       339 lKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sY-F~NdD~Fn~N~AQAk~atgny~eaEelf~  417 (557)
T KOG3785|consen  339 LKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESY-FTNDDDFNLNLAQAKLATGNYVEAEELFI  417 (557)
T ss_pred             HHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCcchhhhHHHHHHHHhcChHHHHHHHh
Confidence            3445555544332     22333445666666677788888888887775 33344334456788888899999999987


Q ss_pred             HhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCCHhHH-HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 041741          631 SMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIW-EVLLSSCRLHANVRLAKRAAEELFRLDPKNSA  709 (748)
Q Consensus       631 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  709 (748)
                      ++ ....++-+.--...++++|.+.|.++-|++++-++..+.+...+ ..+...|...+++=-|-..+..+-.++| +|.
T Consensus       418 ~i-s~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP-~pE  495 (557)
T KOG3785|consen  418 RI-SGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDP-TPE  495 (557)
T ss_pred             hh-cChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCC-Ccc
Confidence            77 33333333333456788999999999999998888733344343 4445568888888888888888888888 554


Q ss_pred             ch
Q 041741          710 PY  711 (748)
Q Consensus       710 ~~  711 (748)
                      .+
T Consensus       496 nW  497 (557)
T KOG3785|consen  496 NW  497 (557)
T ss_pred             cc
Confidence            43

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.36  E-value=7.6e-09  Score=98.74  Aligned_cols=218  Identities=11%  Similarity=0.000  Sum_probs=169.8

Q ss_pred             HhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHH
Q 041741          481 SLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGAR  560 (748)
Q Consensus       481 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  560 (748)
                      .-.|+.-.|..-|+..+.....++.. |..+...|....+.++....|......+ +-++.+|..-.+++.-.+++++|.
T Consensus       337 fL~g~~~~a~~d~~~~I~l~~~~~~l-yI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~  414 (606)
T KOG0547|consen  337 FLKGDSLGAQEDFDAAIKLDPAFNSL-YIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAI  414 (606)
T ss_pred             hhcCCchhhhhhHHHHHhcCcccchH-HHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHH
Confidence            44678888888899888764443332 7777788889999999999999888765 446777888888888899999999


Q ss_pred             HHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhC
Q 041741          561 QFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHG  637 (748)
Q Consensus       561 ~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  637 (748)
                      .-|++..+   .++..|-.+..+..+.+++++++..|++.+.. ++.-...|+.....+..++++++|.+.|+...   .
T Consensus       415 aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai---~  490 (606)
T KOG0547|consen  415 ADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAI---E  490 (606)
T ss_pred             HHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHH---h
Confidence            99998875   35566777777777889999999999999986 56666889999999999999999999999874   2


Q ss_pred             CCCC-------hhHHH--HHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          638 VEPI-------LDHYT--CMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       638 ~~~~-------~~~~~--~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      +.|+       ...+.  .++-.-. .+++..|..++++.. ..| ....+..+...-.+.|+.++|+++|++...+..
T Consensus       491 LE~~~~~~~v~~~plV~Ka~l~~qw-k~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~lAr  568 (606)
T KOG0547|consen  491 LEPREHLIIVNAAPLVHKALLVLQW-KEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQLAR  568 (606)
T ss_pred             hccccccccccchhhhhhhHhhhch-hhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            2333       22221  2222222 389999999999885 444 456788888889999999999999999887643

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.36  E-value=1.2e-08  Score=95.21  Aligned_cols=274  Identities=10%  Similarity=-0.050  Sum_probs=199.5

Q ss_pred             CCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHH---HHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHH
Q 041741          435 SHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSM---IAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATV  511 (748)
Q Consensus       435 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l---i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  511 (748)
                      ++.+......+..++...|+...|+..|++....|+.+...|   ...+...|+.+....+...+....- -+..-|-.-
T Consensus       228 lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~-~ta~~wfV~  306 (564)
T KOG1174|consen  228 LRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVK-YTASHWFVH  306 (564)
T ss_pred             CCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhh-cchhhhhhh
Confidence            344666778888888899999999999988887666554332   3345567888777777766654321 111122222


Q ss_pred             HHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcC--C-CCHHHHHHHHHHHHHcCChh
Q 041741          512 LSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMH--G-KNTVTWNEMIHGYAQNGYGD  588 (748)
Q Consensus       512 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~-~~~~~~~~l~~~~~~~~~~~  588 (748)
                      .......++++.|..+-+...+.. +.+...+-.-..++...|+.++|.-.|+...  . .+..+|..|+.+|...|++.
T Consensus       307 ~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~k  385 (564)
T KOG1174|consen  307 AQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFK  385 (564)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHH
Confidence            223345567778877777766554 2234444444466778899999999998765  3 47889999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHH-HHhc-CCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHH
Q 041741          589 EAVRLYKDMIASGVKPDDITFVAIL-TACS-HSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLI  665 (748)
Q Consensus       589 ~a~~~~~~m~~~~~~p~~~~~~~l~-~~~~-~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~  665 (748)
                      +|.-+-+..... ++.+..++..+. ..|. ....-++|..++++..   .+.|+ ......+++.+...|..++++.++
T Consensus       386 EA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L---~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LL  461 (564)
T KOG1174|consen  386 EANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSL---KINPIYTPAVNLIAELCQVEGPTKDIIKLL  461 (564)
T ss_pred             HHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhh---ccCCccHHHHHHHHHHHHhhCccchHHHHH
Confidence            999988887775 456666776663 3443 3344678999988764   56777 556778899999999999999999


Q ss_pred             hhCC-CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHH
Q 041741          666 DEMP-CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLL  714 (748)
Q Consensus       666 ~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  714 (748)
                      ++.. ..||......|...+...+.+.+|...|..+++++|+|-.+..-|
T Consensus       462 e~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~~sl~Gl  511 (564)
T KOG1174|consen  462 EKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSKRTLRGL  511 (564)
T ss_pred             HHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccchHHHHHH
Confidence            8875 778999999999999999999999999999999999874444333

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.35  E-value=1.6e-09  Score=101.06  Aligned_cols=277  Identities=14%  Similarity=0.090  Sum_probs=196.3

Q ss_pred             cCChHHHHHHHhhCCCC---CcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHH
Q 041741          452 CQRNELAERVFHRIPEL---DIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVH  528 (748)
Q Consensus       452 ~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  528 (748)
                      .|++..|++...+..+.   ....|..-..+....|+.+.+-.++.+..+..-.++.....+........|+.+.|..-+
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            45555555555544332   222344444556667777777777777765533555556666666777778888887777


Q ss_pred             HHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCC-----------CHHHHHHHHHHHHHcCChhHHHHHHHHH
Q 041741          529 AQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGK-----------NTVTWNEMIHGYAQNGYGDEAVRLYKDM  597 (748)
Q Consensus       529 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~m  597 (748)
                      +.+.+.+ +-.+.......++|.+.|++.....++..+.+.           ...+|+.+++-....+..+.-...|+..
T Consensus       177 ~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         177 DQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            7777665 335666677778888888888888888877652           1235666776666666666666777776


Q ss_pred             HHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHh
Q 041741          598 IASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPV  675 (748)
Q Consensus       598 ~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~  675 (748)
                      -.+ .+-++..-..++.-+...|+.++|.++.+... +....|+   ...++ ...+-++...=.+..+...  .+.+|.
T Consensus       256 pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~L-k~~~D~~---L~~~~-~~l~~~d~~~l~k~~e~~l~~h~~~p~  329 (400)
T COG3071         256 PRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDAL-KRQWDPR---LCRLI-PRLRPGDPEPLIKAAEKWLKQHPEDPL  329 (400)
T ss_pred             cHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHH-HhccChh---HHHHH-hhcCCCCchHHHHHHHHHHHhCCCChh
Confidence            654 45566667777888889999999999988874 4455665   22222 2345566665555555442  456778


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          676 IWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       676 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .+..|+..|.+.+.+.+|...++.++...| +...+..++.++.+.|+.++|.+.+++...
T Consensus       330 L~~tLG~L~~k~~~w~kA~~~leaAl~~~~-s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         330 LLSTLGRLALKNKLWGKASEALEAALKLRP-SASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhcCC-ChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            899999999999999999999999999999 889999999999999999999999998764

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.33  E-value=2.7e-08  Score=100.71  Aligned_cols=392  Identities=15%  Similarity=0.106  Sum_probs=219.6

Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHhccCCC---CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC-CHhhHHH
Q 041741          334 FEPDEVTSINMLVACVRSGDIKTGREMFDSMPS---PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKP-DRTTLAI  409 (748)
Q Consensus       334 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~  409 (748)
                      +..|...|..+.-++.+.|+++.+-+.|++...   .....|..+...+...|.-..|..+++.-....-.| +...+..
T Consensus       319 ~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lm  398 (799)
T KOG4162|consen  319 FQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLM  398 (799)
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHH
Confidence            444555555555566666666666666655543   333445556666666666666666665544332122 2222322


Q ss_pred             HHHHhh-ccCChHHHHHHHHHHHhhc----CCchhHHHHHHHHHHHhc----C-------ChHHHHHHHhhCCCC---Cc
Q 041741          410 ILSSCA-AMGILESGKQVHAASLKTA----SHIDNYVASGLIGIYSKC----Q-------RNELAERVFHRIPEL---DI  470 (748)
Q Consensus       410 ll~~~~-~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~----~-------~~~~a~~~~~~~~~~---~~  470 (748)
                      .-+.|. +.+..+++..+...++...    ....+..+..+.-+|...    .       ...++...+++..+.   |+
T Consensus       399 asklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp  478 (799)
T KOG4162|consen  399 ASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTDP  478 (799)
T ss_pred             HHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCc
Confidence            233333 3345555555444444411    111222222232233221    1       123445555555432   22


Q ss_pred             chHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHh-CCCCchHHHHHHHHH
Q 041741          471 VCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKD-GYVNDIFVGSALIEM  549 (748)
Q Consensus       471 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~  549 (748)
                      ...--+.--|+..++.+.|++..++..+-+...+...|..+.-.+...+++..|..+.+..... |....  ....-++.
T Consensus       479 ~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~--l~~~~~~i  556 (799)
T KOG4162|consen  479 LVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHV--LMDGKIHI  556 (799)
T ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhh--hchhhhhh
Confidence            2222233345666777777777777777655666677777777777777777777777665443 21000  00000111


Q ss_pred             HHhcCCHHHHHHHhh--------------------------hcC----C--CCHHHHHHHHHHHHHcC---ChhHHHHHH
Q 041741          550 YCKCGDIYGARQFFD--------------------------MMH----G--KNTVTWNEMIHGYAQNG---YGDEAVRLY  594 (748)
Q Consensus       550 ~~~~g~~~~A~~~~~--------------------------~~~----~--~~~~~~~~l~~~~~~~~---~~~~a~~~~  594 (748)
                      -..-++.++|.....                          .+.    +  ..+.++..+.......+   ..+..    
T Consensus       557 ~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~----  632 (799)
T KOG4162|consen  557 ELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELK----  632 (799)
T ss_pred             hhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccc----
Confidence            111233333322211                          111    0  01122222221111111   11111    


Q ss_pred             HHHHHcCCC--CCH------HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHH
Q 041741          595 KDMIASGVK--PDD------ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCLGRAGHFHEAEMLI  665 (748)
Q Consensus       595 ~~m~~~~~~--p~~------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~  665 (748)
                        +...-+.  |+.      ..|......+...+..++|...+.+..   ++.| ....|...+..+...|.+.+|.+.|
T Consensus       633 --Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~---~~~~l~~~~~~~~G~~~~~~~~~~EA~~af  707 (799)
T KOG4162|consen  633 --LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEAS---KIDPLSASVYYLRGLLLEVKGQLEEAKEAF  707 (799)
T ss_pred             --cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHH---hcchhhHHHHHHhhHHHHHHHhhHHHHHHH
Confidence              1111111  221      235566667788888999988877763   3333 3666778888999999999999998


Q ss_pred             hhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHH--HHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          666 DEMP-CKD-DPVIWEVLLSSCRLHANVRLAKR--AAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       666 ~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .... ..| .+....+++..+...|+..-|..  .+..+++++|.++.+++.||.++.+.|+.++|.+.|.-..+
T Consensus       708 ~~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~q  782 (799)
T KOG4162|consen  708 LVALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQ  782 (799)
T ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHh
Confidence            8775 455 57788889999999998888888  99999999999999999999999999999999999987654

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.33  E-value=2.2e-09  Score=96.84  Aligned_cols=270  Identities=11%  Similarity=0.025  Sum_probs=150.9

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCch---hHHHHHHHHHHHhcCChHHH
Q 041741          382 SENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHID---NYVASGLIGIYSKCQRNELA  458 (748)
Q Consensus       382 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a  458 (748)
                      .++.++|.++|-+|.+. -+.+..+-.++-+.+.+.|..|.|..+...+.++..-+.   ......|..-|...|-++.|
T Consensus        48 s~Q~dKAvdlF~e~l~~-d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQE-DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhc-CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            45666777777666653 122223334444556666666666666665554332221   12233455555666666666


Q ss_pred             HHHHhhCCCCCc---chHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhC
Q 041741          459 ERVFHRIPELDI---VCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDG  535 (748)
Q Consensus       459 ~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  535 (748)
                      +.+|..+.+...   ...-.|+..|-...+|++|++.-.++.+.+..+...-.                           
T Consensus       127 E~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eI---------------------------  179 (389)
T COG2956         127 EDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEI---------------------------  179 (389)
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHH---------------------------
Confidence            666655554222   23344555555555666666555555544333322111                           


Q ss_pred             CCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCC---HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 041741          536 YVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKN---TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAI  612 (748)
Q Consensus       536 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  612 (748)
                          ...|..+...+....+++.|..++.+..+.|   +..--.+.+.+...|++..|++.|+...+.+..--..+...|
T Consensus       180 ----AqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L  255 (389)
T COG2956         180 ----AQFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEML  255 (389)
T ss_pred             ----HHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHH
Confidence                1234445555556667777777777665432   233334567777788888888888888776433334567777


Q ss_pred             HHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHH-HhhCCCCCCHhHHHHHHHHHHh
Q 041741          613 LTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEML-IDEMPCKDDPVIWEVLLSSCRL  686 (748)
Q Consensus       613 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~~~~~~~~~l~~~~~~  686 (748)
                      ..+|...|+.++....+.++.   ...+....-..+.+.-....-.+.|... .+.+..+|+...+..++..-..
T Consensus       256 ~~~Y~~lg~~~~~~~fL~~~~---~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~  327 (389)
T COG2956         256 YECYAQLGKPAEGLNFLRRAM---ETNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLA  327 (389)
T ss_pred             HHHHHHhCCHHHHHHHHHHHH---HccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhc
Confidence            778888888888877777764   2334444444455544444444444444 4445567777777777766443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.32  E-value=1.7e-08  Score=98.83  Aligned_cols=434  Identities=13%  Similarity=0.113  Sum_probs=261.6

Q ss_pred             HHHHHHhcCChhHHHHHhccCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHH--HHHHH--Hh
Q 041741          278 LLDMYAKNGDMDSAEVIFSNLPE---RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSIN--MLVAC--VR  350 (748)
Q Consensus       278 li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~--ll~~~--~~  350 (748)
                      =++.+...|++++|.+....+..   .+...+..-+-++++.+.+++|+.+.+.-..      ..+++.  +=.+|  .+
T Consensus        18 ~ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~------~~~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   18 DLNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGA------LLVINSFFFEKAYCEYR   91 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch------hhhcchhhHHHHHHHHH
Confidence            35566788899999988887765   3556788888889999999999966554221      112222  23444  47


Q ss_pred             cCCHHHHHHHhccCCCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHH-HHHHHhhccCChHHHHHHHHH
Q 041741          351 SGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLA-IILSSCAAMGILESGKQVHAA  429 (748)
Q Consensus       351 ~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~-~ll~~~~~~~~~~~a~~~~~~  429 (748)
                      .+..++|...++.....+..+...-...+.+.|++++|+++++.+.+++..-...-.. .++.+-..    -.+.  ...
T Consensus        92 lnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~----l~~~--~~q  165 (652)
T KOG2376|consen   92 LNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAA----LQVQ--LLQ  165 (652)
T ss_pred             cccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh----hhHH--HHH
Confidence            8999999999996666665566666788899999999999999998775432222111 11111110    0000  011


Q ss_pred             HHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCC--------CCCcc----------hHHHHHHHHHhCCCchHHHH
Q 041741          430 SLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIP--------ELDIV----------CWNSMIAGLSLNSLDIEAFM  491 (748)
Q Consensus       430 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--------~~~~~----------~~~~li~~~~~~~~~~~a~~  491 (748)
                      ........+...+-.....+...|++..|+++++...        +.|..          .-.-+...+...|+.++|.+
T Consensus       166 ~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~  245 (652)
T KOG2376|consen  166 SVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASS  245 (652)
T ss_pred             hccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence            1111111122333334556778999999999998772        11111          12234456778999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHH---hhcCCCCchh--HHHHHHHHHH-----------hCCCCchHHHHHHHHHHHhcCC
Q 041741          492 FFKQMRQNEMYPTQFSFATVLS---SCAKLSSSFQ--GRQVHAQIEK-----------DGYVNDIFVGSALIEMYCKCGD  555 (748)
Q Consensus       492 ~~~~m~~~~~~p~~~~~~~l~~---~~~~~~~~~~--a~~~~~~~~~-----------~~~~~~~~~~~~l~~~~~~~g~  555 (748)
                      ++...++.. ++|........+   +.....++..  +...++....           ....-.+..-+.++..  -.+.
T Consensus       246 iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l--~tnk  322 (652)
T KOG2376|consen  246 IYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLAL--FTNK  322 (652)
T ss_pred             HHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH--Hhhh
Confidence            999998875 344433332222   2222222222  1111111100           0000011111222332  2456


Q ss_pred             HHHHHHHhhhcCCCC-HHHHHHHHHHH-H-HcCChhHHHHHHHHHHHcCCCCCH--HHHHHHHHHhcCCCChHHHHHHHH
Q 041741          556 IYGARQFFDMMHGKN-TVTWNEMIHGY-A-QNGYGDEAVRLYKDMIASGVKPDD--ITFVAILTACSHSGLVDVGVEIFN  630 (748)
Q Consensus       556 ~~~A~~~~~~~~~~~-~~~~~~l~~~~-~-~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~~~~~~A~~~~~  630 (748)
                      -+.+.++........ ...+.+++..+ . +...+..+.+++...-+.  .|..  ...-..+......|+++.|++++.
T Consensus       323 ~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~~il~  400 (652)
T KOG2376|consen  323 MDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVALEILS  400 (652)
T ss_pred             HHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            667777777666533 23344444332 2 223577788888887775  3433  445556667788999999999998


Q ss_pred             --------HhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--------CCCC-HhHHHHHHHHHHhcCCHHHH
Q 041741          631 --------SMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--------CKDD-PVIWEVLLSSCRLHANVRLA  693 (748)
Q Consensus       631 --------~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~-~~~~~~l~~~~~~~~~~~~a  693 (748)
                              .+ .+.+..|  .+...+...+.+.++.+-|..++.+..        ..+. ...+..+...-.+.|+-++|
T Consensus       401 ~~~~~~~ss~-~~~~~~P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea  477 (652)
T KOG2376|consen  401 LFLESWKSSI-LEAKHLP--GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEA  477 (652)
T ss_pred             HHhhhhhhhh-hhhccCh--hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHH
Confidence                    44 3444455  445668888888888777777666552        1221 23444555555677999999


Q ss_pred             HHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHH
Q 041741          694 KRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRE  732 (748)
Q Consensus       694 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  732 (748)
                      ...++++++.+|++..++..+..+|.... .+.|..+=+
T Consensus       478 ~s~leel~k~n~~d~~~l~~lV~a~~~~d-~eka~~l~k  515 (652)
T KOG2376|consen  478 SSLLEELVKFNPNDTDLLVQLVTAYARLD-PEKAESLSK  515 (652)
T ss_pred             HHHHHHHHHhCCchHHHHHHHHHHHHhcC-HHHHHHHhh
Confidence            99999999999999999999998887663 466665544

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.31  E-value=2e-09  Score=97.11  Aligned_cols=229  Identities=12%  Similarity=0.089  Sum_probs=155.5

Q ss_pred             HHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCC--------HHHHHHHHHHHHH
Q 041741          512 LSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKN--------TVTWNEMIHGYAQ  583 (748)
Q Consensus       512 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--------~~~~~~l~~~~~~  583 (748)
                      ..-|...|-+++|..+|..+...+ .........|+..|-+..+|++|.+.-+++.+-+        ...|.-|...+..
T Consensus       114 ~~Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~  192 (389)
T COG2956         114 GRDYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALA  192 (389)
T ss_pred             HHHHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhh
Confidence            334444555555555555544432 2233444566677777777777777666554311        1235556677777


Q ss_pred             cCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHH
Q 041741          584 NGYGDEAVRLYKDMIASGVKPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAE  662 (748)
Q Consensus       584 ~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  662 (748)
                      ..+.+.|..++.+..+.+  |+. ..-..+.+.....|+++.|++.++... .....--..+...|..+|...|+.++..
T Consensus       193 ~~~~d~A~~~l~kAlqa~--~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~-eQn~~yl~evl~~L~~~Y~~lg~~~~~~  269 (389)
T COG2956         193 SSDVDRARELLKKALQAD--KKCVRASIILGRVELAKGDYQKAVEALERVL-EQNPEYLSEVLEMLYECYAQLGKPAEGL  269 (389)
T ss_pred             hhhHHHHHHHHHHHHhhC--ccceehhhhhhHHHHhccchHHHHHHHHHHH-HhChHHHHHHHHHHHHHHHHhCCHHHHH
Confidence            889999999999999964  444 344566778899999999999999984 3332233567788999999999999999


Q ss_pred             HHHhhCC-CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHh---hcCChHHHHHHHHHHHhcC
Q 041741          663 MLIDEMP-CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYS---SLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       663 ~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~---~~g~~~~A~~~~~~~~~~~  738 (748)
                      .++.++. ..+.+.....+........=.+.|...+.+-+...| +......|.....   ..|.+.+.+..++.|....
T Consensus       270 ~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~P-t~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~  348 (389)
T COG2956         270 NFLRRAMETNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKP-TMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQ  348 (389)
T ss_pred             HHHHHHHHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCC-cHHHHHHHHHhhhccccccchhhhHHHHHHHHHHH
Confidence            9998875 556666665666554444446678888888888899 4444455544442   3356888888999998877


Q ss_pred             CCCCCCC
Q 041741          739 IVKDPAY  745 (748)
Q Consensus       739 ~~~~~~~  745 (748)
                      ++..|.|
T Consensus       349 l~~~~~Y  355 (389)
T COG2956         349 LRRKPRY  355 (389)
T ss_pred             HhhcCCc
Confidence            7777754

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.30  E-value=1.8e-10  Score=98.86  Aligned_cols=160  Identities=16%  Similarity=0.120  Sum_probs=117.5

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHH
Q 041741          574 WNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDC  651 (748)
Q Consensus       574 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~  651 (748)
                      ...|.-.|...|+...|..-+++.++.  .|+. .++..+...|.+.|..+.|.+.|++..   .+.|+ -+..+..+.-
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAl---sl~p~~GdVLNNYG~F  112 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKAL---SLAPNNGDVLNNYGAF  112 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHH---hcCCCccchhhhhhHH
Confidence            344666777788888888888887775  3444 567777777778888888888877764   44454 4567777777


Q ss_pred             HHhcCChHHHHHHHhhCCCCC----CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHH
Q 041741          652 LGRAGHFHEAEMLIDEMPCKD----DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDL  727 (748)
Q Consensus       652 ~~~~g~~~~A~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  727 (748)
                      +|..|++++|...|++....|    -+.+|..++.+..+.|+++.|.+.++++++.+|+++.+...++..+++.|++-.|
T Consensus       113 LC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         113 LCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHH
Confidence            788888888888887775333    2567777777777788888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHhcC
Q 041741          728 RAVRELMSENC  738 (748)
Q Consensus       728 ~~~~~~~~~~~  738 (748)
                      ..+++....++
T Consensus       193 r~~~~~~~~~~  203 (250)
T COG3063         193 RLYLERYQQRG  203 (250)
T ss_pred             HHHHHHHHhcc
Confidence            88877765544

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.30  E-value=1.9e-08  Score=101.72  Aligned_cols=428  Identities=14%  Similarity=0.058  Sum_probs=241.8

Q ss_pred             cCCCchHHHHHHHHHHHhcCChhHHHHHhccCCCC---CcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHH
Q 041741          267 GFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPER---SVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSIN  343 (748)
Q Consensus       267 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  343 (748)
                      .+..+..+|..|.-+...+|+++.+.+.|+....-   ....|+.+...+...|.-..|..+++.-......|+..+...
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            34567777777777888888888888888776542   334677777777777777778777776554433344444333


Q ss_pred             HHH-HHH-hcCCHHHHHHHhccCCC--------CCcchHHHHHHHHHcc----C-------CHHHHHHHHHHHHHcCCCC
Q 041741          344 MLV-ACV-RSGDIKTGREMFDSMPS--------PSVSSWNAMLSSYSQS----E-------NHKEAIKLFREMQFRGVKP  402 (748)
Q Consensus       344 ll~-~~~-~~~~~~~a~~~~~~~~~--------~~~~~~~~ll~~~~~~----~-------~~~~a~~~~~~m~~~g~~p  402 (748)
                      ++. .|. +.+..+++++.-.++..        ..+..|..+.-+|...    .       ...++++.+++..+.+ .-
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 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD-PT  476 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC-CC
Confidence            333 222 34555554443322221        2233333333333211    1       1234555566655542 11


Q ss_pred             CHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHH---HHHH
Q 041741          403 DRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNS---MIAG  479 (748)
Q Consensus       403 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---li~~  479 (748)
                      |+.....+---++-.++++.|........+.+...+...+..++-++...+++.+|+.+.+...+.-...++.   -+..
T Consensus       477 dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i  556 (799)
T KOG4162|consen  477 DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHI  556 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhh
Confidence            2222222223344556666677666666666555566666666666666666666666665544221111111   1111


Q ss_pred             HHhCCCchHHHHHHHHHHHC--CCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCC--chHHHHHHH---HHHHh
Q 041741          480 LSLNSLDIEAFMFFKQMRQN--EMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVN--DIFVGSALI---EMYCK  552 (748)
Q Consensus       480 ~~~~~~~~~a~~~~~~m~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~---~~~~~  552 (748)
                      -..-++.++++.....+..-  ...+-..+           ++-.........+.-.-..|  .+.++..+.   ..-.+
T Consensus       557 ~~~~~~~e~~l~t~~~~L~~we~~~~~q~~-----------~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~  625 (799)
T KOG4162|consen  557 ELTFNDREEALDTCIHKLALWEAEYGVQQT-----------LDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLK  625 (799)
T ss_pred             hhhcccHHHHHHHHHHHHHHHHhhhhHhhh-----------hhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhh
Confidence            12234444444444443321  00000000           00000111111110000011  112222221   11111


Q ss_pred             cCCHHHHHHHhhhcCCCC------HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHH
Q 041741          553 CGDIYGARQFFDMMHGKN------TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGV  626 (748)
Q Consensus       553 ~g~~~~A~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~  626 (748)
                      .-.++.....+.....|+      ...|......+.+.++.++|...+.+.... .+-....|......+...|.+++|.
T Consensus       626 ~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~  704 (799)
T KOG4162|consen  626 SAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAK  704 (799)
T ss_pred             hcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHH
Confidence            112222222222222333      235666777888899999999898888875 3445567778888889999999999


Q ss_pred             HHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHH--HHhhCC-C-CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 041741          627 EIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEM--LIDEMP-C-KDDPVIWEVLLSSCRLHANVRLAKRAAEELF  701 (748)
Q Consensus       627 ~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~--~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  701 (748)
                      +.|....   .+.|+ +.+...++.++.+.|+..-|..  ++..+. . +.++..|..++..+...||.++|.+.|..++
T Consensus       705 ~af~~Al---~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~  781 (799)
T KOG4162|consen  705 EAFLVAL---ALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAAL  781 (799)
T ss_pred             HHHHHHH---hcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHH
Confidence            9998764   66776 7788899999999998887777  777775 4 4468999999999999999999999999999


Q ss_pred             hcCCCCCcc
Q 041741          702 RLDPKNSAP  710 (748)
Q Consensus       702 ~~~p~~~~~  710 (748)
                      ++++.+|.-
T Consensus       782 qLe~S~PV~  790 (799)
T KOG4162|consen  782 QLEESNPVL  790 (799)
T ss_pred             hhccCCCcc
Confidence            999887753

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.29  E-value=1.7e-07  Score=94.04  Aligned_cols=343  Identities=11%  Similarity=0.059  Sum_probs=167.5

Q ss_pred             HHHHhcCCHHHHHHHhccCCCCCc--chHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHH
Q 041741          346 VACVRSGDIKTGREMFDSMPSPSV--SSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESG  423 (748)
Q Consensus       346 ~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a  423 (748)
                      .+......+.+|+.+++.+...++  ..|..+.+.|...|+++.|.++|.+.         ..+...+..|.+.|.+..|
T Consensus       740 eaai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da  810 (1636)
T KOG3616|consen  740 EAAIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDA  810 (1636)
T ss_pred             HHHhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHH
Confidence            344445555555555555544322  22444445555555555555555432         1233344555555555555


Q ss_pred             HHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCC
Q 041741          424 KQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYP  503 (748)
Q Consensus       424 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  503 (748)
                      .++..+..  |+......|-.-..-.-+.|++.+|++++-.+..|+.     -|..|-+.|..+..+.+..+-...   .
T Consensus       811 ~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~-----aiqmydk~~~~ddmirlv~k~h~d---~  880 (1636)
T KOG3616|consen  811 FKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDK-----AIQMYDKHGLDDDMIRLVEKHHGD---H  880 (1636)
T ss_pred             HHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchH-----HHHHHHhhCcchHHHHHHHHhChh---h
Confidence            55443332  2222333344444445566777777777766666653     356677777777766665543211   1


Q ss_pred             CHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHH------
Q 041741          504 TQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEM------  577 (748)
Q Consensus       504 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l------  577 (748)
                      -..|-..+..-+...|+...|.+-|-+..         -|.+-+.+|-..+-|++|.++-+.--..|..-....      
T Consensus       881 l~dt~~~f~~e~e~~g~lkaae~~flea~---------d~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwaksi  951 (1636)
T KOG3616|consen  881 LHDTHKHFAKELEAEGDLKAAEEHFLEAG---------DFKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAKSI  951 (1636)
T ss_pred             hhHHHHHHHHHHHhccChhHHHHHHHhhh---------hHHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHHhh
Confidence            12344455556666777777766554332         234555666667777777766554322221111111      


Q ss_pred             -----HHHH-------------HHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhh-----
Q 041741          578 -----IHGY-------------AQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQL-----  634 (748)
Q Consensus       578 -----~~~~-------------~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----  634 (748)
                           +..+             +..+-++-|.++-+-..+.. .|..  ...+..-+...|++++|-..+-+..+     
T Consensus       952 ggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~k~k-~~~v--hlk~a~~ledegk~edaskhyveaiklntyn 1028 (1636)
T KOG3616|consen  952 GGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAKDK-MGEV--HLKLAMFLEDEGKFEDASKHYVEAIKLNTYN 1028 (1636)
T ss_pred             CcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhhcc-Cccc--hhHHhhhhhhccchhhhhHhhHHHhhccccc
Confidence                 1111             12222233333222222211 1111  11223334566777777554443321     


Q ss_pred             ----------------hhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHH
Q 041741          635 ----------------DHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAE  698 (748)
Q Consensus       635 ----------------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  698 (748)
                                      ..|.+|..     .+.++.+..+|..|.++-+.--...-+.++..-.......||+.+|+..+-
T Consensus      1029 itwcqavpsrfd~e~ir~gnkpe~-----av~mfi~dndwa~aervae~h~~~~l~dv~tgqar~aiee~d~~kae~fll 1103 (1636)
T KOG3616|consen 1029 ITWCQAVPSRFDAEFIRAGNKPEE-----AVEMFIHDNDWAAAERVAEAHCEDLLADVLTGQARGAIEEGDFLKAEGFLL 1103 (1636)
T ss_pred             chhhhcccchhhHHHHHcCCChHH-----HHHHhhhcccHHHHHHHHHhhChhhhHHHHhhhhhccccccchhhhhhhee
Confidence                            11222221     234455555555555554432211124555555566667788888877765


Q ss_pred             HHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHH
Q 041741          699 ELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRE  732 (748)
Q Consensus       699 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  732 (748)
                      ++  ..|+      ...+-|...+.|.+|+++-+
T Consensus      1104 ra--nkp~------i~l~yf~e~~lw~dalri~k 1129 (1636)
T KOG3616|consen 1104 RA--NKPD------IALNYFIEAELWPDALRIAK 1129 (1636)
T ss_pred             ec--CCCc------hHHHHHHHhccChHHHHHHH
Confidence            42  2442      23455677788888876654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.29  E-value=3.1e-07  Score=92.19  Aligned_cols=104  Identities=15%  Similarity=0.189  Sum_probs=50.9

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHH
Q 041741          545 ALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDV  624 (748)
Q Consensus       545 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~  624 (748)
                      .-.+-+-+.|++.+|.+++-.+..|+.     .|..|-+.|..++.+++.++-...   .-..|-..+..-+...|++..
T Consensus       829 akaedldehgkf~eaeqlyiti~~p~~-----aiqmydk~~~~ddmirlv~k~h~d---~l~dt~~~f~~e~e~~g~lka  900 (1636)
T KOG3616|consen  829 AKAEDLDEHGKFAEAEQLYITIGEPDK-----AIQMYDKHGLDDDMIRLVEKHHGD---HLHDTHKHFAKELEAEGDLKA  900 (1636)
T ss_pred             HhHHhHHhhcchhhhhheeEEccCchH-----HHHHHHhhCcchHHHHHHHHhChh---hhhHHHHHHHHHHHhccChhH
Confidence            333344455666666666655555543     244555666666655555442111   111244445555555566655


Q ss_pred             HHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHh
Q 041741          625 GVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLID  666 (748)
Q Consensus       625 A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  666 (748)
                      |..-|-+.          ..|...+++|...+.|++|.++-+
T Consensus       901 ae~~flea----------~d~kaavnmyk~s~lw~dayriak  932 (1636)
T KOG3616|consen  901 AEEHFLEA----------GDFKAAVNMYKASELWEDAYRIAK  932 (1636)
T ss_pred             HHHHHHhh----------hhHHHHHHHhhhhhhHHHHHHHHh
Confidence            55554433          113344455555555555555443

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.27  E-value=1.4e-09  Score=109.23  Aligned_cols=233  Identities=14%  Similarity=0.100  Sum_probs=174.8

Q ss_pred             CHHHHHHHHHhhcCCCCchhHHHHHHHHHHh-----C-CCCch-HHHHHHHHHHHhcCCHHHHHHHhhhcCC-------C
Q 041741          504 TQFSFATVLSSCAKLSSSFQGRQVHAQIEKD-----G-YVNDI-FVGSALIEMYCKCGDIYGARQFFDMMHG-------K  569 (748)
Q Consensus       504 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~  569 (748)
                      -..+...+...|...|+++.|..+++...+.     | ..|.+ ...+.+...|...+++++|..+|+++..       +
T Consensus       198 ~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~  277 (508)
T KOG1840|consen  198 RLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGE  277 (508)
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCC
Confidence            3456677888888999999998888877654     2 12232 2344577788899999999988887652       2


Q ss_pred             ----CHHHHHHHHHHHHHcCChhHHHHHHHHHHHc-----CCC-CCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhC-
Q 041741          570 ----NTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS-----GVK-PDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDHG-  637 (748)
Q Consensus       570 ----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-----~~~-p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-  637 (748)
                          -..+++.|...|.+.|++++|..++++..+-     |.. |.. ..++.+...|...+++++|..+++...+... 
T Consensus       278 ~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~  357 (508)
T KOG1840|consen  278 DHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLD  357 (508)
T ss_pred             CCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHh
Confidence                2346777888999999999988888776642     222 222 2467777888999999999999998755443 


Q ss_pred             -CCCC----hhHHHHHHHHHHhcCChHHHHHHHhhCC-------CC--C-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 041741          638 -VEPI----LDHYTCMIDCLGRAGHFHEAEMLIDEMP-------CK--D-DPVIWEVLLSSCRLHANVRLAKRAAEELFR  702 (748)
Q Consensus       638 -~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  702 (748)
                       +.++    ..++..|+..|...|++++|.++++++.       .+  + ....++.+...|.+.+.++.|.+.|..+..
T Consensus       358 ~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~  437 (508)
T KOG1840|consen  358 APGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKD  437 (508)
T ss_pred             hccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHH
Confidence             2222    4568899999999999999999998873       11  1 256778888889899999989998888776


Q ss_pred             c----CCCCC---cchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          703 L----DPKNS---APYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       703 ~----~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      +    .|+.|   .+|..|+.+|...|++++|.++.+...+
T Consensus       438 i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  438 IMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            4    45443   4699999999999999999999887653

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.27  E-value=4.5e-06  Score=87.19  Aligned_cols=144  Identities=16%  Similarity=0.224  Sum_probs=111.0

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHH
Q 041741          570 NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMI  649 (748)
Q Consensus       570 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  649 (748)
                      .+..|+.+..+-.+.|...+|++-|-+      ..|+..|.-++..+.+.|.|++-+.++.-. ++..-.|.+++  .++
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyik------adDps~y~eVi~~a~~~~~~edLv~yL~Ma-Rkk~~E~~id~--eLi 1173 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIK------ADDPSNYLEVIDVASRTGKYEDLVKYLLMA-RKKVREPYIDS--ELI 1173 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHh------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHH-HHhhcCccchH--HHH
Confidence            455788899999999998888877654      245567899999999999999999988766 45566676654  588


Q ss_pred             HHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHH
Q 041741          650 DCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRA  729 (748)
Q Consensus       650 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  729 (748)
                      -+|++.++..+-.+++    ..|+.......+..|...|.++.|+-.|..        .+.+..|+..+...|.+..|..
T Consensus      1174 ~AyAkt~rl~elE~fi----~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~--------vSN~a~La~TLV~LgeyQ~AVD 1241 (1666)
T KOG0985|consen 1174 FAYAKTNRLTELEEFI----AGPNVANIQQVGDRCFEEKMYEAAKLLYSN--------VSNFAKLASTLVYLGEYQGAVD 1241 (1666)
T ss_pred             HHHHHhchHHHHHHHh----cCCCchhHHHHhHHHhhhhhhHHHHHHHHH--------hhhHHHHHHHHHHHHHHHHHHH
Confidence            8999999988876655    357777778888888888888888777753        4556778888888888888877


Q ss_pred             HHHHH
Q 041741          730 VRELM  734 (748)
Q Consensus       730 ~~~~~  734 (748)
                      .-+++
T Consensus      1242 ~aRKA 1246 (1666)
T KOG0985|consen 1242 AARKA 1246 (1666)
T ss_pred             Hhhhc
Confidence            65543

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.23  E-value=1.5e-06  Score=86.57  Aligned_cols=569  Identities=12%  Similarity=0.038  Sum_probs=290.8

Q ss_pred             hhcCCChhHHHHhhccCCCC---CchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHh
Q 041741           64 QCKSDDLEFAYKLFDEMPER---NVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGR  140 (748)
Q Consensus        64 ~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  140 (748)
                      ++.-|+-++|......-.+.   +.+.|..+.-.+-.-.++++|+++|......  .||                     
T Consensus        51 L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~--~~d---------------------  107 (700)
T KOG1156|consen   51 LNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKI--EKD---------------------  107 (700)
T ss_pred             hhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhc--CCC---------------------
Confidence            44446666666666554442   3344666666666666677777777666653  232                     


Q ss_pred             HHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCC---CCeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCC
Q 041741          141 RCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSE---PNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAV  217 (748)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  217 (748)
                                   +..++..+--.=+..|+++.....-.+..+   .....|..+..+..-.|+...|..+++...+...
T Consensus       108 -------------N~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~  174 (700)
T KOG1156|consen  108 -------------NLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQN  174 (700)
T ss_pred             -------------cHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence                         222222222222233444433333333222   2334577777777888999999999988877542


Q ss_pred             -CCCcccHHHHHHHHhccCCCCCcchhcccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHHHHHhc
Q 041741          218 -SIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFS  296 (748)
Q Consensus       218 -~~~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  296 (748)
                       .|+...+.......-+                                             .....+.|..+.|.+.+.
T Consensus       175 ~~~s~~~~e~se~~Ly~---------------------------------------------n~i~~E~g~~q~ale~L~  209 (700)
T KOG1156|consen  175 TSPSKEDYEHSELLLYQ---------------------------------------------NQILIEAGSLQKALEHLL  209 (700)
T ss_pred             cCCCHHHHHHHHHHHHH---------------------------------------------HHHHHHcccHHHHHHHHH
Confidence             3444443332222111                                             123345667777777766


Q ss_pred             cCCCC--C-cccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHH-HHHhcCCHHHHH-HHhccCCC--CCc
Q 041741          297 NLPER--S-VVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLV-ACVRSGDIKTGR-EMFDSMPS--PSV  369 (748)
Q Consensus       297 ~~~~~--~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~-~~~~~~~~~~a~-~~~~~~~~--~~~  369 (748)
                      .....  | ...-.+....+.+.+++++|..++..++..  .||...|...+. ++.+..+.-++. .+|....+  |..
T Consensus       210 ~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~  287 (700)
T KOG1156|consen  210 DNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRH  287 (700)
T ss_pred             hhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCccc
Confidence            55432  1 223334556677889999999999999886  477777666665 443333333333 66665543  111


Q ss_pred             ch-HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHH----hhc----------
Q 041741          370 SS-WNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASL----KTA----------  434 (748)
Q Consensus       370 ~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~----------  434 (748)
                      .. -..=+.......-.+..-.++..+.+.|+++--..+..+..-   ....+-.+++.-...    ..+          
T Consensus       288 e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk~---p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~  364 (700)
T KOG1156|consen  288 ECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLYKD---PEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQ  364 (700)
T ss_pred             ccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHHHhc---hhHhHHHHHHHHHHHhhcccccCCCccccccc
Confidence            11 111111111223344556677778888877655444444321   111111111111111    010          


Q ss_pred             CCchhHHH--HHHHHHHHhcCChHHHHHHHhhCCCCCcchHHH---HHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHH
Q 041741          435 SHIDNYVA--SGLIGIYSKCQRNELAERVFHRIPELDIVCWNS---MIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFA  509 (748)
Q Consensus       435 ~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  509 (748)
                      -+|...+|  ..++.-|-+.|+++.|...++.....++..+..   -.+.+...|+.++|..++++..+-. .||...-.
T Consensus       365 E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INs  443 (700)
T KOG1156|consen  365 EPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINS  443 (700)
T ss_pred             CCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHH
Confidence            12333333  345666777888888888888777655543332   3466777888888888887777543 34443333


Q ss_pred             HHHHhhcCCCCchhHHHHHHHHHHhCCCC--chH----HHH--HHHHHHHhcCCHHHHHHHhhhcCC------CCHHHHH
Q 041741          510 TVLSSCAKLSSSFQGRQVHAQIEKDGYVN--DIF----VGS--ALIEMYCKCGDIYGARQFFDMMHG------KNTVTWN  575 (748)
Q Consensus       510 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~----~~~--~l~~~~~~~g~~~~A~~~~~~~~~------~~~~~~~  575 (748)
                      .-.....+.+..++|.++...+.+.|...  +..    +|-  .-..+|.+.|++..|++-|..+.+      .|...|.
T Consensus       444 KcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k~~~~~~~dqfDfh  523 (700)
T KOG1156|consen  444 KCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEKHYKTWSEDQFDFH  523 (700)
T ss_pred             HHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHHHHHHHhhhhhhHH
Confidence            44455556677778888777777766411  100    111  113456666666666665555432      1111111


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhh-CCCCChhHHHHHH----H
Q 041741          576 EMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDH-GVEPILDHYTCMI----D  650 (748)
Q Consensus       576 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~l~----~  650 (748)
                         .-|.+.|-+..=+++++.--...-.|.-  +..          ...|++++=+|.... ...+.......+.    .
T Consensus       524 ---tyc~rk~tlrsYv~ll~~~d~L~~~p~y--~~A----------a~~Ai~iYl~l~d~p~~~~~~~~~~~~ms~e~kk  588 (700)
T KOG1156|consen  524 ---TYCMRKGTLRSYVELLEWEDNLRSSPYY--LRA----------AKGAIEIYLRLHDSPNMYTNKADEIEKMSDEEKK  588 (700)
T ss_pred             ---HHHHhcCcHHHHHHHHHHHHhhccChHH--HHH----------HHHHHHHHHHHhcCcccccccchhhhhccHHHHH
Confidence               1123333333222222211111001111  110          123444444442111 0001111122221    1


Q ss_pred             HHHhc-CChHHHHHHHhhC--------------CCCCCHhHHHHHHHHHHhcCCH-HHHHHHHHHHHhcCCCCCcchHHH
Q 041741          651 CLGRA-GHFHEAEMLIDEM--------------PCKDDPVIWEVLLSSCRLHANV-RLAKRAAEELFRLDPKNSAPYSLL  714 (748)
Q Consensus       651 ~~~~~-g~~~~A~~~~~~~--------------~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~p~~~~~~~~l  714 (748)
                      ...+. .+...|...-+.+              +..+|.+   .+...+....++ ++|...+..+....++++.++..-
T Consensus       589 ~~~k~rk~~kk~~~e~~~~~~~~~~~~~s~~~~~~~~d~~---~~gekL~~t~~Pl~ea~kf~~~l~~~~~~~~~~~iL~  665 (700)
T KOG1156|consen  589 IKKKQRKAKKKAKKEAKKKKDKKKKEAKSQSGKPVDIDED---PFGEKLLKTEDPLEEARKFLPNLQHKGKEKGETYILS  665 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhccccCCCCCCCCc---chhhhHhhcCChHHHHHHHHHHHHHhcccchhhhhhh
Confidence            11111 1111111111111              1223333   334445555554 779999999999999999999999


Q ss_pred             hHHHhhcCChHHHHHHHHHHHhc
Q 041741          715 ANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       715 ~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      ..+|.+.|++.-|.+.++++...
T Consensus       666 ~ely~rk~k~~l~~~~~~~~~~~  688 (700)
T KOG1156|consen  666 FELYYRKGKFLLALACLNNAEGI  688 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhh
Confidence            99999999999999999987653

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.23  E-value=7.6e-08  Score=88.08  Aligned_cols=148  Identities=14%  Similarity=0.036  Sum_probs=89.9

Q ss_pred             HHHhhcCCChhHHHHhhccCCCCC----chhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCc
Q 041741           61 LSAQCKSDDLEFAYKLFDEMPERN----VVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDV  136 (748)
Q Consensus        61 ~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  136 (748)
                      +.-+...+++..|+.+++--...+    ..+-.-+..++.+.|++++|..+|+.+.+.. .|+......+..+..-.|.+
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            444555678888888876443211    1112235667888999999999998887753 45555566666666677888


Q ss_pred             HHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCCCCeehHHHHHHHHHcCCCHHHHHHHHHHHHHc
Q 041741          137 EHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRK  215 (748)
Q Consensus       137 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (748)
                      .+|+.+.+...     .++-.-..|++...+.|+-++-..+-..+...... --++.......-.+.+|+++|...+..
T Consensus       108 ~eA~~~~~ka~-----k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~Ed-qLSLAsvhYmR~HYQeAIdvYkrvL~d  180 (557)
T KOG3785|consen  108 IEAKSIAEKAP-----KTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTLED-QLSLASVHYMRMHYQEAIDVYKRVLQD  180 (557)
T ss_pred             HHHHHHHhhCC-----CChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhHHH-HHhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            88887765432     23333444555556677766666655555432222 222333333445578888888887754

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.21  E-value=5.4e-10  Score=108.17  Aligned_cols=116  Identities=9%  Similarity=-0.107  Sum_probs=59.0

Q ss_pred             CCCchHHHHHHHHHHHCC-CCCC--HHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHH
Q 041741          483 NSLDIEAFMFFKQMRQNE-MYPT--QFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGA  559 (748)
Q Consensus       483 ~~~~~~a~~~~~~m~~~~-~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  559 (748)
                      .+..+.++.-+.++.... ..|+  ...|..+...+...|+.+.|...|....+.. +.++..|+.+...+...|++++|
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            344455666665555432 1121  2234444444555555555555555555443 22445555555555555555555


Q ss_pred             HHHhhhcCC--C-CHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q 041741          560 RQFFDMMHG--K-NTVTWNEMIHGYAQNGYGDEAVRLYKDMIA  599 (748)
Q Consensus       560 ~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  599 (748)
                      .+.|+...+  | +...|..++.++...|++++|++.+++..+
T Consensus       118 ~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~  160 (296)
T PRK11189        118 YEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQ  160 (296)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            555555432  2 334455555555555555555555555555

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.20  E-value=7e-10  Score=99.91  Aligned_cols=195  Identities=11%  Similarity=0.011  Sum_probs=134.8

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHhhhcCC--CC-HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHh
Q 041741          540 IFVGSALIEMYCKCGDIYGARQFFDMMHG--KN-TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTAC  616 (748)
Q Consensus       540 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  616 (748)
                      +.+|-.|-.+|.+..++..|+.++.+..+  |. +....-+.+.+...++.++|.++++...+.. +.+......+...|
T Consensus       256 ~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~y  334 (478)
T KOG1129|consen  256 PDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGY  334 (478)
T ss_pred             hhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC-Cccceeeeeeeecc
Confidence            33344445555555555555555555443  32 2223335556666667777777777776652 33444555555566


Q ss_pred             cCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC---CCC--CHhHHHHHHHHHHhcCCHH
Q 041741          617 SHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP---CKD--DPVIWEVLLSSCRLHANVR  691 (748)
Q Consensus       617 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~--~~~~~~~l~~~~~~~~~~~  691 (748)
                      .-.++.+-|+.+++++. ..|+ .+...|..++-+|.-.+++|-++.-|++..   ..|  ..++|..+.......||+.
T Consensus       335 fY~~~PE~AlryYRRiL-qmG~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~n  412 (478)
T KOG1129|consen  335 FYDNNPEMALRYYRRIL-QMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFN  412 (478)
T ss_pred             ccCCChHHHHHHHHHHH-HhcC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchH
Confidence            66677777777777773 4443 234556777777777777777777766653   223  3678888888889999999


Q ss_pred             HHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          692 LAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       692 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      .|.+.++-++..+|++..++..|+.+-.+.|+.++|..++..++..
T Consensus       413 lA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  413 LAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            9999999999999999999999999999999999999999987664

>PRK12370 invasion protein regulator; Provisional

Probab=99.18  E-value=5.7e-09  Score=110.88  Aligned_cols=241  Identities=10%  Similarity=0.016  Sum_probs=170.0

Q ss_pred             chHHHHHHHHHHHCCCCCCH-HHHHHHHHhhc---------CCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCC
Q 041741          486 DIEAFMFFKQMRQNEMYPTQ-FSFATVLSSCA---------KLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGD  555 (748)
Q Consensus       486 ~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  555 (748)
                      .++|...|++..+.  .|+. ..+..+..++.         ..+++++|...+++..+.. +.+...+..+..++...|+
T Consensus       277 ~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        277 LQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccC
Confidence            45777777777654  4433 33333332221         3345778888888877765 3466777788888889999


Q ss_pred             HHHHHHHhhhcCC--C-CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHhcCCCChHHHHHHHHH
Q 041741          556 IYGARQFFDMMHG--K-NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDI-TFVAILTACSHSGLVDVGVEIFNS  631 (748)
Q Consensus       556 ~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~A~~~~~~  631 (748)
                      +++|...|++..+  | +...+..+...+...|++++|+..++++.+.  .|+.. .+..++..+...|++++|+..+++
T Consensus       354 ~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~  431 (553)
T PRK12370        354 YIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGDE  431 (553)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHHH
Confidence            9999999998764  3 5667888899999999999999999999985  45532 333444456668999999999988


Q ss_pred             hhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 041741          632 MQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDD-PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS  708 (748)
Q Consensus       632 ~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  708 (748)
                      +...  ..|+ ...+..++.++...|++++|...++++. ..|+ ...+..+...+...|  ++|...++++++..-..+
T Consensus       432 ~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~  507 (553)
T PRK12370        432 LRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRID  507 (553)
T ss_pred             HHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhh
Confidence            7422  2343 4456778899999999999999998875 3444 344455555666666  477777777777543333


Q ss_pred             cchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          709 APYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       709 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      ........+|.-.|+.+.+... +++.+
T Consensus       508 ~~~~~~~~~~~~~g~~~~~~~~-~~~~~  534 (553)
T PRK12370        508 NNPGLLPLVLVAHGEAIAEKMW-NKFKN  534 (553)
T ss_pred             cCchHHHHHHHHHhhhHHHHHH-HHhhc
Confidence            4444488888889998887777 77665

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.17  E-value=1.6e-06  Score=88.49  Aligned_cols=146  Identities=17%  Similarity=0.138  Sum_probs=87.6

Q ss_pred             HHccCCchhhhhhhhcCCCCchhhhhHHHHHhhcCCChhHHHHhhccCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHH
Q 041741           33 YSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMS  112 (748)
Q Consensus        33 ~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  112 (748)
                      |.--|++|.|.+..+.+.  +-.+|.++.+.|.+.++++-|.-.+..|..                  ...| +.+++..
T Consensus       738 yvtiG~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~------------------aRga-RAlR~a~  796 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKN------------------ARGA-RALRRAQ  796 (1416)
T ss_pred             EEEeccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhh------------------hhhH-HHHHHHH
Confidence            344556666555544443  334566666666666666666554433321                  1111 1222222


Q ss_pred             hCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCCC-CeehHHH
Q 041741          113 NEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEP-NEVTFTA  191 (748)
Q Consensus       113 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~  191 (748)
                      +.|   + .+-.-+.-.....|.+++|+.+|...+..+         .|=+.|...|.|++|.++-+.-.+- =..||..
T Consensus       797 q~~---~-e~eakvAvLAieLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~  863 (1416)
T KOG3617|consen  797 QNG---E-EDEAKVAVLAIELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYN  863 (1416)
T ss_pred             hCC---c-chhhHHHHHHHHHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccceehhhhHHH
Confidence            222   1 111222233456788899999998877653         4556788899999999988765442 2346777


Q ss_pred             HHHHHHcCCCHHHHHHHHHHH
Q 041741          192 MMSGLAKTDRVVEALEMFRLM  212 (748)
Q Consensus       192 li~~~~~~g~~~~a~~~~~~m  212 (748)
                      ....+-..++.+.|++.|++-
T Consensus       864 yA~~Lear~Di~~AleyyEK~  884 (1416)
T KOG3617|consen  864 YAKYLEARRDIEAALEYYEKA  884 (1416)
T ss_pred             HHHHHHhhccHHHHHHHHHhc
Confidence            777788889999999999874

>PF13041 PPR_2: PPR repeat family

Probab=99.17  E-value=6.1e-11  Score=79.12  Aligned_cols=50  Identities=28%  Similarity=0.478  Sum_probs=43.3

Q ss_pred             CCchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhcc
Q 041741           83 RNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTA  132 (748)
Q Consensus        83 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  132 (748)
                      ||+.+||++|++|++.|++++|.++|++|.+.|++||..||++++++|++
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            68888888888888888888888888888888888888888888888764

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.16  E-value=1e-09  Score=98.85  Aligned_cols=236  Identities=12%  Similarity=0.068  Sum_probs=174.1

Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcC
Q 041741          475 SMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCG  554 (748)
Q Consensus       475 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  554 (748)
                      .+..+|.+.|.+.+|.+.|+.-...  .|-..||..|-..|.+..++..|..++.+-... ++.++....-..+.+...+
T Consensus       228 Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  228 QMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHH
Confidence            3445555555555555555555543  344455666666666666666666665554432 2345555556677778888


Q ss_pred             CHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHH
Q 041741          555 DIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNS  631 (748)
Q Consensus       555 ~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~  631 (748)
                      +.++|.++++...+   .++....++...|.-.++++-|+.+++++++.|+ -+...|+.+.-+|.-.++++-++..|++
T Consensus       305 ~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~R  383 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQR  383 (478)
T ss_pred             hHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHHH
Confidence            99999999988764   3666777777888889999999999999999984 5667788888899999999999999998


Q ss_pred             hhhhhCCCCC--hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 041741          632 MQLDHGVEPI--LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN  707 (748)
Q Consensus       632 ~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  707 (748)
                      .. ...-.|+  .+.|-.++...+..||+.-|..-|+-.. ..| ....++.|.-.-.+.|+.++|..++.-+....|+-
T Consensus       384 Al-stat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P~m  462 (478)
T KOG1129|consen  384 AL-STATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMPDM  462 (478)
T ss_pred             HH-hhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCccc
Confidence            84 3344455  5678889999999999999999998775 333 46778888888889999999999999999999975


Q ss_pred             CcchHHHh
Q 041741          708 SAPYSLLA  715 (748)
Q Consensus       708 ~~~~~~l~  715 (748)
                      ......++
T Consensus       463 ~E~~~Nl~  470 (478)
T KOG1129|consen  463 AEVTTNLQ  470 (478)
T ss_pred             ccccccee
Confidence            55544444

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.16  E-value=6.9e-07  Score=83.83  Aligned_cols=265  Identities=8%  Similarity=-0.084  Sum_probs=193.9

Q ss_pred             CCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHH-HHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHH
Q 041741          468 LDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFS-FATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSAL  546 (748)
Q Consensus       468 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  546 (748)
                      -|+.....+...+...|+.++|+..|++.+..  .|...+ ...-.-.+.+.|+.++...+...+.... .-+...|..-
T Consensus       230 ~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~  306 (564)
T KOG1174|consen  230 CNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVH  306 (564)
T ss_pred             ccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhh
Confidence            46777888999999999999999999988754  443322 1122223356677777777666665432 1122222223


Q ss_pred             HHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHhcCCCCh
Q 041741          547 IEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKP-DDITFVAILTACSHSGLV  622 (748)
Q Consensus       547 ~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~  622 (748)
                      .......++++.|+.+-++..+   .++..+-.-...+...|++++|.-.|+.....  .| +..+|..|+.+|...|++
T Consensus       307 ~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~L--ap~rL~~Y~GL~hsYLA~~~~  384 (564)
T KOG1174|consen  307 AQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQML--APYRLEIYRGLFHSYLAQKRF  384 (564)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhc--chhhHHHHHHHHHHHHhhchH
Confidence            3344456789999999888775   35555655567888999999999999998874  54 557999999999999999


Q ss_pred             HHHHHHHHHhhhhhCCCCChhHHHHHH-HHHH-hcCChHHHHHHHhhCC-CCCC-HhHHHHHHHHHHhcCCHHHHHHHHH
Q 041741          623 DVGVEIFNSMQLDHGVEPILDHYTCMI-DCLG-RAGHFHEAEMLIDEMP-CKDD-PVIWEVLLSSCRLHANVRLAKRAAE  698 (748)
Q Consensus       623 ~~A~~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~  698 (748)
                      .+|.-.-+......  ..+..++..++ ..+. .-..-++|.+++++.. ..|+ ......+...+...|..+.++.+++
T Consensus       385 kEA~~~An~~~~~~--~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe  462 (564)
T KOG1174|consen  385 KEANALANWTIRLF--QNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLE  462 (564)
T ss_pred             HHHHHHHHHHHHHh--hcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHH
Confidence            99988777664332  34445555443 3332 3344588999998875 6665 4566777888999999999999999


Q ss_pred             HHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCCC
Q 041741          699 ELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIV  740 (748)
Q Consensus       699 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  740 (748)
                      +.+...| |...+..|++++...+.+.+|+++|..+.+..++
T Consensus       463 ~~L~~~~-D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~  503 (564)
T KOG1174|consen  463 KHLIIFP-DVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPK  503 (564)
T ss_pred             HHHhhcc-ccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCcc
Confidence            9999999 7799999999999999999999999987765543

>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=99.13  E-value=2.2e-07  Score=95.07  Aligned_cols=282  Identities=10%  Similarity=0.037  Sum_probs=153.6

Q ss_pred             HHHHHhcCChhHHHHHhccCCC--CC-cccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHH-h----
Q 041741          279 LDMYAKNGDMDSAEVIFSNLPE--RS-VVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACV-R----  350 (748)
Q Consensus       279 i~~~~~~~~~~~a~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~-~----  350 (748)
                      ...+...|++++|++.++....  .| ..........+.+.|+.++|..++..+.+.+  |+...|...+..+. -    
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhccc
Confidence            3456788999999999987554  23 3467778888999999999999999999875  67777666666544 1    


Q ss_pred             -cCCHHHHHHHhccCCC--CCcchHHHHHHHHHccCCH-HHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHH
Q 041741          351 -SGDIKTGREMFDSMPS--PSVSSWNAMLSSYSQSENH-KEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQV  426 (748)
Q Consensus       351 -~~~~~~a~~~~~~~~~--~~~~~~~~ll~~~~~~~~~-~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~  426 (748)
                       ..+.+....+++.+..  |.......+.-.+.....+ ..+...+..+...|+++--   ..+-..|...........+
T Consensus        89 ~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF---~~lk~Ly~d~~K~~~i~~l  165 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLF---SNLKPLYKDPEKAAIIESL  165 (517)
T ss_pred             ccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHH---HHHHHHHcChhHHHHHHHH
Confidence             2246667777777754  3333333332222222223 2455666777777766533   3333333433333333444


Q ss_pred             HHHHHhhc--------------CCchhH--HHHHHHHHHHhcCChHHHHHHHhhCCCCCcc---hHHHHHHHHHhCCCch
Q 041741          427 HAASLKTA--------------SHIDNY--VASGLIGIYSKCQRNELAERVFHRIPELDIV---CWNSMIAGLSLNSLDI  487 (748)
Q Consensus       427 ~~~~~~~~--------------~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~li~~~~~~~~~~  487 (748)
                      +.......              -.|+..  ++..+...|...|++++|+..+++..+.++.   .|..-...+-+.|++.
T Consensus       166 ~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~  245 (517)
T PF12569_consen  166 VEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLK  245 (517)
T ss_pred             HHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHH
Confidence            44333211              112221  2233445555666666666666655543322   3444455555666666


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCch--------HHHHHHHHHHHhcCCHHHH
Q 041741          488 EAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDI--------FVGSALIEMYCKCGDIYGA  559 (748)
Q Consensus       488 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------~~~~~l~~~~~~~g~~~~A  559 (748)
                      +|.+.++..+... .-|...-+-.+..+.+.|+.+.|..++..+.+.+..|..        ........+|.+.|++..|
T Consensus       246 ~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~A  324 (517)
T PF12569_consen  246 EAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLA  324 (517)
T ss_pred             HHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            6666666555432 223333344445555556666666665555554432211        1112334455555555555


Q ss_pred             HHHhhhc
Q 041741          560 RQFFDMM  566 (748)
Q Consensus       560 ~~~~~~~  566 (748)
                      +..|..+
T Consensus       325 Lk~~~~v  331 (517)
T PF12569_consen  325 LKRFHAV  331 (517)
T ss_pred             HHHHHHH
Confidence            5444443

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PRK12370 invasion protein regulator; Provisional

Probab=99.13  E-value=5e-09  Score=111.31  Aligned_cols=210  Identities=14%  Similarity=0.006  Sum_probs=162.4

Q ss_pred             CchhHHHHHHHHHHhCCCCchHHHHHHHHHHHh---------cCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCCh
Q 041741          520 SSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCK---------CGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYG  587 (748)
Q Consensus       520 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~  587 (748)
                      +.+.|...+++..+... -+...+..+..++..         .+++++|...+++..+   .+...+..+...+...|++
T Consensus       276 ~~~~A~~~~~~Al~ldP-~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~~  354 (553)
T PRK12370        276 SLQQALKLLTQCVNMSP-NSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSEY  354 (553)
T ss_pred             HHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccCH
Confidence            45678888888776542 234555555555442         3458899999998764   4677888899999999999


Q ss_pred             hHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCCh-hHHHHHHHHHHhcCChHHHHHHHh
Q 041741          588 DEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPIL-DHYTCMIDCLGRAGHFHEAEMLID  666 (748)
Q Consensus       588 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~  666 (748)
                      ++|...++++.+.+ +.+...+..+..++...|++++|+..++++.   ...|+. ..+..++..+...|++++|...++
T Consensus       355 ~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al---~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        355 IVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECL---KLDPTRAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH---hcCCCChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            99999999999963 3345678888999999999999999999985   345553 233344556777899999999998


Q ss_pred             hCC--CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          667 EMP--CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       667 ~~~--~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      +..  .+| ++..+..+...+...|++++|...++++....|.+......++..|...|+  +|...++.+.+
T Consensus       431 ~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~a~~~l~~ll~  501 (553)
T PRK12370        431 ELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNSE--RALPTIREFLE  501 (553)
T ss_pred             HHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccHH--HHHHHHHHHHH
Confidence            874  234 455677777788899999999999999988899888888889999998884  88887877665

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.12  E-value=9.9e-07  Score=86.87  Aligned_cols=216  Identities=15%  Similarity=0.077  Sum_probs=126.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHH--hcC
Q 041741           92 ISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYA--KCG  169 (748)
Q Consensus        92 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~--~~g  169 (748)
                      ++-+..+|++++|.+...++...+ +.+...+..=+-++.+.+.+++|..+.+   ..+.......+. +=++||  +.+
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ik---k~~~~~~~~~~~-fEKAYc~Yrln   93 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIK---KNGALLVINSFF-FEKAYCEYRLN   93 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHH---hcchhhhcchhh-HHHHHHHHHcc
Confidence            444556777777777777777643 3444455555556666677777663322   222111111110 344555  578


Q ss_pred             ChhhHHHHHhcCCCCCeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCccc-HHHHHHHHhccCCCCCcchhccccc
Q 041741          170 WTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVS-LSSVLGVCAREGCGVESDVFAQSDN  248 (748)
Q Consensus       170 ~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t-~~~ll~~~~~~~~~~~~~~~~~~~~  248 (748)
                      +.|+|...++-..+.+..+...-.+.+.+.|++++|+++|+.+.+.+..--..- -..++.+-...              
T Consensus        94 k~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l--------------  159 (652)
T KOG2376|consen   94 KLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAAL--------------  159 (652)
T ss_pred             cHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhh--------------
Confidence            999999999965555655777777889999999999999999987754322211 11122211111              


Q ss_pred             ccccccchhHHHHHHHHhcCCCchHHHHH---HHHHHHhcCChhHHHHHhccCC--------CCCcc----------cHH
Q 041741          249 KFSRNVHGQQVHCLTIKLGFEADLHLSNS---LLDMYAKNGDMDSAEVIFSNLP--------ERSVV----------SWN  307 (748)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---li~~~~~~~~~~~a~~~~~~~~--------~~~~~----------~~~  307 (748)
                               .. ..+......| ..+|..   ..-.+...|++.+|+++++...        +.|..          .--
T Consensus       160 ---------~~-~~~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~Irv  228 (652)
T KOG2376|consen  160 ---------QV-QLLQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRV  228 (652)
T ss_pred             ---------hH-HHHHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHH
Confidence                     00 0122222222 223332   2345667899999999988762        11111          223


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhcCCCCCh
Q 041741          308 VMIAGYGQKYQSTKAIELLQRMKSCGFEPDE  338 (748)
Q Consensus       308 ~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~  338 (748)
                      .+.-++...|+.++|..++...+... .+|.
T Consensus       229 QlayVlQ~~Gqt~ea~~iy~~~i~~~-~~D~  258 (652)
T KOG2376|consen  229 QLAYVLQLQGQTAEASSIYVDIIKRN-PADE  258 (652)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHHhc-CCCc
Confidence            34556677899999999998888765 3444

>PF13041 PPR_2: PPR repeat family

Probab=99.12  E-value=2.3e-10  Score=76.36  Aligned_cols=50  Identities=34%  Similarity=0.683  Sum_probs=47.0

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC
Q 041741          569 KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSH  618 (748)
Q Consensus       569 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~  618 (748)
                      ||+.+||+++.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++
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            78899999999999999999999999999999999999999999999874

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.11  E-value=1.6e-08  Score=95.81  Aligned_cols=194  Identities=13%  Similarity=0.091  Sum_probs=116.0

Q ss_pred             HHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcC
Q 041741          509 ATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNG  585 (748)
Q Consensus       509 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~  585 (748)
                      ..+...+...|+++.|...++...+.. +.+...+..+...+...|++++|.+.+++..+   .+...+..+...+...|
T Consensus        35 ~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g  113 (234)
T TIGR02521        35 VQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQG  113 (234)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcc
Confidence            333444444444444444444444332 22344455555666666666666666665442   34455666666777777


Q ss_pred             ChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHH
Q 041741          586 YGDEAVRLYKDMIASGVKP-DDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEML  664 (748)
Q Consensus       586 ~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  664 (748)
                      ++++|...+++..+....| ....+..+...+...|++++|...+++....  .+.+...+..++..+...|++++|...
T Consensus       114 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~  191 (234)
T TIGR02521       114 KYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQI--DPQRPESLLELAELYYLRGQYKDARAY  191 (234)
T ss_pred             cHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCChHHHHHHHHHHHHcCCHHHHHHH
Confidence            7777777777776642222 2334556666777777777777777776422  122345566777777778888888777


Q ss_pred             HhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          665 IDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       665 ~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      +++..  .+.++..+..+...+...|+.++|....+.+....|
T Consensus       192 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  234 (234)
T TIGR02521       192 LERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKLFP  234 (234)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhCc
Confidence            77663  233455555666667777788888777777665543

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.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.11  E-value=1.6e-07  Score=83.98  Aligned_cols=275  Identities=12%  Similarity=0.038  Sum_probs=161.4

Q ss_pred             hcCChHHHHHHHhhCC-CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHC-CCCCCHHHHHHHHHhhcCCCCchhHHHHH
Q 041741          451 KCQRNELAERVFHRIP-ELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQN-EMYPTQFSFATVLSSCAKLSSSFQGRQVH  528 (748)
Q Consensus       451 ~~~~~~~a~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  528 (748)
                      ..+++..+..++++.+ +.+..+.+.......+.|+++.|++-|+...+- |..| ...|+..+ +..+.++...|..+.
T Consensus       124 se~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqp-llAYniAL-aHy~~~qyasALk~i  201 (459)
T KOG4340|consen  124 SEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQP-LLAYNLAL-AHYSSRQYASALKHI  201 (459)
T ss_pred             ccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCCc-hhHHHHHH-HHHhhhhHHHHHHHH
Confidence            3556666666666666 344455555555556677777777777776663 3333 34454433 334556777777777


Q ss_pred             HHHHHhCCCCch----------------------------HHHHHHHHHHHhcCCHHHHHHHhhhcCC-----CCHHHHH
Q 041741          529 AQIEKDGYVNDI----------------------------FVGSALIEMYCKCGDIYGARQFFDMMHG-----KNTVTWN  575 (748)
Q Consensus       529 ~~~~~~~~~~~~----------------------------~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~  575 (748)
                      +++.+.|+...+                            ..+|.-...+.+.|+++.|.+.+.+|+.     -|++|..
T Consensus       202 SEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLH  281 (459)
T KOG4340|consen  202 SEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLH  281 (459)
T ss_pred             HHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhh
Confidence            777666543221                            1233333445678999999999999984     3667665


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCC-CChhHHHHHHHHHH-
Q 041741          576 EMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVE-PILDHYTCMIDCLG-  653 (748)
Q Consensus       576 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~~l~~~~~-  653 (748)
                      .+.-.- ..+++.+..+-+.-+.+.+ +-...||..++-.|++..-++.|-.++-+-. +.-++ .+...|+ +.+++. 
T Consensus       282 N~Al~n-~~~~p~~g~~KLqFLL~~n-PfP~ETFANlLllyCKNeyf~lAADvLAEn~-~lTyk~L~~Yly~-LLdaLIt  357 (459)
T KOG4340|consen  282 NQALMN-MDARPTEGFEKLQFLLQQN-PFPPETFANLLLLYCKNEYFDLAADVLAENA-HLTYKFLTPYLYD-LLDALIT  357 (459)
T ss_pred             HHHHhc-ccCCccccHHHHHHHHhcC-CCChHHHHHHHHHHhhhHHHhHHHHHHhhCc-chhHHHhhHHHHH-HHHHHHh
Confidence            543322 2455666677777777754 3445789999999999998998888875431 11111 1222233 334443 


Q ss_pred             hcCChHHHHHHHhhCCCCCCHhHHHHHHHH--HHhcCC---HHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHH
Q 041741          654 RAGHFHEAEMLIDEMPCKDDPVIWEVLLSS--CRLHAN---VRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLR  728 (748)
Q Consensus       654 ~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~--~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  728 (748)
                      ..-..++|.+-+..+...-........+..  -+..++   ...+.+.+++.+++.-   .+....++.|++..|+.-++
T Consensus       358 ~qT~pEea~KKL~~La~~l~~kLRklAi~vQe~r~~~dd~a~R~ai~~Yd~~LE~YL---PVlMa~AkiyW~~~Dy~~vE  434 (459)
T KOG4340|consen  358 CQTAPEEAFKKLDGLAGMLTEKLRKLAIQVQEARHNRDDEAIRKAVNEYDETLEKYL---PVLMAQAKIYWNLEDYPMVE  434 (459)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHH---HHHHHHHHhhccccccHHHH
Confidence            345677777666554311111111111111  122222   2345555666666543   56788899999999999999


Q ss_pred             HHHHHH
Q 041741          729 AVRELM  734 (748)
Q Consensus       729 ~~~~~~  734 (748)
                      +.|+.-
T Consensus       435 k~Fr~S  440 (459)
T KOG4340|consen  435 KIFRKS  440 (459)
T ss_pred             HHHHHH
Confidence            999864

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.10  E-value=9.1e-08  Score=96.49  Aligned_cols=130  Identities=14%  Similarity=0.129  Sum_probs=86.6

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHc---CCCCCH----HHHHHHHHHhcCCCChHHHHHHHHHhhhhh-----CCCCC
Q 041741          574 WNEMIHGYAQNGYGDEAVRLYKDMIAS---GVKPDD----ITFVAILTACSHSGLVDVGVEIFNSMQLDH-----GVEPI  641 (748)
Q Consensus       574 ~~~l~~~~~~~~~~~~a~~~~~~m~~~---~~~p~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-----~~~~~  641 (748)
                      ++.++..+...+++++|..++++..+.   -+.++.    .+++.+...|...|++++|.++++++....     +..+.
T Consensus       328 l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~  407 (508)
T KOG1840|consen  328 LSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYG  407 (508)
T ss_pred             HHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChh
Confidence            334455555666666666666554431   011222    467788888888888888888888775432     11222


Q ss_pred             -hhHHHHHHHHHHhcCChHHHHHHHhhCC-----CCC----CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 041741          642 -LDHYTCMIDCLGRAGHFHEAEMLIDEMP-----CKD----DPVIWEVLLSSCRLHANVRLAKRAAEELFRL  703 (748)
Q Consensus       642 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  703 (748)
                       ...++.++..|.+.+++.+|.++|.+..     ..|    ...++..|+..|...|+++.|.++.+.+...
T Consensus       408 ~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~  479 (508)
T KOG1840|consen  408 VGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNA  479 (508)
T ss_pred             hhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence             3456778888888888888888776652     222    2467888888999999999999998888853

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.09  E-value=3.3e-06  Score=84.23  Aligned_cols=435  Identities=13%  Similarity=0.067  Sum_probs=224.4

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHhccCCCC---CcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 041741          273 HLSNSLLDMYAKNGDMDSAEVIFSNLPER---SVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACV  349 (748)
Q Consensus       273 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  349 (748)
                      .+.....-.+...|+.++|..........   +.++|..+.-.+....++++|+..|......+ +-|...+.-+--.-.
T Consensus        42 eslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~  120 (700)
T KOG1156|consen   42 ESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQI  120 (700)
T ss_pred             hhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHH
Confidence            34433334455678888888887776653   44678888888888889999999998887754 224444544444445


Q ss_pred             hcCCHHHHHHHhccCCC---CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCC-CCCHhhHHHHHH------HhhccCC
Q 041741          350 RSGDIKTGREMFDSMPS---PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGV-KPDRTTLAIILS------SCAAMGI  419 (748)
Q Consensus       350 ~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~~~~~ll~------~~~~~~~  419 (748)
                      ..++++.....-..+.+   .....|..+..++.-.|+...|..++++..+... .|+...+.....      .....|.
T Consensus       121 QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~  200 (700)
T KOG1156|consen  121 QMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGS  200 (700)
T ss_pred             HHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHccc
Confidence            56666665555444443   2334466677777778888888888888877642 455555443321      2233344


Q ss_pred             hHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCc--chHH-HHHHHHHhCCCchHHH-HHHHH
Q 041741          420 LESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDI--VCWN-SMIAGLSLNSLDIEAF-MFFKQ  495 (748)
Q Consensus       420 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~-~li~~~~~~~~~~~a~-~~~~~  495 (748)
                      .+.+.+.+......-+. ....-..-...+.+.+++++|..++..+..+++  ..|. .+..++.+-.+.-+++ .+|..
T Consensus       201 ~q~ale~L~~~e~~i~D-kla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~  279 (700)
T KOG1156|consen  201 LQKALEHLLDNEKQIVD-KLAFEETKADLLMKLGQLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAI  279 (700)
T ss_pred             HHHHHHHHHhhhhHHHH-HHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            44444333322211110 011112223444555555555555555554322  2222 2222222222222222 33333


Q ss_pred             HHHCCCCCCHHHHHHHHHhh-cCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHH
Q 041741          496 MRQNEMYPTQFSFATVLSSC-AKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTW  574 (748)
Q Consensus       496 m~~~~~~p~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  574 (748)
                      ..+.  .|.......+--.. ....-.+....++....+.|+++-...   +...|-.   ...+. ++           
T Consensus       280 ls~~--y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~d---l~SLyk~---p~k~~-~l-----------  339 (700)
T KOG1156|consen  280 LSEK--YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKD---LRSLYKD---PEKVA-FL-----------  339 (700)
T ss_pred             Hhhc--CcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhh---hHHHHhc---hhHhH-HH-----------
Confidence            3222  11111111000001 111111222333333344443332211   1111110   00000 11           


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH--HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHH
Q 041741          575 NEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDI--TFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDC  651 (748)
Q Consensus       575 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~  651 (748)
                      ..++..|...-.........+.-..  -+|...  ++..++..+-..|+++.|..+++...   +..|+ ++.|..-+++
T Consensus       340 e~Lvt~y~~~L~~~~~f~~~D~~~~--E~PttllWt~y~laqh~D~~g~~~~A~~yId~AI---dHTPTliEly~~KaRI  414 (700)
T KOG1156|consen  340 EKLVTSYQHSLSGTGMFNFLDDGKQ--EPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAI---DHTPTLIELYLVKARI  414 (700)
T ss_pred             HHHHHHHHhhcccccCCCccccccc--CCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHh---ccCchHHHHHHHHHHH
Confidence            1111111111000000000000000  145554  44566777888999999999998774   67888 5677777899


Q ss_pred             HHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC------CCcc---hHHHhHHHhh
Q 041741          652 LGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK------NSAP---YSLLANIYSS  720 (748)
Q Consensus       652 ~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~------~~~~---~~~l~~~~~~  720 (748)
                      +..+|++++|..++++..  ..+|..+-..-+....+.++.++|.+++.+-.+.+-+      +.+.   ...-|.+|.+
T Consensus       415 ~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r  494 (700)
T KOG1156|consen  415 FKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLR  494 (700)
T ss_pred             HHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHH
Confidence            999999999999998886  3455544445666677888999999888876665431      1111   2233667888


Q ss_pred             cCChHHHHHHHHHH
Q 041741          721 LGRWDDLRAVRELM  734 (748)
Q Consensus       721 ~g~~~~A~~~~~~~  734 (748)
                      +|++..|++=+..+
T Consensus       495 ~~k~g~ALKkfh~i  508 (700)
T KOG1156|consen  495 QNKLGLALKKFHEI  508 (700)
T ss_pred             HHHHHHHHHHHhhH
Confidence            88888887655543

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.08  E-value=6.9e-07  Score=93.16  Aligned_cols=343  Identities=15%  Similarity=0.019  Sum_probs=165.2

Q ss_pred             HHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhC
Q 041741          386 KEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRI  465 (748)
Q Consensus       386 ~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  465 (748)
                      ..|+..+...++.  ..+...+-..+......|++.-+...+-......+. ....|..+.-.+.+..+++.|...|...
T Consensus       800 ~~Ai~c~KkaV~L--~ann~~~WnaLGVlsg~gnva~aQHCfIks~~sep~-~~~~W~NlgvL~l~n~d~E~A~~af~~~  876 (1238)
T KOG1127|consen  800 CTAIRCCKKAVSL--CANNEGLWNALGVLSGIGNVACAQHCFIKSRFSEPT-CHCQWLNLGVLVLENQDFEHAEPAFSSV  876 (1238)
T ss_pred             HHHHHHHHHHHHH--hhccHHHHHHHHHhhccchhhhhhhhhhhhhhcccc-chhheeccceeEEecccHHHhhHHHHhh
Confidence            3566666666554  344444444455555556666666665555443332 4455666666777888888888888888


Q ss_pred             CCCCcc---hHHHHHHHHHhCCCchHHHHHHHHH--H--HCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHh----
Q 041741          466 PELDIV---CWNSMIAGLSLNSLDIEAFMFFKQM--R--QNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKD----  534 (748)
Q Consensus       466 ~~~~~~---~~~~li~~~~~~~~~~~a~~~~~~m--~--~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----  534 (748)
                      ...++.   .|--........|+.-+++.+|..-  .  ..|--|+..-+..........|+.+.-+...+.+...    
T Consensus       877 qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al  956 (1238)
T KOG1127|consen  877 QSLDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLAL  956 (1238)
T ss_pred             hhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHH
Confidence            765443   4444444445567777777776652  1  1233344443434444445556655444444333221    


Q ss_pred             -----CCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcC-----CCCHHHHHH----HHHHHHHcCChhHHHHHHHHHHHc
Q 041741          535 -----GYVNDIFVGSALIEMYCKCGDIYGARQFFDMMH-----GKNTVTWNE----MIHGYAQNGYGDEAVRLYKDMIAS  600 (748)
Q Consensus       535 -----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~----l~~~~~~~~~~~~a~~~~~~m~~~  600 (748)
                           +.+.+...|........+.+.++.|.+...+..     +-+...|+.    ..+.++..|.++.|..-+...-. 
T Consensus       957 ~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~- 1035 (1238)
T KOG1127|consen  957 SYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWM- 1035 (1238)
T ss_pred             HHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccch-
Confidence                 333344555555555555555555555554432     123333442    23334444444433222211111 


Q ss_pred             CCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHH
Q 041741          601 GVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIW  677 (748)
Q Consensus       601 ~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~  677 (748)
                        ..+..+-..-+. ..-.++++++.+.|+++..-..-..+ +.....++-+....+..+.|...+-+..  .+++....
T Consensus      1036 --evdEdi~gt~l~-lFfkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~~ls~~~~~sl 1112 (1238)
T KOG1127|consen 1036 --EVDEDIRGTDLT-LFFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVKSLSKVQASSL 1112 (1238)
T ss_pred             --hHHHHHhhhhHH-HHHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHHHhCccchhhH
Confidence              111111111111 13356677777777766432222222 2233344455555666666666544442  34454444


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHh---cCCCCCcchHHHhHHHhhcCChHHHHHHHHHHH
Q 041741          678 EVLLSSCRLHANVRLAKRAAEELFR---LDPKNSAPYSLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       678 ~~l~~~~~~~~~~~~a~~~~~~~~~---~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      ..+...+.--.+-.......+++..   ..--.-..-...--+|..+|+..-..+++++..
T Consensus      1113 l~L~A~~ild~da~~ssaileel~kl~k~e~~~~~~~ll~e~i~~~~~r~~~vk~~~qr~~ 1173 (1238)
T KOG1127|consen 1113 LPLPAVYILDADAHGSSAILEELEKLLKLEWFCWPPGLLKELIYALQGRSVAVKKQIQRAV 1173 (1238)
T ss_pred             HHHHHHHHHhhhhhhhHHHHHHHHHhhhhHHhccChhHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            4444443333333333333333222   111122233344445666676666666666543

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.05  E-value=4e-08  Score=84.83  Aligned_cols=191  Identities=15%  Similarity=0.080  Sum_probs=123.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCC
Q 041741          544 SALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSG  620 (748)
Q Consensus       544 ~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~  620 (748)
                      ..|...|...|+...|..-+++..+   .+..+|..+...|.+.|+.+.|.+.|++..... +-+....|....-+|..|
T Consensus        39 lqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~qg  117 (250)
T COG3063          39 LQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQG  117 (250)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhCC
Confidence            3455566777777777777776654   234466667777777777777777777777642 223355666666667777


Q ss_pred             ChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHH
Q 041741          621 LVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAE  698 (748)
Q Consensus       621 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  698 (748)
                      ++++|...|++...+..+.....+|..++-|-.++|+.+.|...+++..  .+..+.....+.......|++..|...++
T Consensus       118 ~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~  197 (250)
T COG3063         118 RPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLYLE  197 (250)
T ss_pred             ChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHHHHH
Confidence            7777777777765443333345667777777777777777777776664  23345566666666667777777777777


Q ss_pred             HHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHH
Q 041741          699 ELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       699 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      ......+-+...+.+.+.+-...||-+.|-++=.++.
T Consensus       198 ~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~  234 (250)
T COG3063         198 RYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQ  234 (250)
T ss_pred             HHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            7666666566666666666777777766666555443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.04  E-value=2e-05  Score=80.72  Aligned_cols=94  Identities=12%  Similarity=0.095  Sum_probs=69.6

Q ss_pred             chHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCCCCeehHHHHHHHHHcCC
Q 041741          121 ITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTD  200 (748)
Q Consensus       121 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g  200 (748)
                      ..|...-.-+-..|+++.|..+|...+         -|-++++..|-+|+.++|-++-++-  .|......+.+.|-..|
T Consensus       913 ~L~~WWgqYlES~GemdaAl~~Y~~A~---------D~fs~VrI~C~qGk~~kAa~iA~es--gd~AAcYhlaR~YEn~g  981 (1416)
T KOG3617|consen  913 SLYSWWGQYLESVGEMDAALSFYSSAK---------DYFSMVRIKCIQGKTDKAARIAEES--GDKAACYHLARMYENDG  981 (1416)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHhh---------hhhhheeeEeeccCchHHHHHHHhc--ccHHHHHHHHHHhhhhH
Confidence            344444444556788888888877644         3667888888899999998887763  46666777899999999


Q ss_pred             CHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhcc
Q 041741          201 RVVEALEMFRLMIRKAVSIDSVSLSSVLGVCARE  234 (748)
Q Consensus       201 ~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~  234 (748)
                      ++.+|...|.+.+         +|+..|+.|..+
T Consensus       982 ~v~~Av~FfTrAq---------afsnAIRlcKEn 1006 (1416)
T KOG3617|consen  982 DVVKAVKFFTRAQ---------AFSNAIRLCKEN 1006 (1416)
T ss_pred             HHHHHHHHHHHHH---------HHHHHHHHHHhc
Confidence            9999999998875         456666666554

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.98  E-value=1.4e-07  Score=91.45  Aligned_cols=214  Identities=16%  Similarity=0.053  Sum_probs=145.3

Q ss_pred             CCchhHHHHHHHHHHh-CCCC--chHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHH
Q 041741          519 SSSFQGRQVHAQIEKD-GYVN--DIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVR  592 (748)
Q Consensus       519 ~~~~~a~~~~~~~~~~-~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~  592 (748)
                      +..+.+..-+.++... ...|  ....+..+...|...|++++|...|++..+   .+...|+.+...+...|++++|..
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            3445555555555543 2222  245677778888899999999999887764   467789999999999999999999


Q ss_pred             HHHHHHHcCCCCC-HHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCC
Q 041741          593 LYKDMIASGVKPD-DITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCK  671 (748)
Q Consensus       593 ~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  671 (748)
                      .|++..+.  .|+ ...+..+..++...|++++|++.+++..   ...|+..........+...+++++|...+++....
T Consensus       120 ~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al---~~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        120 AFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFY---QDDPNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            99999884  454 4677788888888999999999998885   33454332222333445677899999998665311


Q ss_pred             CCHhHHHHHHHHHHhcCCHHHHHHHHHHHH-------hcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          672 DDPVIWEVLLSSCRLHANVRLAKRAAEELF-------RLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       672 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      .++..|. ........|+...+ ..++.+.       ++.|+.+.+|..+|.++.+.|++++|+.+|++..+.++
T Consensus       195 ~~~~~~~-~~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        195 LDKEQWG-WNIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             CCccccH-HHHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            1222222 12222234444332 2333333       45666778899999999999999999999998876554

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.96  E-value=5.7e-07  Score=87.68  Aligned_cols=396  Identities=11%  Similarity=0.043  Sum_probs=209.5

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCC--CC-cchHHHHHHHHHccCCHHH
Q 041741          311 AGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPS--PS-VSSWNAMLSSYSQSENHKE  387 (748)
Q Consensus       311 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~-~~~~~~ll~~~~~~~~~~~  387 (748)
                      .+....|+++.|+.+|-....... ++...|..-..++...|++++|.+--.+-.+  |+ +..|+....++...|++++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p-~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~e   88 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSP-TNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEE   88 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCC-CccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHH
Confidence            455678899999999988877653 3777888888889999998888765544443  32 3468888888888889999


Q ss_pred             HHHHHHHHHHcCCCCCHh-hHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHH-----HHHhcCChHHHHHH
Q 041741          388 AIKLFREMQFRGVKPDRT-TLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIG-----IYSKCQRNELAERV  461 (748)
Q Consensus       388 a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-----~~~~~~~~~~a~~~  461 (748)
                      |+.-|.+-.+.  .|+.. .+..+..+...    +.+.        .....++.++..+..     .+.....+-.-+..
T Consensus        89 A~~ay~~GL~~--d~~n~~L~~gl~~a~~~----~~~~--------~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~  154 (539)
T KOG0548|consen   89 AILAYSEGLEK--DPSNKQLKTGLAQAYLE----DYAA--------DQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEI  154 (539)
T ss_pred             HHHHHHHHhhc--CCchHHHHHhHHHhhhH----HHHh--------hhhccCcHHHHHhhcChhhhhhhccHHHHHHHHH
Confidence            99888876664  45443 34444444311    1000        000001111111110     00001111111111


Q ss_pred             HhhCCCCCcch---HHHHHHHHHhC---C----------------Cch----HHHHHHHHHHH-CCCCCCHHHHHHHHHh
Q 041741          462 FHRIPELDIVC---WNSMIAGLSLN---S----------------LDI----EAFMFFKQMRQ-NEMYPTQFSFATVLSS  514 (748)
Q Consensus       462 ~~~~~~~~~~~---~~~li~~~~~~---~----------------~~~----~a~~~~~~m~~-~~~~p~~~~~~~l~~~  514 (748)
                      ++..+. ++..   ...++.+....   +                .+.    .......++.. ....--..-...+.++
T Consensus       155 ~~~~p~-~l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgna  233 (539)
T KOG0548|consen  155 IQKNPT-SLKLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNA  233 (539)
T ss_pred             hhcCcH-hhhcccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHH
Confidence            111110 0000   00011100000   0                000    00000000000 0000001123345555


Q ss_pred             hcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCC---HH-------HHHHHHHHHHHc
Q 041741          515 CAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKN---TV-------TWNEMIHGYAQN  584 (748)
Q Consensus       515 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~-------~~~~l~~~~~~~  584 (748)
                      ..+..+++.+.+-+.......  -++.-++....+|...|.+..+........+..   ..       .+..+..++.+.
T Consensus       234 aykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~k~  311 (539)
T KOG0548|consen  234 AYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYTKR  311 (539)
T ss_pred             HHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhH
Confidence            556666666666666666554  445555666666777776666665555443311   11       122234456666


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChh-HHHHHHHHHHhcCChHHHHH
Q 041741          585 GYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILD-HYTCMIDCLGRAGHFHEAEM  663 (748)
Q Consensus       585 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~  663 (748)
                      ++++.++..|++.+...-.|+..+         +....+++....+..   .-+.|... -...-+..+.+.|++..|+.
T Consensus       312 ~~~~~ai~~~~kaLte~Rt~~~ls---------~lk~~Ek~~k~~e~~---a~~~pe~A~e~r~kGne~Fk~gdy~~Av~  379 (539)
T KOG0548|consen  312 EDYEGAIKYYQKALTEHRTPDLLS---------KLKEAEKALKEAERK---AYINPEKAEEEREKGNEAFKKGDYPEAVK  379 (539)
T ss_pred             HhHHHHHHHHHHHhhhhcCHHHHH---------HHHHHHHHHHHHHHH---HhhChhHHHHHHHHHHHHHhccCHHHHHH
Confidence            777777777777666544443321         122233333333322   23344421 12233666777788888888


Q ss_pred             HHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          664 LIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       664 ~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .|.++.  .+.|+..|.....+|...|.+..|..-.+..++++|+....|..=+.++....+|++|.+.|++.++
T Consensus       380 ~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale  454 (539)
T KOG0548|consen  380 HYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALE  454 (539)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            777764  3345677777777777888888888888888888887777777778888888888888888777544

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.95  E-value=7.1e-07  Score=91.40  Aligned_cols=283  Identities=12%  Similarity=0.040  Sum_probs=173.1

Q ss_pred             HHHHhcCCHHHHHHHhccCCC--CC-cchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhc------
Q 041741          346 VACVRSGDIKTGREMFDSMPS--PS-VSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAA------  416 (748)
Q Consensus       346 ~~~~~~~~~~~a~~~~~~~~~--~~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~------  416 (748)
                      ..+...|++++|++.+..-..  .| ..........+.+.|+.++|..++..+..+  .|+...|...+..+..      
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~r--NPdn~~Yy~~L~~~~g~~~~~~   89 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDR--NPDNYDYYRGLEEALGLQLQLS   89 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHhhhcccc
Confidence            445667777777777766543  33 333445566777777777777777777776  4666665555544431      


Q ss_pred             cCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCc-hHHHHHHHH
Q 041741          417 MGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLD-IEAFMFFKQ  495 (748)
Q Consensus       417 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~-~~a~~~~~~  495 (748)
                      ..+.+...++++.+...-+..+                                 ....+.-.+.....+ ..+...+..
T Consensus        90 ~~~~~~~~~~y~~l~~~yp~s~---------------------------------~~~rl~L~~~~g~~F~~~~~~yl~~  136 (517)
T PF12569_consen   90 DEDVEKLLELYDELAEKYPRSD---------------------------------APRRLPLDFLEGDEFKERLDEYLRP  136 (517)
T ss_pred             cccHHHHHHHHHHHHHhCcccc---------------------------------chhHhhcccCCHHHHHHHHHHHHHH
Confidence            1123333344443333221111                                 000011011111111 234455566


Q ss_pred             HHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHh----C----------CCCch--HHHHHHHHHHHhcCCHHHH
Q 041741          496 MRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKD----G----------YVNDI--FVGSALIEMYCKCGDIYGA  559 (748)
Q Consensus       496 m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~----------~~~~~--~~~~~l~~~~~~~g~~~~A  559 (748)
                      +..+|+++   +|..|-..|.......-...++......    +          -+|+.  .++..+.+.|...|++++|
T Consensus       137 ~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~A  213 (517)
T PF12569_consen  137 QLRKGVPS---LFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKA  213 (517)
T ss_pred             HHhcCCch---HHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHH
Confidence            67777655   3444444444444444444444444322    1          13343  3446667888899999999


Q ss_pred             HHHhhhcCC--CC-HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhh
Q 041741          560 RQFFDMMHG--KN-TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDH  636 (748)
Q Consensus       560 ~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  636 (748)
                      .++++....  |. +..|..-.+.+-+.|++.+|.+.++...... .-|...-+-....+.+.|++++|..++.... ..
T Consensus       214 l~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ft-r~  291 (517)
T PF12569_consen  214 LEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFT-RE  291 (517)
T ss_pred             HHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhc-CC
Confidence            999998764  43 5678888899999999999999999999964 4555666667778899999999999998884 33


Q ss_pred             CCCCChhH--------HHHHHHHHHhcCChHHHHHHHhhC
Q 041741          637 GVEPILDH--------YTCMIDCLGRAGHFHEAEMLIDEM  668 (748)
Q Consensus       637 ~~~~~~~~--------~~~l~~~~~~~g~~~~A~~~~~~~  668 (748)
                      +..|....        ....+.+|.+.|++..|++.|..+
T Consensus       292 ~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v  331 (517)
T PF12569_consen  292 DVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAV  331 (517)
T ss_pred             CCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            43443322        235688999999999999877655

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 [], [].

>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=98.91  E-value=1.7e-08  Score=95.88  Aligned_cols=246  Identities=13%  Similarity=0.049  Sum_probs=130.3

Q ss_pred             HHhcCChHHHHHHHhhCCCCCc----chHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhH
Q 041741          449 YSKCQRNELAERVFHRIPELDI----VCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQG  524 (748)
Q Consensus       449 ~~~~~~~~~a~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a  524 (748)
                      +.-.|++..++.-.+ ....+.    ....-+.+++...|+.+.++   .++.... .|.......+...+...++-+.+
T Consensus        11 ~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~   85 (290)
T PF04733_consen   11 QFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESA   85 (290)
T ss_dssp             HHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCH
T ss_pred             HHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHH
Confidence            344677777765444 222221    23344556777777765443   3333322 55555555555544443444444


Q ss_pred             HHHHHHHHHhCCC-CchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCC
Q 041741          525 RQVHAQIEKDGYV-NDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVK  603 (748)
Q Consensus       525 ~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~  603 (748)
                      ..-++........ .+.........++...|++++|++++...  .+.......+..+.+.++++.|.+.++.|.+.  .
T Consensus        86 l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~  161 (290)
T PF04733_consen   86 LEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--D  161 (290)
T ss_dssp             HHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--S
T ss_pred             HHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--C
Confidence            4333332222222 22222223334455677777777777665  45566666777777777777787777777763  3


Q ss_pred             CCHHHHHHHHHHh----cCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHH
Q 041741          604 PDDITFVAILTAC----SHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIW  677 (748)
Q Consensus       604 p~~~~~~~l~~~~----~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~  677 (748)
                      .|. +...+..++    .-.+.+.+|..+|+++. + .+.+++.+.+.++.+....|++++|.+++++..  .+.++.++
T Consensus       162 eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~-~-~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~L  238 (290)
T PF04733_consen  162 EDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELS-D-KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTL  238 (290)
T ss_dssp             CCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHH-C-CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHH
T ss_pred             CcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHH-h-ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHH
Confidence            443 233333333    12235777777777763 2 234556666677777777777777777766653  23345566


Q ss_pred             HHHHHHHHhcCCH-HHHHHHHHHHHhcCCC
Q 041741          678 EVLLSSCRLHANV-RLAKRAAEELFRLDPK  706 (748)
Q Consensus       678 ~~l~~~~~~~~~~-~~a~~~~~~~~~~~p~  706 (748)
                      -.++-.....|+. +.+.+.+.++...+|+
T Consensus       239 aNliv~~~~~gk~~~~~~~~l~qL~~~~p~  268 (290)
T PF04733_consen  239 ANLIVCSLHLGKPTEAAERYLSQLKQSNPN  268 (290)
T ss_dssp             HHHHHHHHHTT-TCHHHHHHHHHCHHHTTT
T ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHhCCC
Confidence            5666555556655 5566666666666664

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.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.90  E-value=1.3e-06  Score=79.85  Aligned_cols=196  Identities=13%  Similarity=0.077  Sum_probs=128.7

Q ss_pred             HHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcC---CCCHHHHHHHHHHHHHcCChh
Q 041741          512 LSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMH---GKNTVTWNEMIHGYAQNGYGD  588 (748)
Q Consensus       512 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~  588 (748)
                      +..+...|+...+++....+.+.. +.+...+..-..+|...|++..|+.-++...   ..+.....-+...+...|+.+
T Consensus       162 l~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~  240 (504)
T KOG0624|consen  162 LKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAE  240 (504)
T ss_pred             HHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHH
Confidence            344556678888888777777643 4477777778888888888888876666544   467777777777888888888


Q ss_pred             HHHHHHHHHHHcCCCCCHHH----HHHH---H------HHhcCCCChHHHHHHHHHhhhhhCCCCC-----hhHHHHHHH
Q 041741          589 EAVRLYKDMIASGVKPDDIT----FVAI---L------TACSHSGLVDVGVEIFNSMQLDHGVEPI-----LDHYTCMID  650 (748)
Q Consensus       589 ~a~~~~~~m~~~~~~p~~~~----~~~l---~------~~~~~~~~~~~A~~~~~~~~~~~~~~~~-----~~~~~~l~~  650 (748)
                      .++...++-++  +.||...    |..|   .      ......++|.++++..+...   ...|.     ...+..+-.
T Consensus       241 ~sL~~iRECLK--ldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vl---k~ep~~~~ir~~~~r~~c~  315 (504)
T KOG0624|consen  241 NSLKEIRECLK--LDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVL---KNEPEETMIRYNGFRVLCT  315 (504)
T ss_pred             HHHHHHHHHHc--cCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH---hcCCcccceeeeeeheeee
Confidence            88888888777  4666632    2111   1      12244566666666666553   22333     233455666


Q ss_pred             HHHhcCChHHHHHHHhhCC-CCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHH
Q 041741          651 CLGRAGHFHEAEMLIDEMP-CKDD-PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSL  713 (748)
Q Consensus       651 ~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  713 (748)
                      ++...|++-+|+....+.. ..|+ ..++..-..+|....+++.|++-|+++.+.+|+|..+-.-
T Consensus       316 C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~reG  380 (504)
T KOG0624|consen  316 CYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRAREG  380 (504)
T ss_pred             cccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHHHHH
Confidence            6777777788887777765 4443 5555555666766677788888888888887766554333

>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=2.2e-07  Score=88.44  Aligned_cols=221  Identities=9%  Similarity=0.033  Sum_probs=140.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHH-HHHHHhhcCCCCc
Q 041741          443 SGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSF-ATVLSSCAKLSSS  521 (748)
Q Consensus       443 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~l~~~~~~~~~~  521 (748)
                      ..+.++|...|+.+.++.-+..-..|.......+...+...++-+.++.-+++.......++..++ ......+...|++
T Consensus        39 ~~~~Rs~iAlg~~~~vl~ei~~~~~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~  118 (290)
T PF04733_consen   39 FYQYRSYIALGQYDSVLSEIKKSSSPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDY  118 (290)
T ss_dssp             HHHHHHHHHTT-HHHHHHHS-TTSSCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHH
T ss_pred             HHHHHHHHHcCChhHHHHHhccCCChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCH
Confidence            344566666666665555544444444444444443333334445555555544433333333333 3333456778888


Q ss_pred             hhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCC-CHHHHHHHHHHHHH----cCChhHHHHHHHH
Q 041741          522 FQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGK-NTVTWNEMIHGYAQ----NGYGDEAVRLYKD  596 (748)
Q Consensus       522 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~a~~~~~~  596 (748)
                      +.|.+++...      .+.......+.+|.+.++++.|.+.++.|.+- +-.+...++.++..    .+.+.+|..+|++
T Consensus       119 ~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~E  192 (290)
T PF04733_consen  119 EEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEE  192 (290)
T ss_dssp             HHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHH
T ss_pred             HHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            8888777542      45677778899999999999999999999862 22233334433332    3469999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHHHhcCCh-HHHHHHHhhCC-CCCC
Q 041741          597 MIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCLGRAGHF-HEAEMLIDEMP-CKDD  673 (748)
Q Consensus       597 m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~-~~~~  673 (748)
                      +.+. +.++..+++.+..++...|++++|.+++++..   ...| +.+++..++-+....|+. +.+.+++.++. ..|+
T Consensus       193 l~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al---~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~  268 (290)
T PF04733_consen  193 LSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEAL---EKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSNPN  268 (290)
T ss_dssp             HHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHC---CC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTTT
T ss_pred             HHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH---HhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCCC
Confidence            8775 67888999999999999999999999999874   2334 366777888888888887 66778888886 3444

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.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.88  E-value=8.8e-06  Score=85.26  Aligned_cols=561  Identities=13%  Similarity=0.036  Sum_probs=269.0

Q ss_pred             ChhHHHHHHHHHHhCCCCCC-cchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHH
Q 041741          100 LEEKALSVYNKMSNEGFVPT-HITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVF  178 (748)
Q Consensus       100 ~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  178 (748)
                      +...++..|-+..+.  .|+ ...|..+-..|+...|...|.+.|+...+.+ ..+........+.|++..+++.|..+.
T Consensus       473 ~~~~al~ali~alrl--d~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~  549 (1238)
T KOG1127|consen  473 NSALALHALIRALRL--DVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEIC  549 (1238)
T ss_pred             hHHHHHHHHHHHHhc--ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHH
Confidence            366676666665543  222 2245555555555556666666666655544 234455666666666666666666552


Q ss_pred             hcCCCC-----CeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhccCCCCCcchhcccccccccc
Q 041741          179 EEMSEP-----NEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRN  253 (748)
Q Consensus       179 ~~~~~~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~  253 (748)
                      -...+.     -...|....-.+...++...|+.-|+...+.                                      
T Consensus       550 l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~--------------------------------------  591 (1238)
T KOG1127|consen  550 LRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRT--------------------------------------  591 (1238)
T ss_pred             HHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcC--------------------------------------
Confidence            222111     1112222333344445555555544444321                                      


Q ss_pred             cchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHHHHHhccCCCCCcc-cHHHHH--HHHHhcCChhHHHHHHHHHH
Q 041741          254 VHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVV-SWNVMI--AGYGQKYQSTKAIELLQRMK  330 (748)
Q Consensus       254 ~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~l~--~~~~~~~~~~~a~~~~~~m~  330 (748)
                                    -+-|...+..+..+|.++|++..|.++|.+...-++. .|...-  ...+..|.+.++++.+....
T Consensus       592 --------------dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeald~l~~ii  657 (1238)
T KOG1127|consen  592 --------------DPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEALDALGLII  657 (1238)
T ss_pred             --------------CchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence                          1235566778889999999999999999777654443 233322  23456788888888887765


Q ss_pred             hc------CCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCC-----------CCcchHHHHHHHHHccCCHHHHHHHHH
Q 041741          331 SC------GFEPDEVTSINMLVACVRSGDIKTGREMFDSMPS-----------PSVSSWNAMLSSYSQSENHKEAIKLFR  393 (748)
Q Consensus       331 ~~------g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----------~~~~~~~~ll~~~~~~~~~~~a~~~~~  393 (748)
                      ..      +..--..++..+...+.-.|-...+.+.++.-.+           .+...|-.+-          .|..+|-
T Consensus       658 ~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~as----------dac~~f~  727 (1238)
T KOG1127|consen  658 YAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVAS----------DACYIFS  727 (1238)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHh----------HHHHHHH
Confidence            42      1111222333333333333333333333332211           1111111111          1222222


Q ss_pred             HHHHcCCCCCHhhHHHHHHHhhccCCh---H---HHHHHHHHHHhhcCCchhHHHHHHHHHHHh--------cCChHHHH
Q 041741          394 EMQFRGVKPDRTTLAIILSSCAAMGIL---E---SGKQVHAASLKTASHIDNYVASGLIGIYSK--------CQRNELAE  459 (748)
Q Consensus       394 ~m~~~g~~p~~~~~~~ll~~~~~~~~~---~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--------~~~~~~a~  459 (748)
                      ... .. .|+......+..-.-..+..   +   .+.+.+-.-.+.  ..+...+..++..|.+        ..+...|.
T Consensus       728 q~e-~~-~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl--~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai  803 (1238)
T KOG1127|consen  728 QEE-PS-IVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSL--AIHMYPWYNLGINYLRYFLLLGETMKDACTAI  803 (1238)
T ss_pred             Hhc-cc-chHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHH--hhccchHHHHhHHHHHHHHHcCCcchhHHHHH
Confidence            221 00 22222222222212222221   1   000111000000  0112222222222221        11223566


Q ss_pred             HHHhhCCC---CCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCC
Q 041741          460 RVFHRIPE---LDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGY  536 (748)
Q Consensus       460 ~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  536 (748)
                      ..+....+   .+...||.|.-. ...|.+.-+..-|-+-.... +....+|..+.-.+....+++.|...|....... 
T Consensus       804 ~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLd-  880 (1238)
T KOG1127|consen  804 RCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLD-  880 (1238)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcC-
Confidence            66665553   344456655444 44556655555554444332 3355677777777778888888888887766543 


Q ss_pred             CCchHHHHHHHHHHHhcCCHHHHHHHhhhcC-----C---CCHHHHHHHHHHHHHcCChhHHHHH----------HHHHH
Q 041741          537 VNDIFVGSALIEMYCKCGDIYGARQFFDMMH-----G---KNTVTWNEMIHGYAQNGYGDEAVRL----------YKDMI  598 (748)
Q Consensus       537 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~---~~~~~~~~l~~~~~~~~~~~~a~~~----------~~~m~  598 (748)
                      +.+...|--........|+.-++..+|..-.     +   ++..-|.........+|+.++-+..          +++..
T Consensus       881 P~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf  960 (1238)
T KOG1127|consen  881 PLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYF  960 (1238)
T ss_pred             chhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHH
Confidence            1122223222222334566666666655411     1   3333333333344455554443333          23333


Q ss_pred             HcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHH----HHHHHHHhcCChHHHHHHHhhCCCCCCH
Q 041741          599 ASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYT----CMIDCLGRAGHFHEAEMLIDEMPCKDDP  674 (748)
Q Consensus       599 ~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~~~~~  674 (748)
                      . |.+-+...|...+....+.+.+..|.++..++..-...+.+...|+    ..++.++..|.++.|...+.......+.
T Consensus       961 ~-~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~evdE 1039 (1238)
T KOG1127|consen  961 L-GHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWMEVDE 1039 (1238)
T ss_pred             h-cCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccchhHHH
Confidence            3 2333445666666666677777777666665432112222222233    4556667777777776666554433333


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC---cchHHHhHHHhhcCChHHHHHHHHHH
Q 041741          675 VIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS---APYSLLANIYSSLGRWDDLRAVRELM  734 (748)
Q Consensus       675 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~  734 (748)
                      .....-+.. .-.|+++++.+.|++++.+...+.   .....++.+...+|..+.|...+-+-
T Consensus      1040 di~gt~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~ 1101 (1238)
T KOG1127|consen 1040 DIRGTDLTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEV 1101 (1238)
T ss_pred             HHhhhhHHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHH
Confidence            333333333 234677778888888777643322   33444555555666666666654443

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.84  E-value=8.4e-08  Score=94.12  Aligned_cols=214  Identities=13%  Similarity=0.051  Sum_probs=158.2

Q ss_pred             CCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHH
Q 041741          517 KLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRL  593 (748)
Q Consensus       517 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~  593 (748)
                      +.|++..|.-.|+...+.. |-+...|..|.......++-..|+..+.++.+   .|....-.|..+|...|.-..|++.
T Consensus       297 ~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~~  375 (579)
T KOG1125|consen  297 KNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALKM  375 (579)
T ss_pred             hcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHHH
Confidence            4455666655565555543 33566666666666677777777777776664   3566677777788888887888888


Q ss_pred             HHHHHHcCCCCCHHHHHHHH-----------HHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHH
Q 041741          594 YKDMIASGVKPDDITFVAIL-----------TACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAE  662 (748)
Q Consensus       594 ~~~m~~~~~~p~~~~~~~l~-----------~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  662 (748)
                      ++.-+...  |...   .+.           ..+.....+....++|-.+....+.++|.+....|+-.|.-.|.+++|.
T Consensus       376 L~~Wi~~~--p~y~---~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  376 LDKWIRNK--PKYV---HLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHhC--ccch---hccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            87766532  1111   111           1222233345556666666566676678888899999999999999999


Q ss_pred             HHHhhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          663 MLIDEMP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       663 ~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .-|+.+. .+| |...|+.|+..+....+.++|+..|.+++++.|.-.-+.+.||..|...|.+++|.++|=....
T Consensus       451 Dcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  451 DCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            9999885 444 7889999999999999999999999999999999999999999999999999999998876543

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.81  E-value=2.6e-07  Score=87.08  Aligned_cols=180  Identities=12%  Similarity=0.029  Sum_probs=120.4

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHhhhcCC--CC-H---HHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH----H
Q 041741          539 DIFVGSALIEMYCKCGDIYGARQFFDMMHG--KN-T---VTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDI----T  608 (748)
Q Consensus       539 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~---~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~----~  608 (748)
                      .+..+..+...+...|++++|...|+++..  |+ .   ..+..+..++...|++++|...++++.+.  .|+..    +
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a  109 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL--HPNHPDADYA  109 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCchHHH
Confidence            455666777778888888888888887653  32 2   35666777888888888888888888774  33221    3


Q ss_pred             HHHHHHHhcCC--------CChHHHHHHHHHhhhhhCCCCChh-HHHHHHHHHHhcCChHHHHHHHhhCCCCCCHhHHHH
Q 041741          609 FVAILTACSHS--------GLVDVGVEIFNSMQLDHGVEPILD-HYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEV  679 (748)
Q Consensus       609 ~~~l~~~~~~~--------~~~~~A~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  679 (748)
                      +..+..++...        |++++|.+.++++...   .|+.. ....+.....    .....           ......
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~~~----~~~~~-----------~~~~~~  171 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRMDY----LRNRL-----------AGKELY  171 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHHHH----HHHHH-----------HHHHHH
Confidence            44555555443        6677778877777422   33321 1211111100    00000           011124


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCC---cchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          680 LLSSCRLHANVRLAKRAAEELFRLDPKNS---APYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       680 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      +...+...|++++|...++++++..|+++   .++..++.++...|++++|..+++.+..+.
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            55668889999999999999999988654   689999999999999999999999887654

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).

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.80  E-value=7.8e-06  Score=82.81  Aligned_cols=255  Identities=8%  Similarity=-0.073  Sum_probs=156.0

Q ss_pred             HHHhCCCchHHHHHHHHHHHCCCCCCHHHHHH---HHHhhcCCCCchhHHHHHHHHHHhCCCC-chHHHHHHHHHHHhcC
Q 041741          479 GLSLNSLDIEAFMFFKQMRQNEMYPTQFSFAT---VLSSCAKLSSSFQGRQVHAQIEKDGYVN-DIFVGSALIEMYCKCG  554 (748)
Q Consensus       479 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~---l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g  554 (748)
                      .+...|++++|.+.+++..... +.+...+..   ........+....+.+.+..  .....| .......+...+...|
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G  128 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAG  128 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcC
Confidence            4456778888888888877652 223333331   11111223444444444433  112222 3344455667788899


Q ss_pred             CHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCC-CCCH--HHHHHHHHHhcCCCChHHHHHH
Q 041741          555 DIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGV-KPDD--ITFVAILTACSHSGLVDVGVEI  628 (748)
Q Consensus       555 ~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~--~~~~~l~~~~~~~~~~~~A~~~  628 (748)
                      ++++|.+.+++..+   .+...+..+...+...|++++|...+++...... .|+.  ..|..+...+...|++++|+.+
T Consensus       129 ~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~  208 (355)
T cd05804         129 QYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAI  208 (355)
T ss_pred             CHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHH
Confidence            99999999988764   3566778888889999999999999998887531 1222  2355677888899999999999


Q ss_pred             HHHhhhhhCCCCChhHH-H--HHHHHHHhcCChHHHHHH--H-hhCC-CCCC---HhHHHHHHHHHHhcCCHHHHHHHHH
Q 041741          629 FNSMQLDHGVEPILDHY-T--CMIDCLGRAGHFHEAEML--I-DEMP-CKDD---PVIWEVLLSSCRLHANVRLAKRAAE  698 (748)
Q Consensus       629 ~~~~~~~~~~~~~~~~~-~--~l~~~~~~~g~~~~A~~~--~-~~~~-~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~  698 (748)
                      +++........+..... .  .+...+...|..+.+..+  + .... ..+.   ..........+...|+.+.|...++
T Consensus       209 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~  288 (355)
T cd05804         209 YDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLA  288 (355)
T ss_pred             HHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHH
Confidence            98873221111221111 1  233334445543333333  1 1111 1111   1222245556778899999999998


Q ss_pred             HHHhcCCC---------CCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          699 ELFRLDPK---------NSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       699 ~~~~~~p~---------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .+....-.         ........+.+++..|++++|.+.+.....
T Consensus       289 ~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~  335 (355)
T cd05804         289 ALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRD  335 (355)
T ss_pred             HHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            87664321         345678888999999999999999998765

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.

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.79  E-value=4e-07  Score=81.72  Aligned_cols=119  Identities=6%  Similarity=0.042  Sum_probs=89.5

Q ss_pred             CCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHH-HHhcCC--HHHH
Q 041741          619 SGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSS-CRLHAN--VRLA  693 (748)
Q Consensus       619 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~-~~~~~~--~~~a  693 (748)
                      .++.++++..+++...  ..+.+...|..++..|...|++++|...+++..  .+.++..+..+..+ +...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~--~~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            5566677766666532  223446778888888888888888888888774  33466777777775 356666  5888


Q ss_pred             HHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          694 KRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       694 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      .+.++++++.+|+++.++..++..+...|++++|+.+|+++.+...
T Consensus       130 ~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~  175 (198)
T PRK10370        130 REMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDLNS  175 (198)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            8888888888888888888888888888888888888888876544

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.73  E-value=4.1e-07  Score=81.37  Aligned_cols=199  Identities=10%  Similarity=-0.004  Sum_probs=161.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHhhhcCC--C-CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHH-HHHHhcC
Q 041741          543 GSALIEMYCKCGDIYGARQFFDMMHG--K-NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVA-ILTACSH  618 (748)
Q Consensus       543 ~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-l~~~~~~  618 (748)
                      +++.+..+.+..++.+|.+++..-.+  | +....+.|..+|....++..|-..++++...  .|...-|.. -.+.+.+
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY~   90 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLYK   90 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHHH
Confidence            45666667788899999998876554  2 5667888899999999999999999999884  677766553 3456778


Q ss_pred             CCChHHHHHHHHHhhhhhCCCCC--hhHHHHHHHHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHH
Q 041741          619 SGLVDVGVEIFNSMQLDHGVEPI--LDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRA  696 (748)
Q Consensus       619 ~~~~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  696 (748)
                      .+.+.+|+.+...|. +   .|.  ......-..+....+++..+..++++.+...+.++.....-...+.|+++.|.+-
T Consensus        91 A~i~ADALrV~~~~~-D---~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqk  166 (459)
T KOG4340|consen   91 ACIYADALRVAFLLL-D---NPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQK  166 (459)
T ss_pred             hcccHHHHHHHHHhc-C---CHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHH
Confidence            889999999988873 2   233  2223333445667899999999999998777888877777777889999999999


Q ss_pred             HHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCCCCCCCCCC
Q 041741          697 AEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAYSL  747 (748)
Q Consensus       697 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  747 (748)
                      ++.+++...=+|..-+.++-++++.|+++.|+++..++.++|++..|.+.-
T Consensus       167 FqaAlqvsGyqpllAYniALaHy~~~qyasALk~iSEIieRG~r~HPElgI  217 (459)
T KOG4340|consen  167 FQAALQVSGYQPLLAYNLALAHYSSRQYASALKHISEIIERGIRQHPELGI  217 (459)
T ss_pred             HHHHHhhcCCCchhHHHHHHHHHhhhhHHHHHHHHHHHHHhhhhcCCccCc
Confidence            999999988888999999999999999999999999999999999997653

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.71  E-value=1.7e-07  Score=79.47  Aligned_cols=120  Identities=13%  Similarity=0.060  Sum_probs=62.4

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHhhCC-
Q 041741          592 RLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCLGRAGHFHEAEMLIDEMP-  669 (748)
Q Consensus       592 ~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-  669 (748)
                      .++++..+  +.|+.  +..+..++...|++++|...|+.+.   ...| +...+..++.++.+.|++++|...|++.. 
T Consensus        14 ~~~~~al~--~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al---~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~   86 (144)
T PRK15359         14 DILKQLLS--VDPET--VYASGYASWQEGDYSRAVIDFSWLV---MAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALM   86 (144)
T ss_pred             HHHHHHHH--cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHH---HcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            34444444  23432  3334445555556666655555553   2223 24445555555555555555555555553 


Q ss_pred             -CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHH
Q 041741          670 -CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIY  718 (748)
Q Consensus       670 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  718 (748)
                       .+.++..+..++.++...|++++|...++++++..|+++..+..++.+.
T Consensus        87 l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~  136 (144)
T PRK15359         87 LDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQ  136 (144)
T ss_pred             cCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence             2334555555555555555555556666555555555555555555444

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.69  E-value=2.3e-07  Score=78.63  Aligned_cols=108  Identities=11%  Similarity=-0.001  Sum_probs=90.8

Q ss_pred             HHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041741          627 EIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLD  704 (748)
Q Consensus       627 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  704 (748)
                      .++++..   .+.|+  .+..++..+...|++++|...++...  .+.+...+..++..+...|++++|...++++++++
T Consensus        14 ~~~~~al---~~~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLL---SVDPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHH---HcCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            4444443   34454  35567888999999999999999885  34478888999999999999999999999999999


Q ss_pred             CCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          705 PKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       705 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      |+++.++..++.++...|+.++|...|+...+..+
T Consensus        89 p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p  123 (144)
T PRK15359         89 ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSY  123 (144)
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999998766443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.67  E-value=5.8e-05  Score=74.13  Aligned_cols=425  Identities=12%  Similarity=0.014  Sum_probs=253.2

Q ss_pred             HHHHhcCChhHHHHHhccCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHhcCCHH
Q 041741          280 DMYAKNGDMDSAEVIFSNLPE---RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPD-EVTSINMLVACVRSGDIK  355 (748)
Q Consensus       280 ~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~  355 (748)
                      .+.+..|+++.|..+|.....   +|.+.|.--..+|+..|++++|++=-.+-.+.  .|+ ..-|.-.-.++.-.|+++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~~~   87 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGDYE   87 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcccHH
Confidence            456788999999999987543   56778889999999999999999877666654  444 356888888999999999


Q ss_pred             HHHHHhccCCC---CCcchHHHHHHHHHccCCHHHH-HHHHHH--HHHcCCCCCH--------hhHHHHHHHhhccCChH
Q 041741          356 TGREMFDSMPS---PSVSSWNAMLSSYSQSENHKEA-IKLFRE--MQFRGVKPDR--------TTLAIILSSCAAMGILE  421 (748)
Q Consensus       356 ~a~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~a-~~~~~~--m~~~g~~p~~--------~~~~~ll~~~~~~~~~~  421 (748)
                      +|+..|.+-.+   .|...++-+..++    ..+.+ .+.|..  |. .++.-++        ..|..++....+...  
T Consensus        88 eA~~ay~~GL~~d~~n~~L~~gl~~a~----~~~~~~~~~~~~p~~~-~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~--  160 (539)
T KOG0548|consen   88 EAILAYSEGLEKDPSNKQLKTGLAQAY----LEDYAADQLFTKPYFH-EKLANLPLTNYSLSDPAYVKILEIIQKNPT--  160 (539)
T ss_pred             HHHHHHHHHhhcCCchHHHHHhHHHhh----hHHHHhhhhccCcHHH-HHhhcChhhhhhhccHHHHHHHHHhhcCcH--
Confidence            99999998875   3445566666666    11111 111110  00 0111111        122222222111100  


Q ss_pred             HHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHH---------hhCCC--CC-------------cchHHHHH
Q 041741          422 SGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVF---------HRIPE--LD-------------IVCWNSMI  477 (748)
Q Consensus       422 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~---------~~~~~--~~-------------~~~~~~li  477 (748)
                              -+..... ++.+...+.......-....+....         ....+  +.             ..-...+.
T Consensus       161 --------~l~~~l~-d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lg  231 (539)
T KOG0548|consen  161 --------SLKLYLN-DPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELG  231 (539)
T ss_pred             --------hhhcccc-cHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHH
Confidence                    0000000 1111111110000000000000000         00000  00             01234466


Q ss_pred             HHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCc------hHHHHHHHHHHH
Q 041741          478 AGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVND------IFVGSALIEMYC  551 (748)
Q Consensus       478 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~  551 (748)
                      +..-+..++..|++.+.......  -+..-++..-.++...|.+......-....+.|...-      ...+..+..+|.
T Consensus       232 naaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~  309 (539)
T KOG0548|consen  232 NAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYT  309 (539)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhh
Confidence            67777788888888888887653  3333445555667777777776666655555443221      111222344677


Q ss_pred             hcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHhcCCCChHHHHHHHH
Q 041741          552 KCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDI-TFVAILTACSHSGLVDVGVEIFN  630 (748)
Q Consensus       552 ~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~A~~~~~  630 (748)
                      +.++++.|...|.+...+...     -....+....++++...+...-  +.|... -...-...+.+.|++..|+..|.
T Consensus       310 k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~--~~pe~A~e~r~kGne~Fk~gdy~~Av~~Yt  382 (539)
T KOG0548|consen  310 KREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAY--INPEKAEEEREKGNEAFKKGDYPEAVKHYT  382 (539)
T ss_pred             hHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHh--hChhHHHHHHHHHHHHHhccCHHHHHHHHH
Confidence            788899999999875532111     1122233445666666665554  344442 22333667789999999999999


Q ss_pred             HhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 041741          631 SMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS  708 (748)
Q Consensus       631 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  708 (748)
                      +++...  +-|...|..-+-+|.+.|.+..|++=.+...  .++....|..-+.++....++++|.+.|+++++.+|++.
T Consensus       383 eAIkr~--P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~~~  460 (539)
T KOG0548|consen  383 EAIKRD--PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPSNA  460 (539)
T ss_pred             HHHhcC--CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhH
Confidence            985332  4457789999999999999999998776664  233345555555567777899999999999999999999


Q ss_pred             cchHHHhHHHhhcCChHHHHHHHHH
Q 041741          709 APYSLLANIYSSLGRWDDLRAVREL  733 (748)
Q Consensus       709 ~~~~~l~~~~~~~g~~~~A~~~~~~  733 (748)
                      .+...+.++.......+...++++.
T Consensus       461 e~~~~~~rc~~a~~~~~~~ee~~~r  485 (539)
T KOG0548|consen  461 EAIDGYRRCVEAQRGDETPEETKRR  485 (539)
T ss_pred             HHHHHHHHHHHHhhcCCCHHHHHHh
Confidence            9888888888775555555555554

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.66  E-value=9.2e-05  Score=68.21  Aligned_cols=300  Identities=9%  Similarity=0.022  Sum_probs=182.0

Q ss_pred             HHHHHHhcCCHHHHHHHhccCCCCCcchHHHHH---HHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHH-HHHhhccCC
Q 041741          344 MLVACVRSGDIKTGREMFDSMPSPSVSSWNAML---SSYSQSENHKEAIKLFREMQFRGVKPDRTTLAII-LSSCAAMGI  419 (748)
Q Consensus       344 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll---~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l-l~~~~~~~~  419 (748)
                      +-..+...|++.+|+.-|....+.|+..|.++.   ..|...|...-|+.-+....+.  +||-..-..- -..+.+.|.
T Consensus        44 lGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~Ge  121 (504)
T KOG0624|consen   44 LGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQGE  121 (504)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhccc
Confidence            344555566666666666666666665555543   3556666666666666555543  5553322111 122345555


Q ss_pred             hHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHC
Q 041741          420 LESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQN  499 (748)
Q Consensus       420 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  499 (748)
                      ++.|..-|..++++.++....     ..++.+..-.++-.            .....+..+...|+...|+.....+.+.
T Consensus       122 le~A~~DF~~vl~~~~s~~~~-----~eaqskl~~~~e~~------------~l~~ql~s~~~~GD~~~ai~~i~~llEi  184 (504)
T KOG0624|consen  122 LEQAEADFDQVLQHEPSNGLV-----LEAQSKLALIQEHW------------VLVQQLKSASGSGDCQNAIEMITHLLEI  184 (504)
T ss_pred             HHHHHHHHHHHHhcCCCcchh-----HHHHHHHHhHHHHH------------HHHHHHHHHhcCCchhhHHHHHHHHHhc
Confidence            555555555555544322110     00011000000000            1122344455677777888877777754


Q ss_pred             CCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--CCHH----H
Q 041741          500 EMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG--KNTV----T  573 (748)
Q Consensus       500 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~----~  573 (748)
                      . +-+...+..-..+|...|++..|+.=+....+.... ++..+.-+-..+...|+.+.++...+++.+  ||..    .
T Consensus       185 ~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~Cf~~  262 (504)
T KOG0624|consen  185 Q-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDHKLCFPF  262 (504)
T ss_pred             C-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcchhhHHHH
Confidence            2 335666666677778888888887777766665433 344445566777788888888888887765  3321    1


Q ss_pred             HHHH---------HHHHHHcCChhHHHHHHHHHHHcCCCCCH--H---HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCC
Q 041741          574 WNEM---------IHGYAQNGYGDEAVRLYKDMIASGVKPDD--I---TFVAILTACSHSGLVDVGVEIFNSMQLDHGVE  639 (748)
Q Consensus       574 ~~~l---------~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~---~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  639 (748)
                      |..+         +......++|.++++..+...+.  .|..  .   .+..+..++...|++.+|+....+..   .+.
T Consensus       263 YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~--ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL---~~d  337 (504)
T KOG0624|consen  263 YKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN--EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVL---DID  337 (504)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc--CCcccceeeeeeheeeecccccCCHHHHHHHHHHHH---hcC
Confidence            2111         22345678888898888888875  4442  2   34455666778899999999998875   667


Q ss_pred             CC-hhHHHHHHHHHHhcCChHHHHHHHhhCC
Q 041741          640 PI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       640 ~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  669 (748)
                      |+ +.++-.-+++|.-..++++|+.-|+...
T Consensus       338 ~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~  368 (504)
T KOG0624|consen  338 PDDVQVLCDRAEAYLGDEMYDDAIHDYEKAL  368 (504)
T ss_pred             chHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            76 8888888999999999999999998875

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.66  E-value=1.9e-05  Score=91.03  Aligned_cols=257  Identities=12%  Similarity=-0.012  Sum_probs=125.6

Q ss_pred             HHhCCCchHHHHHHHHHHHCCCCCCH----HHHHHHHHhhcCCCCchhHHHHHHHHHHh----CCC-CchHHHHHHHHHH
Q 041741          480 LSLNSLDIEAFMFFKQMRQNEMYPTQ----FSFATVLSSCAKLSSSFQGRQVHAQIEKD----GYV-NDIFVGSALIEMY  550 (748)
Q Consensus       480 ~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~  550 (748)
                      +...|++++|...+++....-...+.    .....+...+...|+++.|...+......    |.. ........+...+
T Consensus       462 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~  541 (903)
T PRK04841        462 AINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEIL  541 (903)
T ss_pred             HHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHH
Confidence            34566666666666655442111111    12233344455566666666666555432    110 0122334445555


Q ss_pred             HhcCCHHHHHHHhhhcCC-------C----CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcC--CCCC--HHHHHHHHHH
Q 041741          551 CKCGDIYGARQFFDMMHG-------K----NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASG--VKPD--DITFVAILTA  615 (748)
Q Consensus       551 ~~~g~~~~A~~~~~~~~~-------~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--~~p~--~~~~~~l~~~  615 (748)
                      ...|+++.|...+++...       +    ....+..+...+...|++++|...+++.....  ..+.  ...+..+...
T Consensus       542 ~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  621 (903)
T PRK04841        542 FAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKI  621 (903)
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHH
Confidence            666676666666554321       0    11223344455555677777766666654421  1111  1233344455


Q ss_pred             hcCCCChHHHHHHHHHhhhhhCCCCChhHH-----HHHHHHHHhcCChHHHHHHHhhCCCC--CCHh----HHHHHHHHH
Q 041741          616 CSHSGLVDVGVEIFNSMQLDHGVEPILDHY-----TCMIDCLGRAGHFHEAEMLIDEMPCK--DDPV----IWEVLLSSC  684 (748)
Q Consensus       616 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~----~~~~l~~~~  684 (748)
                      +...|+++.|...+++.............+     ......+...|+.+.|..++......  ....    .+..+...+
T Consensus       622 ~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~  701 (903)
T PRK04841        622 SLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQ  701 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHH
Confidence            566677777766666653211111100000     01123334466677777666555311  1111    123344455


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCC------CCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          685 RLHANVRLAKRAAEELFRLDPK------NSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       685 ~~~~~~~~a~~~~~~~~~~~p~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      ...|++++|...+++++.....      ...++..++.++...|+.++|...++++.+
T Consensus       702 ~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~  759 (903)
T PRK04841        702 ILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALK  759 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6667777777777776664211      123456666777777777777777666654

>PLN02789 farnesyltranstransferase

Probab=98.57  E-value=2e-05  Score=76.28  Aligned_cols=212  Identities=10%  Similarity=0.007  Sum_probs=132.0

Q ss_pred             CchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcC-CHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCCh--hHHHHH
Q 041741          520 SSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCG-DIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYG--DEAVRL  593 (748)
Q Consensus       520 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~--~~a~~~  593 (748)
                      ..++|..+...+.+.. +-+..+|+....++.+.| ++++++..++.+.+   ++..+|+.....+.+.|+.  ++++..
T Consensus        52 ~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~  130 (320)
T PLN02789         52 RSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEF  130 (320)
T ss_pred             CCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHH
Confidence            3444444444444332 112233333334444445 46777777766553   3445566555555555542  567777


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhc---CCh----HHHHHHHh
Q 041741          594 YKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRA---GHF----HEAEMLID  666 (748)
Q Consensus       594 ~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~----~~A~~~~~  666 (748)
                      ++++++.. +-|...|.....++...|+++++++.++++... . .-+...|.....++.+.   |..    +++..+..
T Consensus       131 ~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~-d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~  207 (320)
T PLN02789        131 TRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEE-D-VRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTI  207 (320)
T ss_pred             HHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-C-CCchhHHHHHHHHHHhccccccccccHHHHHHHHH
Confidence            87887753 345567777777777778888888888887522 1 22244455555554443   222    45666664


Q ss_pred             hC-C-CCCCHhHHHHHHHHHHhc----CCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcC------------------
Q 041741          667 EM-P-CKDDPVIWEVLLSSCRLH----ANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLG------------------  722 (748)
Q Consensus       667 ~~-~-~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g------------------  722 (748)
                      ++ . .+.+...|..+...+...    +...+|...+.+++..+|+++.++..|+.+|....                  
T Consensus       208 ~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~  287 (320)
T PLN02789        208 DAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELS  287 (320)
T ss_pred             HHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccccc
Confidence            44 3 344677888888777663    34566889999999999999999999999998643                  


Q ss_pred             ChHHHHHHHHHHH
Q 041741          723 RWDDLRAVRELMS  735 (748)
Q Consensus       723 ~~~~A~~~~~~~~  735 (748)
                      ..++|.++++.+.
T Consensus       288 ~~~~a~~~~~~l~  300 (320)
T PLN02789        288 DSTLAQAVCSELE  300 (320)
T ss_pred             cHHHHHHHHHHHH
Confidence            3467888888874

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.56  E-value=6.5e-07  Score=73.92  Aligned_cols=96  Identities=13%  Similarity=-0.039  Sum_probs=86.0

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHh
Q 041741          642 LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYS  719 (748)
Q Consensus       642 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  719 (748)
                      ....-.++..+...|++++|.++|+-+.  .+-+...|..|..++...|++++|+..|..+..++|+||.++.+++.++.
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            4445567778889999999999999885  34468899999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhc
Q 041741          720 SLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       720 ~~g~~~~A~~~~~~~~~~  737 (748)
                      ..|+.+.|++.|+.....
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            999999999999987663

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.55  E-value=7.2e-06  Score=87.62  Aligned_cols=132  Identities=14%  Similarity=0.067  Sum_probs=99.0

Q ss_pred             CCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHH
Q 041741          602 VKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWE  678 (748)
Q Consensus       602 ~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~  678 (748)
                      ++.+...+..|.......|.+++|..+++.+.   .+.|+ ......++.++.+.+++++|...+++.. ..| ++....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~---~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~  158 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIH---QRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREIL  158 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHH---hhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHH
Confidence            45556677777777788888888888888774   45666 4556677778888888888888887775 444 455666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          679 VLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       679 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .+...+...|++++|..+|++++..+|+++.++..++.++...|+.++|...|+....
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6666777888888888888888887787788888888888888888888888887654

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.54  E-value=6.8e-06  Score=89.10  Aligned_cols=199  Identities=13%  Similarity=0.086  Sum_probs=141.2

Q ss_pred             CCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--------CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHH
Q 041741          537 VNDIFVGSALIEMYCKCGDIYGARQFFDMMHG--------KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDIT  608 (748)
Q Consensus       537 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  608 (748)
                      |.+...|-..|..+...++.++|++++++...        .-...|-++++.-...|.-+...++|+++.+-  --....
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHH
Confidence            33555666677777777888888888777653        12346777777777777777777888887773  222345


Q ss_pred             HHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCC---HhHHHHHHHHH
Q 041741          609 FVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDD---PVIWEVLLSSC  684 (748)
Q Consensus       609 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~---~~~~~~l~~~~  684 (748)
                      |..|...|.+.+++++|.++++.|.+.++  .....|..+++.+.+..+-+.|..++++.. .-|.   ...+...+..-
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            77777788888888888888888876666  455667778888888887777877777663 2232   34445555556


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          685 RLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       685 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      .+.||.+++..+++..+...|+....|...+..-.+.|+.+.++.+|+++...++
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l 1665 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKL 1665 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCC
Confidence            6778888888888888888888888888888888888888888888887766544

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.52  E-value=6.9e-06  Score=72.27  Aligned_cols=166  Identities=14%  Similarity=0.166  Sum_probs=76.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHH---HHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCC
Q 041741          544 SALIEMYCKCGDIYGARQFFDMMHGKNTVTWN---EMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSG  620 (748)
Q Consensus       544 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~  620 (748)
                      ..++-+....|+.+.|...++.+...-+.++.   .-...+-..|++++|+++++.+++.+ +-|..++..=+...-..|
T Consensus        56 EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~G  134 (289)
T KOG3060|consen   56 EQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQG  134 (289)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcC
Confidence            34444444555555555555554431111111   11122333455555555555555543 333344444444444444


Q ss_pred             ChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcC---CHHHHHH
Q 041741          621 LVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHA---NVRLAKR  695 (748)
Q Consensus       621 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~---~~~~a~~  695 (748)
                      +.-+|++-+.....  .+..|.+.|..+.+.|...|++++|.--++++. ..| ++..+..+...+...|   +.+.|..
T Consensus       135 K~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~ark  212 (289)
T KOG3060|consen  135 KNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLELARK  212 (289)
T ss_pred             CcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            44455554444422  234445555555555555555555555555553 233 3444444444433222   4455555


Q ss_pred             HHHHHHhcCCCCCcchH
Q 041741          696 AAEELFRLDPKNSAPYS  712 (748)
Q Consensus       696 ~~~~~~~~~p~~~~~~~  712 (748)
                      .|.+++++.|.+...+.
T Consensus       213 yy~~alkl~~~~~ral~  229 (289)
T KOG3060|consen  213 YYERALKLNPKNLRALF  229 (289)
T ss_pred             HHHHHHHhChHhHHHHH
Confidence            55555555554433333

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.51  E-value=1.5e-05  Score=80.77  Aligned_cols=92  Identities=12%  Similarity=0.026  Sum_probs=44.6

Q ss_pred             HHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-CC---CCH--hHHHHHHHH
Q 041741          611 AILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CK---DDP--VIWEVLLSS  683 (748)
Q Consensus       611 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~---~~~--~~~~~l~~~  683 (748)
                      .+...+...|++++|...+++...   ..|+ ...+..++.++...|++++|...+++.. ..   |+.  ..+..+...
T Consensus       119 ~~a~~~~~~G~~~~A~~~~~~al~---~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~  195 (355)
T cd05804         119 MLAFGLEEAGQYDRAEEAARRALE---LNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALF  195 (355)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh---hCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHH
Confidence            344445555555555555555531   2222 3344455555555555555555555543 11   111  122334444


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCC
Q 041741          684 CRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       684 ~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      +...|++++|...++++....|
T Consensus       196 ~~~~G~~~~A~~~~~~~~~~~~  217 (355)
T cd05804         196 YLERGDYEAALAIYDTHIAPSA  217 (355)
T ss_pred             HHHCCCHHHHHHHHHHHhcccc
Confidence            5555555555555555544444

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.

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.49  E-value=1.2e-05  Score=72.26  Aligned_cols=154  Identities=11%  Similarity=0.112  Sum_probs=117.4

Q ss_pred             HHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHH
Q 041741          547 IEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGV  626 (748)
Q Consensus       547 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~  626 (748)
                      +..|.+.|+++.+....+.+..+. .       .+...++.++++..+++..+.. +.|...|..+...|...|++++|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~-~-------~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL-H-------QFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc-c-------cccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            456788888888765554333221 0       1112566788888888888864 667788999999999999999999


Q ss_pred             HHHHHhhhhhCCCCC-hhHHHHHHHHH-HhcCC--hHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 041741          627 EIFNSMQLDHGVEPI-LDHYTCMIDCL-GRAGH--FHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEEL  700 (748)
Q Consensus       627 ~~~~~~~~~~~~~~~-~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  700 (748)
                      ..+++..   .+.|+ ...+..++.++ ...|+  .++|.+++++..  .+.++..+..+...+...|++++|...++++
T Consensus        94 ~a~~~Al---~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~a  170 (198)
T PRK10370         94 LAYRQAL---QLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKV  170 (198)
T ss_pred             HHHHHHH---HhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999885   34454 66777888875 67777  599999999986  3446788888888899999999999999999


Q ss_pred             HhcCCCCCcchH
Q 041741          701 FRLDPKNSAPYS  712 (748)
Q Consensus       701 ~~~~p~~~~~~~  712 (748)
                      ++..|.+..-..
T Consensus       171 L~l~~~~~~r~~  182 (198)
T PRK10370        171 LDLNSPRVNRTQ  182 (198)
T ss_pred             HhhCCCCccHHH
Confidence            999987765543

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.47  E-value=1.7e-06  Score=73.21  Aligned_cols=93  Identities=22%  Similarity=0.248  Sum_probs=59.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhc
Q 041741          644 HYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSL  721 (748)
Q Consensus       644 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  721 (748)
                      ....++..+...|++++|...++.+.  .+.++..+..+...+...|++++|...+++++..+|+++..+..++.+|...
T Consensus        19 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~   98 (135)
T TIGR02552        19 QIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLAL   98 (135)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHc
Confidence            34455566666666666666666653  2335566666666666666677777777776666676666677777777777


Q ss_pred             CChHHHHHHHHHHHh
Q 041741          722 GRWDDLRAVRELMSE  736 (748)
Q Consensus       722 g~~~~A~~~~~~~~~  736 (748)
                      |++++|...++...+
T Consensus        99 g~~~~A~~~~~~al~  113 (135)
T TIGR02552        99 GEPESALKALDLAIE  113 (135)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            777777776666544

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.45  E-value=2.4e-05  Score=77.39  Aligned_cols=243  Identities=14%  Similarity=0.108  Sum_probs=130.8

Q ss_pred             ccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcc---hHHHHHHHHHhCCCchHHHHH
Q 041741          416 AMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIV---CWNSMIAGLSLNSLDIEAFMF  492 (748)
Q Consensus       416 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~li~~~~~~~~~~~a~~~  492 (748)
                      +.|++..|.-.++..++..+. +...|..|.......++-..|+..+++..+.|+.   ..-.|.-+|...|.-..|+..
T Consensus       297 ~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~~  375 (579)
T KOG1125|consen  297 KNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALKM  375 (579)
T ss_pred             hcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHHH
Confidence            445555555555555554433 4555555666666666666666666666554443   333344455566666666666


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcC-----
Q 041741          493 FKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMH-----  567 (748)
Q Consensus       493 ~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----  567 (748)
                      ++.-+...  |.   |..+..+- ..+++...          +-.++...+.             ...++|-++.     
T Consensus       376 L~~Wi~~~--p~---y~~l~~a~-~~~~~~~~----------~s~~~~~~l~-------------~i~~~fLeaa~~~~~  426 (579)
T KOG1125|consen  376 LDKWIRNK--PK---YVHLVSAG-ENEDFENT----------KSFLDSSHLA-------------HIQELFLEAARQLPT  426 (579)
T ss_pred             HHHHHHhC--cc---chhccccC-ccccccCC----------cCCCCHHHHH-------------HHHHHHHHHHHhCCC
Confidence            66654432  10   00000000 00000000          0011222211             2222222221     


Q ss_pred             CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHH
Q 041741          568 GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHY  645 (748)
Q Consensus       568 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~  645 (748)
                      +.|+.....|.-.|-..|++++|+..|+.++..  +|+. ..||.|...++...+.++|+..|+++.   .++|. +...
T Consensus       427 ~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rAL---qLqP~yVR~R  501 (579)
T KOG1125|consen  427 KIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRAL---QLQPGYVRVR  501 (579)
T ss_pred             CCChhHHhhhHHHHhcchHHHHHHHHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHH---hcCCCeeeee
Confidence            246666677777777777788888888877773  4544 567888877777777888888877764   56676 5555


Q ss_pred             HHHHHHHHhcCChHHHHHHHhhCC------------CCCCHhHHHHHHHHHHhcCCHHHH
Q 041741          646 TCMIDCLGRAGHFHEAEMLIDEMP------------CKDDPVIWEVLLSSCRLHANVRLA  693 (748)
Q Consensus       646 ~~l~~~~~~~g~~~~A~~~~~~~~------------~~~~~~~~~~l~~~~~~~~~~~~a  693 (748)
                      ..|+-.|...|.+++|.+.|-+..            ..++..+|..|-.++...++.+.+
T Consensus       502 yNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l  561 (579)
T KOG1125|consen  502 YNLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLL  561 (579)
T ss_pred             hhhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHH
Confidence            667777777788877777654331            011234666666556556655533

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.45  E-value=1.3e-05  Score=71.44  Aligned_cols=160  Identities=13%  Similarity=0.107  Sum_probs=130.0

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHH
Q 041741          570 NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMI  649 (748)
Q Consensus       570 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  649 (748)
                      |... ..+...+...|+-+....+....... .+-|.......+......|++..|+..+++..  ..-++|...++.++
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~--~l~p~d~~~~~~lg  141 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAA--RLAPTDWEAWNLLG  141 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHh--ccCCCChhhhhHHH
Confidence            3344 55667788888888888888876653 23444556668888899999999999999884  24466788899999


Q ss_pred             HHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHH
Q 041741          650 DCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDL  727 (748)
Q Consensus       650 ~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  727 (748)
                      -+|.+.|++++|..-|.+..  .+.++...+.+...+.-.||.+.|..++..+....|.|+.+...|+.+-...|+.++|
T Consensus       142 aaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A  221 (257)
T COG5010         142 AALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREA  221 (257)
T ss_pred             HHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHH
Confidence            99999999999998887774  4557888899999999999999999999999888888999999999999999999999


Q ss_pred             HHHHHH
Q 041741          728 RAVREL  733 (748)
Q Consensus       728 ~~~~~~  733 (748)
                      ..+-..
T Consensus       222 ~~i~~~  227 (257)
T COG5010         222 EDIAVQ  227 (257)
T ss_pred             Hhhccc
Confidence            887554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.45  E-value=0.00044  Score=79.98  Aligned_cols=359  Identities=9%  Similarity=-0.065  Sum_probs=211.4

Q ss_pred             HHhcCCHHHHHHHhccCCCCCcch--HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHH
Q 041741          348 CVRSGDIKTGREMFDSMPSPSVSS--WNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQ  425 (748)
Q Consensus       348 ~~~~~~~~~a~~~~~~~~~~~~~~--~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~  425 (748)
                      +...|++..|..............  ...........|+++.+..+++.+.......++.........+...|+++.+..
T Consensus       351 ~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~  430 (903)
T PRK04841        351 WLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNT  430 (903)
T ss_pred             HHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHH
Confidence            444555555555444433221111  111223344566777666666554221111222222233344456678888877


Q ss_pred             HHHHHHhhcCC------c--hhHHHHHHHHHHHhcCChHHHHHHHhhCCC----CCc----chHHHHHHHHHhCCCchHH
Q 041741          426 VHAASLKTASH------I--DNYVASGLIGIYSKCQRNELAERVFHRIPE----LDI----VCWNSMIAGLSLNSLDIEA  489 (748)
Q Consensus       426 ~~~~~~~~~~~------~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~----~~~~~li~~~~~~~~~~~a  489 (748)
                      .+......-..      +  .......+...+...|+++.|...+++...    .+.    ...+.+...+...|++++|
T Consensus       431 ~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A  510 (903)
T PRK04841        431 LLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARA  510 (903)
T ss_pred             HHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            77766443111      1  112222334556678888888888776542    111    1334555667789999999


Q ss_pred             HHHHHHHHHCCC---CC--CHHHHHHHHHhhcCCCCchhHHHHHHHHHHh----CCC--C-chHHHHHHHHHHHhcCCHH
Q 041741          490 FMFFKQMRQNEM---YP--TQFSFATVLSSCAKLSSSFQGRQVHAQIEKD----GYV--N-DIFVGSALIEMYCKCGDIY  557 (748)
Q Consensus       490 ~~~~~~m~~~~~---~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~g~~~  557 (748)
                      ...+.+......   .+  ...++..+...+...|+++.|...+.+....    +..  + ....+..+...+...|+++
T Consensus       511 ~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~  590 (903)
T PRK04841        511 LAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLD  590 (903)
T ss_pred             HHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHH
Confidence            988888764211   11  1234455566778899999999988876553    221  1 2233445566677789999


Q ss_pred             HHHHHhhhcCC------C--CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcC--CCCCHH--H-H-HHHHHHhcCCCChH
Q 041741          558 GARQFFDMMHG------K--NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASG--VKPDDI--T-F-VAILTACSHSGLVD  623 (748)
Q Consensus       558 ~A~~~~~~~~~------~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~--~-~-~~l~~~~~~~~~~~  623 (748)
                      +|...+.+...      +  ....+..+...+...|+++.|...++++....  ......  . . ...+..+...|+.+
T Consensus       591 ~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~  670 (903)
T PRK04841        591 EAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKE  670 (903)
T ss_pred             HHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHH
Confidence            99988887542      1  23345556678888999999999998876521  111110  1 1 11223345578999


Q ss_pred             HHHHHHHHhhhhhCCCCChh----HHHHHHHHHHhcCChHHHHHHHhhCC-----C--CCC-HhHHHHHHHHHHhcCCHH
Q 041741          624 VGVEIFNSMQLDHGVEPILD----HYTCMIDCLGRAGHFHEAEMLIDEMP-----C--KDD-PVIWEVLLSSCRLHANVR  691 (748)
Q Consensus       624 ~A~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~-----~--~~~-~~~~~~l~~~~~~~~~~~  691 (748)
                      .|...+.... ... .....    .+..++.++...|++++|...+++..     .  ..+ ......+...+...|+.+
T Consensus       671 ~A~~~l~~~~-~~~-~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~  748 (903)
T PRK04841        671 AAANWLRQAP-KPE-FANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKS  748 (903)
T ss_pred             HHHHHHHhcC-CCC-CccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHH
Confidence            9999987763 211 11111    13467888899999999999988763     1  111 234455566788999999


Q ss_pred             HHHHHHHHHHhcCCCCC
Q 041741          692 LAKRAAEELFRLDPKNS  708 (748)
Q Consensus       692 ~a~~~~~~~~~~~p~~~  708 (748)
                      +|...+.+++++.....
T Consensus       749 ~A~~~L~~Al~la~~~g  765 (903)
T PRK04841        749 EAQRVLLEALKLANRTG  765 (903)
T ss_pred             HHHHHHHHHHHHhCccc
Confidence            99999999999865443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.43  E-value=2.4e-05  Score=69.68  Aligned_cols=154  Identities=16%  Similarity=0.050  Sum_probs=124.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCC
Q 041741          544 SALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSG  620 (748)
Q Consensus       544 ~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~  620 (748)
                      ..+-..+...|+-+....+......   .|......++....+.|++..|+..+.+..... ++|...|+.+.-+|.+.|
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHcc
Confidence            5556667777887777777766442   456667778999999999999999999999864 778889999999999999


Q ss_pred             ChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHH
Q 041741          621 LVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAE  698 (748)
Q Consensus       621 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~  698 (748)
                      +.+.|..-|.+..+-.+-.  ...++.++-.|.-.|+++.|..++.... .++ +..+...+..+....|+++.|+.+..
T Consensus       149 r~~~Ar~ay~qAl~L~~~~--p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         149 RFDEARRAYRQALELAPNE--PSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ChhHHHHHHHHHHHhccCC--chhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            9999999998885333333  3457788888999999999999998875 333 77888888888899999999998887


Q ss_pred             HH
Q 041741          699 EL  700 (748)
Q Consensus       699 ~~  700 (748)
                      +-
T Consensus       227 ~e  228 (257)
T COG5010         227 QE  228 (257)
T ss_pred             cc
Confidence            63

>PF12854 PPR_1: PPR repeat

Probab=98.43  E-value=3e-07  Score=54.61  Aligned_cols=33  Identities=30%  Similarity=0.565  Sum_probs=23.9

Q ss_pred             CCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCC
Q 041741          150 GLDKNIYVANALLSLYAKCGWTKHAVPVFEEMS  182 (748)
Q Consensus       150 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  182 (748)
                      |+.||..+|+.||++|++.|++++|.++|++|.
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            566777777777777777777777777777663

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.42  E-value=0.00021  Score=63.75  Aligned_cols=155  Identities=18%  Similarity=0.163  Sum_probs=99.4

Q ss_pred             HHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhc----CCCCh
Q 041741          547 IEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACS----HSGLV  622 (748)
Q Consensus       547 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~----~~~~~  622 (748)
                      ...|++.|++++|.+......  +....-.=...+.+..+.+-|...+++|.+   -.+..|.+.|..++.    ..+.+
T Consensus       115 a~i~~~~~~~deAl~~~~~~~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~---ided~tLtQLA~awv~la~ggek~  189 (299)
T KOG3081|consen  115 AIIYMHDGDFDEALKALHLGE--NLEAAALNVQILLKMHRFDLAEKELKKMQQ---IDEDATLTQLAQAWVKLATGGEKI  189 (299)
T ss_pred             hHHhhcCCChHHHHHHHhccc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHc---cchHHHHHHHHHHHHHHhccchhh
Confidence            345667777777777776622  233333334455666677778888888877   245556666666653    33457


Q ss_pred             HHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcC-CHHHHHHHHHH
Q 041741          623 DVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHA-NVRLAKRAAEE  699 (748)
Q Consensus       623 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~  699 (748)
                      .+|.-+|++|. . +..|+..+.+..+-++...|++++|..+++...  ...+|.++-.++-.....| +.+-..+.+.+
T Consensus       190 qdAfyifeE~s-~-k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l~Q  267 (299)
T KOG3081|consen  190 QDAFYIFEELS-E-KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERNLSQ  267 (299)
T ss_pred             hhHHHHHHHHh-c-ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHHHHH
Confidence            77888888873 2 356777777777777777888888888877774  3346666666666555555 44555666777


Q ss_pred             HHhcCCCCC
Q 041741          700 LFRLDPKNS  708 (748)
Q Consensus       700 ~~~~~p~~~  708 (748)
                      +....|+.+
T Consensus       268 Lk~~~p~h~  276 (299)
T KOG3081|consen  268 LKLSHPEHP  276 (299)
T ss_pred             HHhcCCcch
Confidence            776777543

>PF12854 PPR_1: PPR repeat

Probab=98.41  E-value=1.9e-07  Score=55.48  Aligned_cols=34  Identities=35%  Similarity=0.466  Sum_probs=26.0

Q ss_pred             hCCCCCcchhhHHHHHHHccCCchhhhhhhhcCC
Q 041741           17 NGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMP   50 (748)
Q Consensus        17 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~   50 (748)
                      +|+.||..+||+||.+|++.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            3777788888888888888877777777777763

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.40  E-value=8.2e-05  Score=81.14  Aligned_cols=232  Identities=11%  Similarity=0.136  Sum_probs=177.0

Q ss_pred             CHHHHHHHHHhhcCCCCchhHHHHHHHHHHh-CCCCc---hHHHHHHHHHHHhcCCHHHHHHHhhhcCC-CC-HHHHHHH
Q 041741          504 TQFSFATVLSSCAKLSSSFQGRQVHAQIEKD-GYVND---IFVGSALIEMYCKCGDIYGARQFFDMMHG-KN-TVTWNEM  577 (748)
Q Consensus       504 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~l  577 (748)
                      +...|...+.-....++.+.|+++.+++... ++.-.   ..+|.++++.-..-|.-+...++|+++.+ .| ...|..|
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L 1536 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKL 1536 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHH
Confidence            3445666777778889999999999888765 33322   34667777777777888888999998886 34 4568889


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCC
Q 041741          578 IHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGH  657 (748)
Q Consensus       578 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  657 (748)
                      ...|.+.+.+++|-++++.|.+. +.-....|...+..+.+..+-++|.+++.++.+...-+-.+......+..-.+.|+
T Consensus      1537 ~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GD 1615 (1710)
T KOG1070|consen 1537 LGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGD 1615 (1710)
T ss_pred             HHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCC
Confidence            99999999999999999999987 56666789999999999999999999999886333222235666677888889999


Q ss_pred             hHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CCCCcchHH-HhHHHhhcCChHHHHHHHH
Q 041741          658 FHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLD--PKNSAPYSL-LANIYSSLGRWDDLRAVRE  732 (748)
Q Consensus       658 ~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~~~-l~~~~~~~g~~~~A~~~~~  732 (748)
                      .+.+..+|+...  .+...+.|+.++..-.++|+.+.+..+|++++.+.  |.....++- +...-...||-+.++.+-.
T Consensus      1616 aeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~VKa 1695 (1710)
T KOG1070|consen 1616 AERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYVKA 1695 (1710)
T ss_pred             chhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHHHH
Confidence            999999999886  44578999999999999999999999999999964  555544333 3333344477665555544


Q ss_pred             HHHh
Q 041741          733 LMSE  736 (748)
Q Consensus       733 ~~~~  736 (748)
                      ++.+
T Consensus      1696 rA~E 1699 (1710)
T KOG1070|consen 1696 RAKE 1699 (1710)
T ss_pred             HHHH
Confidence            4443

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.39  E-value=1.4e-05  Score=81.13  Aligned_cols=232  Identities=12%  Similarity=0.050  Sum_probs=170.3

Q ss_pred             cCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 041741          434 ASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLS  513 (748)
Q Consensus       434 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~  513 (748)
                      +.+|-...-..+...+...|-...|..+|+++     ..|...|.+|+..|+..+|..+..+..++  +|+...|..+..
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGD  465 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGD  465 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhh
Confidence            34555566677888888999999999998875     45777888999999999999998888863  788888888877


Q ss_pred             hhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHH
Q 041741          514 SCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEA  590 (748)
Q Consensus       514 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a  590 (748)
                      ......-+++|.++.+.....       .-..+.....+.++++++.+.|+.-.+   -...+|-.+..+..+.++++.|
T Consensus       466 v~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~a  538 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAA  538 (777)
T ss_pred             hccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHH
Confidence            777776777777777654332       122222333446888888888886543   2456788888888888899999


Q ss_pred             HHHHHHHHHcCCCCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC
Q 041741          591 VRLYKDMIASGVKPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       591 ~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  669 (748)
                      .+.|..-...  .||. ..|+.+-.+|.+.|+-.+|...+.+.. +.. ..+...|...+....+.|.+++|.+.+.++.
T Consensus       539 v~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAl-Kcn-~~~w~iWENymlvsvdvge~eda~~A~~rll  614 (777)
T KOG1128|consen  539 VKAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEAL-KCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLL  614 (777)
T ss_pred             HHHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHh-hcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHH
Confidence            9999888873  5655 579999999999999999998888884 434 3444556777777888899999998888774


Q ss_pred             ----CCCCHhHHHHHHHH
Q 041741          670 ----CKDDPVIWEVLLSS  683 (748)
Q Consensus       670 ----~~~~~~~~~~l~~~  683 (748)
                          ...++.+...++..
T Consensus       615 ~~~~~~~d~~vl~~iv~~  632 (777)
T KOG1128|consen  615 DLRKKYKDDEVLLIIVRT  632 (777)
T ss_pred             HhhhhcccchhhHHHHHH
Confidence                22355555444444

>PLN02789 farnesyltranstransferase

Probab=98.39  E-value=1.6e-05  Score=76.82  Aligned_cols=188  Identities=9%  Similarity=0.067  Sum_probs=139.4

Q ss_pred             HHHHHHhcCCHHHHHHHhhhcCC--C-CHHHHHHHHHHHHHcC-ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCC
Q 041741          546 LIEMYCKCGDIYGARQFFDMMHG--K-NTVTWNEMIHGYAQNG-YGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGL  621 (748)
Q Consensus       546 l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~  621 (748)
                      +-..+...++.++|+...+++.+  | +...|+....++...| ++++++..++++.+.+ +-+..+|+.....+.+.|+
T Consensus        43 ~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~  121 (320)
T PLN02789         43 FRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGP  121 (320)
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCc
Confidence            33445556788999999988775  3 4456766666777777 6799999999999864 3444567766656656665


Q ss_pred             --hHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhc---CC----
Q 041741          622 --VDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLH---AN----  689 (748)
Q Consensus       622 --~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~---~~----  689 (748)
                        .++++.+++++.   ...| +...|.....++.+.|++++|++.++++.  ...+...|+.....+...   |.    
T Consensus       122 ~~~~~el~~~~kal---~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~  198 (320)
T PLN02789        122 DAANKELEFTRKIL---SLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAM  198 (320)
T ss_pred             hhhHHHHHHHHHHH---HhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhcccccccccc
Confidence              367788888774   3344 47778888899999999999999999985  344667777776665443   22    


Q ss_pred             HHHHHHHHHHHHhcCCCCCcchHHHhHHHhh----cCChHHHHHHHHHHHhc
Q 041741          690 VRLAKRAAEELFRLDPKNSAPYSLLANIYSS----LGRWDDLRAVRELMSEN  737 (748)
Q Consensus       690 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~  737 (748)
                      .+.......+++..+|+|..++..++.++..    .++..+|.+...+....
T Consensus       199 ~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~  250 (320)
T PLN02789        199 RDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSK  250 (320)
T ss_pred             HHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcc
Confidence            3578888899999999999999999999988    35567788887775543

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.37  E-value=2.1e-05  Score=74.16  Aligned_cols=183  Identities=13%  Similarity=-0.025  Sum_probs=128.7

Q ss_pred             CCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCC-C-chHHHHHHHHHHHhcCCHHHHHHHhhhcCC--CC-HH---H
Q 041741          502 YPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYV-N-DIFVGSALIEMYCKCGDIYGARQFFDMMHG--KN-TV---T  573 (748)
Q Consensus       502 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~---~  573 (748)
                      ......+..+...+...|+++.|...++.+...... | ....+..+..++.+.|++++|...++.+.+  |+ ..   .
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            345567778888899999999999999998876432 1 234667788999999999999999998864  32 22   4


Q ss_pred             HHHHHHHHHHc--------CChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhH
Q 041741          574 WNEMIHGYAQN--------GYGDEAVRLYKDMIASGVKPDDI-TFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDH  644 (748)
Q Consensus       574 ~~~l~~~~~~~--------~~~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  644 (748)
                      +..+..++...        |++++|.+.++++...  .|+.. .+..+.....    .      .... .        ..
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~----~------~~~~-~--------~~  168 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDY----L------RNRL-A--------GK  168 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHH----H------HHHH-H--------HH
Confidence            55666666654        7789999999999985  45442 2222211100    0      0000 0        11


Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCC-CCC----CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          645 YTCMIDCLGRAGHFHEAEMLIDEMP-CKD----DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       645 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      ...++..+.+.|++++|...+++.. ..|    .+..+..++..+...|++++|...++.+....|
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            2356778889999999999888874 222    356778888889999999999998888776665

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=98.34  E-value=2.2e-05  Score=79.80  Aligned_cols=185  Identities=9%  Similarity=-0.027  Sum_probs=95.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHhhhcC--CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCC
Q 041741          543 GSALIEMYCKCGDIYGARQFFDMMH--GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSG  620 (748)
Q Consensus       543 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~  620 (748)
                      +..++.+|...|+..+|..+..+..  .|++..|..+++......-+++|.++.+.....       .-..+.......+
T Consensus       427 w~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~  499 (777)
T KOG1128|consen  427 WDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNK  499 (777)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccch
Confidence            4445555555555555555544332  234444444444443333344444444332211       1111112223345


Q ss_pred             ChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHH
Q 041741          621 LVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAE  698 (748)
Q Consensus       621 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~  698 (748)
                      +++++...|+.-....  +....+|-.++-+..+.++++.|.+.|.... ..| ....|+.+..++.+.++-.+|...++
T Consensus       500 ~fs~~~~hle~sl~~n--plq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~  577 (777)
T KOG1128|consen  500 DFSEADKHLERSLEIN--PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLK  577 (777)
T ss_pred             hHHHHHHHHHHHhhcC--ccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHH
Confidence            5555555555432111  1123445555556666666666666665554 333 34566666666666666666666666


Q ss_pred             HHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          699 ELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       699 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      ++++-+-++..++..-..+..+-|.|++|.+.++++..
T Consensus       578 EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  578 EALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            66666655666666666666666666666666666654

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.30  E-value=0.00013  Score=64.42  Aligned_cols=182  Identities=10%  Similarity=0.103  Sum_probs=94.8

Q ss_pred             CCCchHHHHHHHHHHH---CC-CCCCHHH-HHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHH
Q 041741          483 NSLDIEAFMFFKQMRQ---NE-MYPTQFS-FATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIY  557 (748)
Q Consensus       483 ~~~~~~a~~~~~~m~~---~~-~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  557 (748)
                      ..+.++.++++.++..   .| ..|+..+ |-.++-+....|..+.|...++.+...- +-+..+-..-...+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchh
Confidence            3445666666666644   23 3344433 2334444445555666666666555443 333333333333344556666


Q ss_pred             HHHHHhhhcCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhh
Q 041741          558 GARQFFDMMHGK---NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQL  634 (748)
Q Consensus       558 ~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  634 (748)
                      +|.++++.+.+.   |..++..-+......|+.-+|++-+.+..+. +..|...|.-+...|...|++++|.-.++++. 
T Consensus       104 ~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l-  181 (289)
T KOG3060|consen  104 EAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELL-  181 (289)
T ss_pred             hHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH-
Confidence            666666665542   3344444455555556656666666666654 45566666666666666666666666666664 


Q ss_pred             hhCCCCC-hhHHHHHHHHHHhcC---ChHHHHHHHhhCC
Q 041741          635 DHGVEPI-LDHYTCMIDCLGRAG---HFHEAEMLIDEMP  669 (748)
Q Consensus       635 ~~~~~~~-~~~~~~l~~~~~~~g---~~~~A~~~~~~~~  669 (748)
                        -+.|. ...+..+++.+...|   +..-|.++|.+..
T Consensus       182 --l~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~al  218 (289)
T KOG3060|consen  182 --LIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERAL  218 (289)
T ss_pred             --HcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence              22333 233445555544333   3444555555543

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.29  E-value=9.3e-05  Score=72.07  Aligned_cols=113  Identities=19%  Similarity=0.186  Sum_probs=61.3

Q ss_pred             cCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCC-HhHHHHHHHHHHhcCCHHHH
Q 041741          617 SHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDD-PVIWEVLLSSCRLHANVRLA  693 (748)
Q Consensus       617 ~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a  693 (748)
                      ...|+++.|+..++.+.   +..|+ +......++.+.+.++.++|.+.++++. ..|+ +..+..+...+...|++.+|
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 YLAGQYDEALKLLQPLI---AAQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEA  393 (484)
T ss_pred             HHhcccchHHHHHHHHH---HhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHH
Confidence            34455566666655553   22233 3334445555666666666666665553 3333 44555555556666666666


Q ss_pred             HHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHH
Q 041741          694 KRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRE  732 (748)
Q Consensus       694 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  732 (748)
                      +..++.....+|+||..|..|+.+|..+|+..+|...+-
T Consensus       394 i~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~A  432 (484)
T COG4783         394 IRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARA  432 (484)
T ss_pred             HHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHH
Confidence            666666666666666666666666655555554444433

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.28  E-value=0.00028  Score=76.42  Aligned_cols=148  Identities=13%  Similarity=0.094  Sum_probs=73.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC
Q 041741          542 VGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSH  618 (748)
Q Consensus       542 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~  618 (748)
                      .+..+..+|-+.|+.++|...++++.+   .|+...|.+.-.|... +.++|.+++.+.+..               +..
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~---------------~i~  181 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR---------------FIK  181 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH---------------HHh
Confidence            334444455555555555555554442   2444455555555544 555555555544442               333


Q ss_pred             CCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHH
Q 041741          619 SGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAA  697 (748)
Q Consensus       619 ~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  697 (748)
                      .+++..+.++|.++.   ...|+ .+.+..+.+.....-.            ...-..++.-+...|...++++++..++
T Consensus       182 ~kq~~~~~e~W~k~~---~~~~~d~d~f~~i~~ki~~~~~------------~~~~~~~~~~l~~~y~~~~~~~~~i~iL  246 (906)
T PRK14720        182 KKQYVGIEEIWSKLV---HYNSDDFDFFLRIERKVLGHRE------------FTRLVGLLEDLYEPYKALEDWDEVIYIL  246 (906)
T ss_pred             hhcchHHHHHHHHHH---hcCcccchHHHHHHHHHHhhhc------------cchhHHHHHHHHHHHhhhhhhhHHHHHH
Confidence            344555555555553   11222 2222222222111100            1122233334555566667777777777


Q ss_pred             HHHHhcCCCCCcchHHHhHHHhh
Q 041741          698 EELFRLDPKNSAPYSLLANIYSS  720 (748)
Q Consensus       698 ~~~~~~~p~~~~~~~~l~~~~~~  720 (748)
                      +.+++.+|.|..+..-++.+|.+
T Consensus       247 K~iL~~~~~n~~a~~~l~~~y~~  269 (906)
T PRK14720        247 KKILEHDNKNNKAREELIRFYKE  269 (906)
T ss_pred             HHHHhcCCcchhhHHHHHHHHHH
Confidence            77777777777777777777763

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.27  E-value=0.00011  Score=71.70  Aligned_cols=140  Identities=18%  Similarity=0.140  Sum_probs=94.0

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcC
Q 041741          578 IHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAG  656 (748)
Q Consensus       578 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g  656 (748)
                      ...+...|.+++|+..++.++.. .+-|...+......+...++.++|.+.++++.   ...|+ ......++.+|.+.|
T Consensus       313 A~~~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal---~l~P~~~~l~~~~a~all~~g  388 (484)
T COG4783         313 ALQTYLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKAL---ALDPNSPLLQLNLAQALLKGG  388 (484)
T ss_pred             HHHHHHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH---hcCCCccHHHHHHHHHHHhcC
Confidence            34455667788888888887775 23344445566667778888888888888775   44555 334456778888888


Q ss_pred             ChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHH
Q 041741          657 HFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELM  734 (748)
Q Consensus       657 ~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  734 (748)
                      ++++|..+++...  .+.++..|..|..+|...|+..++....-+                 .|+-.|+|++|...+..+
T Consensus       389 ~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE-----------------~~~~~G~~~~A~~~l~~A  451 (484)
T COG4783         389 KPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAE-----------------GYALAGRLEQAIIFLMRA  451 (484)
T ss_pred             ChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHH-----------------HHHhCCCHHHHHHHHHHH
Confidence            8888888887775  455778888888888888877666555443                 345556666666666665


Q ss_pred             HhcC
Q 041741          735 SENC  738 (748)
Q Consensus       735 ~~~~  738 (748)
                      +++.
T Consensus       452 ~~~~  455 (484)
T COG4783         452 SQQV  455 (484)
T ss_pred             HHhc
Confidence            5543

>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=98.25  E-value=1.4e-05  Score=78.82  Aligned_cols=121  Identities=17%  Similarity=0.164  Sum_probs=98.1

Q ss_pred             HHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHh
Q 041741          609 FVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRL  686 (748)
Q Consensus       609 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~  686 (748)
                      ...|+..+...++++.|+.+++++...   .|+.  ...+++++...++-.+|.+++.+..  .+.+...+......+..
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~---~pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRER---DPEV--AVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhc---CCcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            445566667778888999999888522   3554  4457888888888888988888775  33466777777778889


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHH
Q 041741          687 HANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELM  734 (748)
Q Consensus       687 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  734 (748)
                      .++++.|..+.+++.+..|.+-.++..|+.+|...|++++|+..++.+
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999999888754

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.20  E-value=0.0084  Score=59.50  Aligned_cols=182  Identities=13%  Similarity=0.144  Sum_probs=130.3

Q ss_pred             chHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCC-chHHHHHHHHHHHhcCCHHHHHHHhh
Q 041741          486 DIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVN-DIFVGSALIEMYCKCGDIYGARQFFD  564 (748)
Q Consensus       486 ~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~  564 (748)
                      .+.....++++......--..+|...++...+..-++.|..+|.++.+.+..+ ++.+.++++..||. ++.+-|.++|+
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            45566677776654323233466677777778888899999999999998777 78888888887765 78899999998


Q ss_pred             hcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH--HHHHHHHHHhcCCCChHHHHHHHHHhhhhhC--
Q 041741          565 MMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD--ITFVAILTACSHSGLVDVGVEIFNSMQLDHG--  637 (748)
Q Consensus       565 ~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--  637 (748)
                      --.+   .++.--...+.-+...++-..+..+|++....++.|+.  ..|..++.-=...|++..+.++-+++...+.  
T Consensus       426 LGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~  505 (656)
T KOG1914|consen  426 LGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPAD  505 (656)
T ss_pred             HHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchh
Confidence            6553   34444456677777888888899999999998777766  5799999888889999999998887744443  


Q ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHhhC
Q 041741          638 VEPILDHYTCMIDCLGRAGHFHEAEMLIDEM  668 (748)
Q Consensus       638 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  668 (748)
                      ..+....-..+++.|.-.+.+..-..-++.+
T Consensus       506 qe~~~~~~~~~v~RY~~~d~~~c~~~elk~l  536 (656)
T KOG1914|consen  506 QEYEGNETALFVDRYGILDLYPCSLDELKFL  536 (656)
T ss_pred             hcCCCChHHHHHHHHhhcccccccHHHHHhh
Confidence            3333344455666666666554444434333

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.17  E-value=0.00021  Score=76.64  Aligned_cols=131  Identities=8%  Similarity=0.035  Sum_probs=78.3

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHH
Q 041741          570 NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDI-TFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTC  647 (748)
Q Consensus       570 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~  647 (748)
                      ++..+..|.....+.|++++|..+|+...+  +.|+.. ....+...+.+.+++++|...+++..   ...|+ ......
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l---~~~p~~~~~~~~  159 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYF---SGGSSSAREILL  159 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHh---hcCCCCHHHHHH
Confidence            355566666666666666666666666666  345443 44555556666666666666666653   23344 344455


Q ss_pred             HHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          648 MIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       648 l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      ++.++...|++++|..+|+++. ..| ++..+..+...+...|+.++|...|++++....
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~  219 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIG  219 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhC
Confidence            6666666666666666666664 222 355666666666666666666666666666544

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.17  E-value=3e-05  Score=65.62  Aligned_cols=116  Identities=13%  Similarity=0.065  Sum_probs=89.4

Q ss_pred             HHHHHHHcCCCCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--
Q 041741          593 LYKDMIASGVKPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--  669 (748)
Q Consensus       593 ~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--  669 (748)
                      .++++...  .|+. .....+...+...|++++|...++.+...  .+.+...+..++.++...|++++|...+++..  
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45666663  4544 44666777788889999999999887422  23356778889999999999999999988874  


Q ss_pred             CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchH
Q 041741          670 CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYS  712 (748)
Q Consensus       670 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  712 (748)
                      .+.++..+..+...+...|++++|...++.+++.+|++.....
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  123 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEYSE  123 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHH
Confidence            4446778888888899999999999999999999997766443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.17  E-value=0.016  Score=61.31  Aligned_cols=225  Identities=13%  Similarity=0.056  Sum_probs=115.6

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCcchHHHHHHHh--ccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHH
Q 041741           98 NGLEEKALSVYNKMSNEGFVPTHITLASVFKAS--TALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAV  175 (748)
Q Consensus        98 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  175 (748)
                      .+++..|+.-..++.++  .|| ..|..++.++  .+.|..++|..+++.....+.. |..|...+-.+|...|+.++|.
T Consensus        22 ~~qfkkal~~~~kllkk--~Pn-~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~   97 (932)
T KOG2053|consen   22 SSQFKKALAKLGKLLKK--HPN-ALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAV   97 (932)
T ss_pred             hHHHHHHHHHHHHHHHH--CCC-cHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHH
Confidence            33444555555444443  122 2233333332  2445555555555544444433 5666666666777777777777


Q ss_pred             HHHhcCCC--CCeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhccCCCCCcchhcccccccccc
Q 041741          176 PVFEEMSE--PNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRN  253 (748)
Q Consensus       176 ~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~  253 (748)
                      .++++..+  |+......+.-+|.+.+++.+-.++--+|-+ .++-+.+.|-++++.....-..++....   .-.+.. 
T Consensus        98 ~~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~---~i~l~L-  172 (932)
T KOG2053|consen   98 HLYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLD---PILLAL-  172 (932)
T ss_pred             HHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCccccc---chhHHH-
Confidence            77776654  4433333444555666665554444333333 2333445555555554443211111100   011111 


Q ss_pred             cchhHHHHHHHHhc-CCCchHHHHHHHHHHHhcCChhHHHHHhcc-C----CCCCcccHHHHHHHHHhcCChhHHHHHHH
Q 041741          254 VHGQQVHCLTIKLG-FEADLHLSNSLLDMYAKNGDMDSAEVIFSN-L----PERSVVSWNVMIAGYGQKYQSTKAIELLQ  327 (748)
Q Consensus       254 ~~~~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~-~----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  327 (748)
                        ++...+.+.+.+ ..-+..-...-...+...|++++|++++.. .    ..-+...-+.-+..+...+++.+..++-.
T Consensus       173 --A~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~  250 (932)
T KOG2053|consen  173 --AEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSS  250 (932)
T ss_pred             --HHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHH
Confidence              334444444333 333333334445566678899999998832 2    22233344456677778888888888888


Q ss_pred             HHHhcC
Q 041741          328 RMKSCG  333 (748)
Q Consensus       328 ~m~~~g  333 (748)
                      ++...|
T Consensus       251 ~Ll~k~  256 (932)
T KOG2053|consen  251 RLLEKG  256 (932)
T ss_pred             HHHHhC
Confidence            888776

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.17  E-value=3.7e-05  Score=65.61  Aligned_cols=114  Identities=16%  Similarity=0.148  Sum_probs=56.4

Q ss_pred             CCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCH----hHHHHHHHHHHhcCCHHH
Q 041741          619 SGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDP----VIWEVLLSSCRLHANVRL  692 (748)
Q Consensus       619 ~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~----~~~~~l~~~~~~~~~~~~  692 (748)
                      .++...+...++.+....+-.|- ......++..+...|++++|...|+... ..|++    .....+...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            44555555555555332221111 1222334555555666666666665554 12222    223334455555666666


Q ss_pred             HHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHH
Q 041741          693 AKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVREL  733 (748)
Q Consensus       693 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  733 (748)
                      |...++.. .-.|-.+.....+|.+|...|++++|+..|+.
T Consensus       104 Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  104 ALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            66666442 22222445566666666666666666666654

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.16  E-value=0.00023  Score=63.47  Aligned_cols=244  Identities=11%  Similarity=0.019  Sum_probs=154.2

Q ss_pred             HHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCH
Q 041741          477 IAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDI  556 (748)
Q Consensus       477 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  556 (748)
                      ++-+.-.|.+..++..-......  +-+...-..+-++|...|.+.....   .+.... .|.......+......-++.
T Consensus        15 iRn~fY~Gnyq~~ine~~~~~~~--~~~~e~d~y~~raylAlg~~~~~~~---eI~~~~-~~~lqAvr~~a~~~~~e~~~   88 (299)
T KOG3081|consen   15 IRNYFYLGNYQQCINEAEKFSSS--KTDVELDVYMYRAYLALGQYQIVIS---EIKEGK-ATPLQAVRLLAEYLELESNK   88 (299)
T ss_pred             HHHHHHhhHHHHHHHHHHhhccc--cchhHHHHHHHHHHHHccccccccc---cccccc-CChHHHHHHHHHHhhCcchh
Confidence            45555667777666554444322  2333444455566666665543322   122212 22333333333333333443


Q ss_pred             HHHH-HHhhhcCCC----CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHH
Q 041741          557 YGAR-QFFDMMHGK----NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNS  631 (748)
Q Consensus       557 ~~A~-~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~  631 (748)
                      +.-. ++.+.+..+    +......-...|+..|++++|++..+...    ..+..  ..=...+.+..+.+.|...+++
T Consensus        89 ~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~----~lE~~--Al~VqI~lk~~r~d~A~~~lk~  162 (299)
T KOG3081|consen   89 KSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE----NLEAA--ALNVQILLKMHRFDLAEKELKK  162 (299)
T ss_pred             HHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc----hHHHH--HHHHHHHHHHHHHHHHHHHHHH
Confidence            3322 223333322    22333334467889999999999988721    22222  2223345677788999999999


Q ss_pred             hhhhhCCCCChhHHHHHHHHHH----hcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          632 MQLDHGVEPILDHYTCMIDCLG----RAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       632 ~~~~~~~~~~~~~~~~l~~~~~----~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      |. +  + .+..+...|+.++.    ..+...+|.-+|+++.  .+|++.+.+..+.++...|++++|..+++.++..+|
T Consensus       163 mq-~--i-ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~  238 (299)
T KOG3081|consen  163 MQ-Q--I-DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDA  238 (299)
T ss_pred             HH-c--c-chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccC
Confidence            94 2  2 23445555666655    3467899999999996  678999999999999999999999999999999999


Q ss_pred             CCCcchHHHhHHHhhcCChHHHH-HHHHHHHh
Q 041741          706 KNSAPYSLLANIYSSLGRWDDLR-AVRELMSE  736 (748)
Q Consensus       706 ~~~~~~~~l~~~~~~~g~~~~A~-~~~~~~~~  736 (748)
                      ++|.++..+.-+-...|+-.++. +.+.+++.
T Consensus       239 ~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  239 KDPETLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             CCHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            99999999999999999876654 45565544

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.13  E-value=4.4e-06  Score=60.62  Aligned_cols=64  Identities=22%  Similarity=0.240  Sum_probs=59.4

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcC-ChHHHHHHHHHHHh
Q 041741          673 DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLG-RWDDLRAVRELMSE  736 (748)
Q Consensus       673 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~  736 (748)
                      ++..|..++..+...|++++|+..++++++.+|+++.++..++.+|...| ++++|++.+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            46788889999999999999999999999999999999999999999999 79999999998755

...

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.12  E-value=0.019  Score=60.71  Aligned_cols=67  Identities=24%  Similarity=0.219  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHhcCCH---HHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCCCCC
Q 041741          676 IWEVLLSSCRLHANV---RLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKD  742 (748)
Q Consensus       676 ~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  742 (748)
                      +.+.++..+++.+|.   -+|+.+++..+..+|.|...-..|.++|.-.|=...|.+.|+.+--+.|.-|
T Consensus       438 av~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~D  507 (932)
T KOG2053|consen  438 AVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTD  507 (932)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhc
Confidence            456677788888764   5688889999999999999999999999999999999999998765555443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.10  E-value=4.1e-05  Score=70.25  Aligned_cols=106  Identities=18%  Similarity=0.159  Sum_probs=92.0

Q ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhc-C--CHHHHHHHHHHHHhcCCCCCcchH
Q 041741          638 VEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLH-A--NVRLAKRAAEELFRLDPKNSAPYS  712 (748)
Q Consensus       638 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~-~--~~~~a~~~~~~~~~~~p~~~~~~~  712 (748)
                      .+-|...|..|+.+|...|+...|...|.+..  .++++..+..+...+..+ |  +..++...+++++..+|.|+.+..
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~  231 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALS  231 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHH
Confidence            34568889999999999999999999998885  566788888888775433 2  568899999999999999999999


Q ss_pred             HHhHHHhhcCChHHHHHHHHHHHhcCCCCCC
Q 041741          713 LLANIYSSLGRWDDLRAVRELMSENCIVKDP  743 (748)
Q Consensus       713 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  743 (748)
                      .|+..++..|++.+|...|+.|.+..+..+|
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCCCCCc
Confidence            9999999999999999999999988776665

>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=98.08  E-value=8.8e-05  Score=73.22  Aligned_cols=125  Identities=13%  Similarity=0.198  Sum_probs=103.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCC
Q 041741          541 FVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSG  620 (748)
Q Consensus       541 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~  620 (748)
                      .....|+..+...++++.|..+|+++.+.++.....+++.+...++-.+|++++++.++. .+-+...+..-...|...+
T Consensus       170 yLv~~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  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcC
Confidence            344556677777889999999999998877777777888888888889999999999975 2445566667777788999


Q ss_pred             ChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC
Q 041741          621 LVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       621 ~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  669 (748)
                      +++.|+.+.+++.   ...|+ ..+|..|+.+|...|++++|+..++.++
T Consensus       249 ~~~lAL~iAk~av---~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  249 KYELALEIAKKAV---ELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CHHHHHHHHHHHH---HhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999999885   45666 6789999999999999999999999887

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.07  E-value=2.8e-05  Score=61.21  Aligned_cols=93  Identities=19%  Similarity=0.199  Sum_probs=78.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcC
Q 041741          645 YTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLG  722 (748)
Q Consensus       645 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  722 (748)
                      +..++..+...|++++|...+++..  .+.++..+..+...+...+++++|...++.++...|.++..+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            4567778888999999999988774  33345677777888888899999999999999999998889999999999999


Q ss_pred             ChHHHHHHHHHHHhc
Q 041741          723 RWDDLRAVRELMSEN  737 (748)
Q Consensus       723 ~~~~A~~~~~~~~~~  737 (748)
                      ++++|...++...+.
T Consensus        83 ~~~~a~~~~~~~~~~   97 (100)
T cd00189          83 KYEEALEAYEKALEL   97 (100)
T ss_pred             hHHHHHHHHHHHHcc
Confidence            999999999886543

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.06  E-value=7.1e-06  Score=58.59  Aligned_cols=60  Identities=27%  Similarity=0.262  Sum_probs=51.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          680 LLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       680 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      ++..+...|++++|...++++++.+|+++.++..++.++...|++++|..+|+++.+..+
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P   62 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDP   62 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            456678889999999999999999999999999999999999999999999998865443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.05  E-value=4.7e-05  Score=62.74  Aligned_cols=93  Identities=15%  Similarity=0.082  Sum_probs=47.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCC-CCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---CcchHHHhH
Q 041741          645 YTCMIDCLGRAGHFHEAEMLIDEMP-CKDD----PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN---SAPYSLLAN  716 (748)
Q Consensus       645 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~  716 (748)
                      +-.++..+.+.|++++|.+.++.+. ..|+    +..+..++..+...|+++.|...++.++...|++   +.++..++.
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            3344445555555555555555443 1111    2233444455555555555555555555555543   234555555


Q ss_pred             HHhhcCChHHHHHHHHHHHhc
Q 041741          717 IYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       717 ~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      ++.+.|++++|..+++++.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            555555555555555555443

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.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.04  E-value=0.00026  Score=60.33  Aligned_cols=125  Identities=14%  Similarity=0.142  Sum_probs=82.7

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH---HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCCh--hHHHHH
Q 041741          574 WNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD---ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPIL--DHYTCM  648 (748)
Q Consensus       574 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~--~~~~~l  648 (748)
                      |..++..+ ..++...+...++.+.+.. +.+.   ...-.+...+...|++++|...|+.+.. ....|+.  .....+
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~-~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALA-NAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-hCCCHHHHHHHHHHH
Confidence            33344444 4777788888888888753 3331   2333455667788888888888888843 2222221  234457


Q ss_pred             HHHHHhcCChHHHHHHHhhCCCC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 041741          649 IDCLGRAGHFHEAEMLIDEMPCK-DDPVIWEVLLSSCRLHANVRLAKRAAEELF  701 (748)
Q Consensus       649 ~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  701 (748)
                      +.++...|++++|+..++....+ ..+..+...+..+...|++++|...|++++
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            78888888888888888776522 345566667777888888888888888764

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.03  E-value=2.2e-06  Score=65.03  Aligned_cols=78  Identities=18%  Similarity=0.227  Sum_probs=57.2

Q ss_pred             cCChHHHHHHHhhCC-CCC---CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHH
Q 041741          655 AGHFHEAEMLIDEMP-CKD---DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAV  730 (748)
Q Consensus       655 ~g~~~~A~~~~~~~~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  730 (748)
                      .|++++|+.+++++. ..|   +...+..++.++...|++++|..++++ .+.+|.++.....+|.+|.+.|++++|+++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            467777887777774 222   445566677788888888888888888 777777777777888888888888888888


Q ss_pred             HHH
Q 041741          731 REL  733 (748)
Q Consensus       731 ~~~  733 (748)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            875

>PRK15331 chaperone protein SicA; Provisional

Probab=97.98  E-value=6.3e-05  Score=62.65  Aligned_cols=90  Identities=18%  Similarity=0.110  Sum_probs=78.9

Q ss_pred             HHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCCh
Q 041741          647 CMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRW  724 (748)
Q Consensus       647 ~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  724 (748)
                      ..+.-+...|++++|..+|+-+.  ..-++..|..|..++...+++++|...|..+..++++||.+....+.+|...|+.
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCH
Confidence            45556678899999999998874  3446788899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 041741          725 DDLRAVRELMSE  736 (748)
Q Consensus       725 ~~A~~~~~~~~~  736 (748)
                      +.|+..|+....
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            999999887655

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.95  E-value=4.9e-05  Score=75.59  Aligned_cols=108  Identities=15%  Similarity=0.112  Sum_probs=86.3

Q ss_pred             HHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-C-CCCHhHHHHHHHHHHhc
Q 041741          611 AILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-C-KDDPVIWEVLLSSCRLH  687 (748)
Q Consensus       611 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~  687 (748)
                      .-...+...|++++|+..|+++.   ...|+ ...+..++.+|.+.|++++|+..++++. . +.++..+..++.++...
T Consensus         7 ~~a~~a~~~~~~~~Ai~~~~~Al---~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~l   83 (356)
T PLN03088          7 DKAKEAFVDDDFALAVDLYTQAI---DLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKL   83 (356)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHh
Confidence            33456677899999999999885   23444 6677788899999999999999998885 3 34677788888889999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhc
Q 041741          688 ANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSL  721 (748)
Q Consensus       688 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  721 (748)
                      |++++|...++++++++|+++.+...+..+..+.
T Consensus        84 g~~~eA~~~~~~al~l~P~~~~~~~~l~~~~~kl  117 (356)
T PLN03088         84 EEYQTAKAALEKGASLAPGDSRFTKLIKECDEKI  117 (356)
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999888877776665444

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.94  E-value=1.7e-05  Score=48.18  Aligned_cols=35  Identities=34%  Similarity=0.632  Sum_probs=30.4

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCc
Q 041741           86 VSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTH  120 (748)
Q Consensus        86 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  120 (748)
                      .+||.+|.+|++.|++++|.++|.+|.+.|++||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            36889999999999999999999999998888873

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=97.94  E-value=1.8e-05  Score=48.06  Aligned_cols=35  Identities=40%  Similarity=0.738  Sum_probs=32.8

Q ss_pred             ehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCc
Q 041741          187 VTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDS  221 (748)
Q Consensus       187 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~  221 (748)
                      .+|+.+|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37999999999999999999999999999999974

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.93  E-value=3.6e-05  Score=70.02  Aligned_cols=105  Identities=13%  Similarity=0.057  Sum_probs=74.1

Q ss_pred             HHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcCC
Q 041741          613 LTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHAN  689 (748)
Q Consensus       613 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~  689 (748)
                      ..-..+.+++.+|+..|.+.+   .+.|+ ...|..-+.+|.+.|.++.|++=.+... +.| ....|..|..+|...|+
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI---~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk  164 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAI---ELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGK  164 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHH---hcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCc
Confidence            444567778888888888775   55665 4445566778888888888888777765 444 35677777778888888


Q ss_pred             HHHHHHHHHHHHhcCCCCCcchHHHhHHHhh
Q 041741          690 VRLAKRAAEELFRLDPKNSAPYSLLANIYSS  720 (748)
Q Consensus       690 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  720 (748)
                      +++|++.|+++++++|+|...-..|.++-.+
T Consensus       165 ~~~A~~aykKaLeldP~Ne~~K~nL~~Ae~~  195 (304)
T KOG0553|consen  165 YEEAIEAYKKALELDPDNESYKSNLKIAEQK  195 (304)
T ss_pred             HHHHHHHHHhhhccCCCcHHHHHHHHHHHHH
Confidence            8888888888888888777555555444333

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.92  E-value=2e-05  Score=47.40  Aligned_cols=33  Identities=27%  Similarity=0.350  Sum_probs=31.6

Q ss_pred             ehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC
Q 041741          187 VTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSI  219 (748)
Q Consensus       187 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~  219 (748)
                      .+|+.++.++++.|+++.|.++|++|.+.|++|
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            689999999999999999999999999999987

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.90  E-value=0.00072  Score=56.76  Aligned_cols=132  Identities=12%  Similarity=0.067  Sum_probs=94.4

Q ss_pred             CCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC---CHhHH
Q 041741          602 VKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD---DPVIW  677 (748)
Q Consensus       602 ~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~---~~~~~  677 (748)
                      ..|+...-..|..+....|++.+|...|++. ...-+--|...+..++++....+++.+|...++++- .+|   +|...
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qa-lsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~  163 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQA-LSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHH-hccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            3566666666777778888888888888777 343445556667777777888888888888877763 222   35555


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHH
Q 041741          678 EVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       678 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      ..+...+...|.+++|+..++.++.-.| ++..-...+..+.++|+.++|...+..+-
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~yp-g~~ar~~Y~e~La~qgr~~ea~aq~~~v~  220 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYP-GPQARIYYAEMLAKQGRLREANAQYVAVV  220 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCC-CHHHHHHHHHHHHHhcchhHHHHHHHHHH
Confidence            5677778888888888888888888888 77777777788888887777766555443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.89  E-value=2.4e-05  Score=47.06  Aligned_cols=33  Identities=27%  Similarity=0.586  Sum_probs=25.8

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC
Q 041741           86 VSWNNLISALVRNGLEEKALSVYNKMSNEGFVP  118 (748)
Q Consensus        86 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p  118 (748)
                      .+|+.++.+|++.|+++.|.++|+.|.+.|++|
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            567788888888888888888888888777766

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.89  E-value=0.00015  Score=59.66  Aligned_cols=105  Identities=11%  Similarity=0.034  Sum_probs=69.3

Q ss_pred             HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCC----HhHHHHHH
Q 041741          608 TFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDD----PVIWEVLL  681 (748)
Q Consensus       608 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~  681 (748)
                      ++..++..+...|++++|...++.+.....-.+ ....+..++.++.+.|++++|...++.+. ..|+    +..+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            345555666677777777777777643321111 12345567777788888888888877764 2222    45566777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCcchH
Q 041741          682 SSCRLHANVRLAKRAAEELFRLDPKNSAPYS  712 (748)
Q Consensus       682 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  712 (748)
                      ..+...|+.++|...++++++..|+++.+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  114 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAAKL  114 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhHHH
Confidence            7788888888888888888888887665443

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.87  E-value=0.025  Score=53.89  Aligned_cols=270  Identities=17%  Similarity=0.159  Sum_probs=171.9

Q ss_pred             cCChHHHHHHHhhCC---CCCcchHHHHHHH--HHhCCCchHHHHHHHHHHHCCCCCCHH--HHHHHHHhhcCCCCchhH
Q 041741          452 CQRNELAERVFHRIP---ELDIVCWNSMIAG--LSLNSLDIEAFMFFKQMRQNEMYPTQF--SFATVLSSCAKLSSSFQG  524 (748)
Q Consensus       452 ~~~~~~a~~~~~~~~---~~~~~~~~~li~~--~~~~~~~~~a~~~~~~m~~~~~~p~~~--~~~~l~~~~~~~~~~~~a  524 (748)
                      .|+-..|.++-.+..   ..|....-.++.+  -.-.|+++.|.+-|+.|...   |...  -+..|.-...+.|+.+.|
T Consensus        97 AGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaA  173 (531)
T COG3898          97 AGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAA  173 (531)
T ss_pred             cCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHH
Confidence            344444444443332   2233333334433  33478888888888888743   2211  233444445677888888


Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcC-----CCCHHH--HHHHHHHH---HHcCChhHHHHHH
Q 041741          525 RQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMH-----GKNTVT--WNEMIHGY---AQNGYGDEAVRLY  594 (748)
Q Consensus       525 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~--~~~l~~~~---~~~~~~~~a~~~~  594 (748)
                      .++-+.....- +--.......+...+..|+|+.|+++++.-.     +++..-  --.|+.+-   .-.-+...|...-
T Consensus       174 r~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A  252 (531)
T COG3898         174 RHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDA  252 (531)
T ss_pred             HHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHH
Confidence            88777665543 2235566788888999999999999988654     344321  11222211   1123556666666


Q ss_pred             HHHHHcCCCCCHH-HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHH------hh
Q 041741          595 KDMIASGVKPDDI-TFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLI------DE  667 (748)
Q Consensus       595 ~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~------~~  667 (748)
                      .+..+  +.||.. .-.....++.+.|+..++-.+++.+   .+..|.+.+..  ...+.+.|+.  +..-+      ++
T Consensus       253 ~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~a---WK~ePHP~ia~--lY~~ar~gdt--a~dRlkRa~~L~s  323 (531)
T COG3898         253 LEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETA---WKAEPHPDIAL--LYVRARSGDT--ALDRLKRAKKLES  323 (531)
T ss_pred             HHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHH---HhcCCChHHHH--HHHHhcCCCc--HHHHHHHHHHHHh
Confidence            66665  567764 3445567889999999999999987   34556655442  2233455543  33333      33


Q ss_pred             CCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhc-CChHHHHHHHHHHHh
Q 041741          668 MPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSL-GRWDDLRAVRELMSE  736 (748)
Q Consensus       668 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~  736 (748)
                      |. +.+.........+....|++..|..-.+.+....| ...++.+|+++-... ||-.+++..+-+..+
T Consensus       324 lk-~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~p-res~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         324 LK-PNNAESSLAVAEAALDAGEFSAARAKAEAAAREAP-RESAYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             cC-ccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCc-hhhHHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence            33 34556666677788889999999999999999999 678899999998776 999999988876544

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.86  E-value=0.00042  Score=65.89  Aligned_cols=164  Identities=13%  Similarity=0.031  Sum_probs=118.0

Q ss_pred             CHHHHHHHH-HHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhH----
Q 041741          570 NTVTWNEMI-HGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDH----  644 (748)
Q Consensus       570 ~~~~~~~l~-~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~----  644 (748)
                      ...+|..+- .++.-.|++++|..+--..++.. ..+......-..++...++.+.|+..|++.+   ...|+...    
T Consensus       167 ac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~~yy~~~~~ka~~hf~qal---~ldpdh~~sk~~  242 (486)
T KOG0550|consen  167 ACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLCLYYNDNADKAINHFQQAL---RLDPDHQKSKSA  242 (486)
T ss_pred             hhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc-cchhHHHHhcccccccccchHHHHHHHhhhh---ccChhhhhHHhH
Confidence            334454443 46667889999888877777642 2222222222334456778888998888774   44555322    


Q ss_pred             ---------HHHHHHHHHhcCChHHHHHHHhhCC-CCC-----CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 041741          645 ---------YTCMIDCLGRAGHFHEAEMLIDEMP-CKD-----DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSA  709 (748)
Q Consensus       645 ---------~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  709 (748)
                               +..=++-..+.|++.+|.+.|.+.. +.|     +...|.....+..+.|+.++|+...+.+++++|.-..
T Consensus       243 ~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syik  322 (486)
T KOG0550|consen  243 SMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIK  322 (486)
T ss_pred             hhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHH
Confidence                     1222445668899999999998875 444     3445666666778899999999999999999999999


Q ss_pred             chHHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          710 PYSLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       710 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      ++...+.++...++|++|++.++...+.
T Consensus       323 all~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  323 ALLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999987653

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.84  E-value=0.00043  Score=58.05  Aligned_cols=106  Identities=16%  Similarity=0.222  Sum_probs=93.5

Q ss_pred             hhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC---CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CC
Q 041741          634 LDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP---CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK--NS  708 (748)
Q Consensus       634 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~~  708 (748)
                      ++...-|++..--.|+.++...|+..||...|++..   ...|+..+..+.++....+++..|...++++.+.+|.  +|
T Consensus        81 ~~~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~p  160 (251)
T COG4700          81 EELAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSP  160 (251)
T ss_pred             HHHhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCC
Confidence            444667888888899999999999999999999885   5568899999999999999999999999999999886  78


Q ss_pred             cchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          709 APYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       709 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      .....++.+|...|++++|+..++.+....+
T Consensus       161 d~~Ll~aR~laa~g~~a~Aesafe~a~~~yp  191 (251)
T COG4700         161 DGHLLFARTLAAQGKYADAESAFEVAISYYP  191 (251)
T ss_pred             CchHHHHHHHHhcCCchhHHHHHHHHHHhCC
Confidence            8999999999999999999999998766433

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.81  E-value=6.3e-05  Score=55.24  Aligned_cols=58  Identities=19%  Similarity=0.152  Sum_probs=51.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          682 SSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       682 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      ..+...+++++|.++++.++.++|+++..+...|.++...|++++|.+.++...+.++
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            4577889999999999999999999999999999999999999999999998876554

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.81  E-value=0.00016  Score=63.82  Aligned_cols=81  Identities=19%  Similarity=0.113  Sum_probs=58.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhhCC-CCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHH
Q 041741          643 DHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDD----PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANI  717 (748)
Q Consensus       643 ~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  717 (748)
                      ..+..++..+...|++++|...+++.. ..|+    ...+..++..+...|++++|...++++++..|+++..+..++.+
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~  115 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            345566667777777777777776663 1221    34666777777888888888888888888888888888888888


Q ss_pred             HhhcCC
Q 041741          718 YSSLGR  723 (748)
Q Consensus       718 ~~~~g~  723 (748)
                      |...|+
T Consensus       116 ~~~~g~  121 (172)
T PRK02603        116 YHKRGE  121 (172)
T ss_pred             HHHcCC
Confidence            877766

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.78  E-value=0.043  Score=53.27  Aligned_cols=108  Identities=17%  Similarity=0.161  Sum_probs=64.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCCh
Q 041741          543 GSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLV  622 (748)
Q Consensus       543 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~  622 (748)
                      .+..+.-+...|+...|.++-.+..=|+..-|...+.+++..++|++-......      +-++..|...+.+|...|..
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~  253 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNK  253 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCH
Confidence            334455555666677777776666666767777777777777777655543321      11224566666666666766


Q ss_pred             HHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhh
Q 041741          623 DVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDE  667 (748)
Q Consensus       623 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  667 (748)
                      .+|..+..++.           +..-++.|.+.|++.+|.+.--+
T Consensus       254 ~eA~~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  254 KEASKYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHHHHHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHH
Confidence            66666655431           13355666667777666665444

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.78  E-value=2.1e-05  Score=56.86  Aligned_cols=54  Identities=20%  Similarity=0.266  Sum_probs=44.3

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          685 RLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       685 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      ...|++++|...++++++.+|+++.+...++.+|.+.|++++|.++++++....
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~   55 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQD   55 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            457888889999999888899888888889999999999999988888765543

...

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.77  E-value=0.00011  Score=64.63  Aligned_cols=93  Identities=14%  Similarity=-0.076  Sum_probs=74.5

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhH
Q 041741          642 LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDD----PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLAN  716 (748)
Q Consensus       642 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  716 (748)
                      ...+..++..+...|++++|...+++.. ..|+    +.++..+...+...|++++|...++++++++|.++..+..++.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~  114 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence            4556677788888899999999888773 2222    3477888888999999999999999999999999888889998


Q ss_pred             HHh-------hcCChHHHHHHHHHH
Q 041741          717 IYS-------SLGRWDDLRAVRELM  734 (748)
Q Consensus       717 ~~~-------~~g~~~~A~~~~~~~  734 (748)
                      ++.       ..|++++|...+++.
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHH
Confidence            888       888888666665544

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.76  E-value=0.11  Score=57.20  Aligned_cols=246  Identities=15%  Similarity=0.117  Sum_probs=163.1

Q ss_pred             hHHHHHHHHhCCCCCcc-hhhHHHHHHHccCCchhhhhhhhcCCC--Cchh-hhhHHHHHhhcCCChhHHHHhhccCCCC
Q 041741            8 KLLHAHILRNGLFDDTF-LCNRLIELYSKCNNTHSAQHLFDKMPH--KDIY-SWNAILSAQCKSDDLEFAYKLFDEMPER   83 (748)
Q Consensus         8 ~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~   83 (748)
                      +..|.+..-..+.|+-. .+..|+..|...+++++|..+.+...+  |+.. .|..+.-.+.+.++...+..+       
T Consensus        15 ee~~~r~~~~~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv-------   87 (906)
T PRK14720         15 EEKWTRADANNYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL-------   87 (906)
T ss_pred             hhhhhhcccccCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh-------
Confidence            45666666666666444 688899999899999999998886654  4432 333333355666665444433       


Q ss_pred             CchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHH
Q 041741           84 NVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLS  163 (748)
Q Consensus        84 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  163 (748)
                            .++..+....++.-...+...|...  .-+...+..+..+|.+.|+.+++..+++.+.+.+ +.++.+.|.+.-
T Consensus        88 ------~~l~~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY  158 (906)
T PRK14720         88 ------NLIDSFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLAT  158 (906)
T ss_pred             ------hhhhhcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHH
Confidence                  3444455555564444455555542  3344577788888889999999999999999988 667888999999


Q ss_pred             HHHhcCChhhHHHHHhcCCCCCeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcc-cHHHHHHHHhccCCCCCcch
Q 041741          164 LYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSV-SLSSVLGVCAREGCGVESDV  242 (748)
Q Consensus       164 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~-t~~~ll~~~~~~~~~~~~~~  242 (748)
                      .|... +.++|++++.+           .+..+...+++..+.+++..+....  |+.. .|..++......        
T Consensus       159 ~~ae~-dL~KA~~m~~K-----------AV~~~i~~kq~~~~~e~W~k~~~~~--~~d~d~f~~i~~ki~~~--------  216 (906)
T PRK14720        159 SYEEE-DKEKAITYLKK-----------AIYRFIKKKQYVGIEEIWSKLVHYN--SDDFDFFLRIERKVLGH--------  216 (906)
T ss_pred             HHHHh-hHHHHHHHHHH-----------HHHHHHhhhcchHHHHHHHHHHhcC--cccchHHHHHHHHHHhh--------
Confidence            99888 99999988775           4445777788999999999888752  2222 222222222111        


Q ss_pred             hcccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHHHHHhccCCCC---CcccHHHHHHHHH
Q 041741          243 FAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPER---SVVSWNVMIAGYG  314 (748)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~  314 (748)
                                             .|..--..++..+-..|-...+|+++..+++.+.+.   |.....-++..|.
T Consensus       217 -----------------------~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        217 -----------------------REFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             -----------------------hccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence                                   123334455666777788888999999999988763   3345555555554

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.73  E-value=5.3e-05  Score=54.04  Aligned_cols=61  Identities=21%  Similarity=0.273  Sum_probs=51.1

Q ss_pred             HHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 041741          648 MIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS  708 (748)
Q Consensus       648 l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  708 (748)
                      ++..+...|++++|.+.++++. ..| ++..+..+..++...|++++|...++++++.+|++|
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            5678889999999999999885 334 678888889999999999999999999999999774

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.72  E-value=0.00016  Score=65.91  Aligned_cols=101  Identities=18%  Similarity=0.133  Sum_probs=82.2

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcC
Q 041741          578 IHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAG  656 (748)
Q Consensus       578 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g  656 (748)
                      ..-+.+.++|.+|+..|.++++.. +-|.+-|..-..+|.+.|.++.|++-.+..+   .+.|. ...|..|+.+|...|
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al---~iDp~yskay~RLG~A~~~~g  163 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESAL---SIDPHYSKAYGRLGLAYLALG  163 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHH---hcChHHHHHHHHHHHHHHccC
Confidence            456788999999999999999952 3455667788889999999999999988774   55666 678999999999999


Q ss_pred             ChHHHHHHHhhCC-CCCCHhHHHHHHH
Q 041741          657 HFHEAEMLIDEMP-CKDDPVIWEVLLS  682 (748)
Q Consensus       657 ~~~~A~~~~~~~~-~~~~~~~~~~l~~  682 (748)
                      ++++|.+.|++.. +.|+..+|..-+.
T Consensus       164 k~~~A~~aykKaLeldP~Ne~~K~nL~  190 (304)
T KOG0553|consen  164 KYEEAIEAYKKALELDPDNESYKSNLK  190 (304)
T ss_pred             cHHHHHHHHHhhhccCCCcHHHHHHHH
Confidence            9999999999886 7776655544443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.69  E-value=0.00032  Score=69.79  Aligned_cols=94  Identities=13%  Similarity=0.047  Sum_probs=70.7

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHh
Q 041741          576 EMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGR  654 (748)
Q Consensus       576 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~  654 (748)
                      .....+...|++++|+..|+++++.. +-+...|..+..+|...|++++|+..++++.   .+.|+ ...|..++.+|..
T Consensus         7 ~~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al---~l~P~~~~a~~~lg~~~~~   82 (356)
T PLN03088          7 DKAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAI---ELDPSLAKAYLRKGTACMK   82 (356)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH---HhCcCCHHHHHHHHHHHHH
Confidence            34556677888888998888888853 3455677777888888888888888888875   33443 5667788888888


Q ss_pred             cCChHHHHHHHhhCC-CCCC
Q 041741          655 AGHFHEAEMLIDEMP-CKDD  673 (748)
Q Consensus       655 ~g~~~~A~~~~~~~~-~~~~  673 (748)
                      .|++++|...+++.. ..|+
T Consensus        83 lg~~~eA~~~~~~al~l~P~  102 (356)
T PLN03088         83 LEEYQTAKAALEKGASLAPG  102 (356)
T ss_pred             hCCHHHHHHHHHHHHHhCCC
Confidence            899998888888875 4444

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.65  E-value=0.00072  Score=70.32  Aligned_cols=59  Identities=19%  Similarity=0.196  Sum_probs=29.5

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHH
Q 041741          675 VIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELM  734 (748)
Q Consensus       675 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  734 (748)
                      ..+..+.......|++++|...++++++++| +..+|..+|.+|...|+.++|.+.|+++
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A  479 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTA  479 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3344343333344555555555555555555 3445555555555555555555555543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.64  E-value=2.8e-05  Score=46.14  Aligned_cols=33  Identities=30%  Similarity=0.591  Sum_probs=31.1

Q ss_pred             HHHHHhcCCCCCcchHHHhHHHhhcCChHHHHH
Q 041741          697 AEELFRLDPKNSAPYSLLANIYSSLGRWDDLRA  729 (748)
Q Consensus       697 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  729 (748)
                      ++++++++|+|+.++..||.+|...|++++|++
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            789999999999999999999999999999963

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.60  E-value=0.0011  Score=58.48  Aligned_cols=129  Identities=17%  Similarity=0.168  Sum_probs=87.8

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC--HHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHH
Q 041741          570 NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPD--DITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYT  646 (748)
Q Consensus       570 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~  646 (748)
                      ....+..+...+...|++++|...|++..+.+..+.  ...+..+...+...|++++|...+++...   ..|+ ...+.
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~  110 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE---LNPKQPSALN  110 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCcccHHHHH
Confidence            445677788888888999999999988887533332  24677778888888888888888887742   3343 45566


Q ss_pred             HHHHHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcC
Q 041741          647 CMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLG  722 (748)
Q Consensus       647 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  722 (748)
                      .++.++...|+...+..-++..                  ...+++|.+.++++++.+|++   +..++..+...|
T Consensus       111 ~lg~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~  165 (172)
T PRK02603        111 NIAVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTG  165 (172)
T ss_pred             HHHHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcC
Confidence            6777777777766655433321                  123678899999999999966   444444444444

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.52  E-value=0.11  Score=50.87  Aligned_cols=49  Identities=6%  Similarity=0.002  Sum_probs=30.0

Q ss_pred             HHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHh
Q 041741          582 AQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSM  632 (748)
Q Consensus       582 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~  632 (748)
                      ..+|++.++.-.-..+.+  +.|++.+|..++-+.....++++|.+++..+
T Consensus       473 ysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  473 YSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            345666666555555544  5666666666666666666666666666544

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.51  E-value=0.00024  Score=53.77  Aligned_cols=80  Identities=16%  Similarity=0.382  Sum_probs=43.1

Q ss_pred             cCChhHHHHHHHHHHHcCCC-CCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHH
Q 041741          584 NGYGDEAVRLYKDMIASGVK-PDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEA  661 (748)
Q Consensus       584 ~~~~~~a~~~~~~m~~~~~~-p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A  661 (748)
                      .|+++.|+.+++++.+.... |+...+..+..++.+.|++++|+.++++.    ...|+ ....-.++.++.+.|++++|
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~----~~~~~~~~~~~l~a~~~~~l~~y~eA   77 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKL----KLDPSNPDIHYLLARCLLKLGKYEEA   77 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCH----THHHCHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHh----CCCCCCHHHHHHHHHHHHHhCCHHHH
Confidence            45666677777766664321 12334444666666666666666666652    12222 23333446666666666666


Q ss_pred             HHHHhh
Q 041741          662 EMLIDE  667 (748)
Q Consensus       662 ~~~~~~  667 (748)
                      ++.+++
T Consensus        78 i~~l~~   83 (84)
T PF12895_consen   78 IKALEK   83 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            666653

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.51  E-value=0.00014  Score=42.42  Aligned_cols=31  Identities=35%  Similarity=0.617  Sum_probs=27.2

Q ss_pred             ehHHHHHHHHHcCCCHHHHHHHHHHHHHcCC
Q 041741          187 VTFTAMMSGLAKTDRVVEALEMFRLMIRKAV  217 (748)
Q Consensus       187 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  217 (748)
                      .+|+.++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4789999999999999999999999988764

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.

>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=97.49  E-value=8.5e-05  Score=53.61  Aligned_cols=61  Identities=25%  Similarity=0.331  Sum_probs=31.7

Q ss_pred             hcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHH
Q 041741          654 RAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLL  714 (748)
Q Consensus       654 ~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  714 (748)
                      ..|++++|.+.++++.  .+.++..+..++..+...|++++|...++++...+|+++..+..+
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~l~   65 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQQLL   65 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            4455555555555553  233455555555555555555555555555555555544444433

...

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.48  E-value=0.0037  Score=65.19  Aligned_cols=139  Identities=15%  Similarity=0.089  Sum_probs=93.0

Q ss_pred             CCHHHHHHHHHHHHH--cC---ChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHhcCC--------CChHHHHHHHHHhhh
Q 041741          569 KNTVTWNEMIHGYAQ--NG---YGDEAVRLYKDMIASGVKPDD-ITFVAILTACSHS--------GLVDVGVEIFNSMQL  634 (748)
Q Consensus       569 ~~~~~~~~l~~~~~~--~~---~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~--------~~~~~A~~~~~~~~~  634 (748)
                      .|...|...+++...  .+   +...|..+|++.++.  .|+. ..+..+..++...        +++..+.+..++...
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            455666666655332  22   356788888888884  5665 3344333332111        123344444443321


Q ss_pred             hhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 041741          635 DHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSA  709 (748)
Q Consensus       635 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  709 (748)
                      ......+...+..++-.....|++++|...+++.. ..|+...+..++..+...|+.++|.+.++++++++|.+|.
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            11233345677777777778899999999999886 6678788888888999999999999999999999997774

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.46  E-value=0.13  Score=50.32  Aligned_cols=236  Identities=10%  Similarity=0.038  Sum_probs=135.6

Q ss_pred             HHHHHHHHCCCCCCHH-HHHHHHHhhcCCCCchhHHHHHHHHHHhCCCC----chHHHHHHHHHHHhcCCHHHHHHHhhh
Q 041741          491 MFFKQMRQNEMYPTQF-SFATVLSSCAKLSSSFQGRQVHAQIEKDGYVN----DIFVGSALIEMYCKCGDIYGARQFFDM  565 (748)
Q Consensus       491 ~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~  565 (748)
                      +++....+.-+.|+.. ....++..+..  +.+++..+-+.+....+.+    -+.++..++....+.++...|.+.+.-
T Consensus       246 q~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~l  323 (549)
T PF07079_consen  246 QILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLAL  323 (549)
T ss_pred             HHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            3444444445666544 33445554444  5566655555554443222    245667777778888888888888775


Q ss_pred             cC--CCCHHH-------HHHHHHHHHH----cCChhHHHHHHHHHHHcCCCCCHHH-HHHHH---HHhcCCCC-hHHHHH
Q 041741          566 MH--GKNTVT-------WNEMIHGYAQ----NGYGDEAVRLYKDMIASGVKPDDIT-FVAIL---TACSHSGL-VDVGVE  627 (748)
Q Consensus       566 ~~--~~~~~~-------~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~-~~~l~---~~~~~~~~-~~~A~~  627 (748)
                      +.  +|+...       -..+-+..+.    .-+..+=+.+|+.....  ..|..- ...++   .-+.+.|. -++|++
T Consensus       324 L~~ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~--DiDrqQLvh~L~~~Ak~lW~~g~~dekaln  401 (549)
T PF07079_consen  324 LKILDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSY--DIDRQQLVHYLVFGAKHLWEIGQCDEKALN  401 (549)
T ss_pred             HHhcCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhh--cccHHHHHHHHHHHHHHHHhcCCccHHHHH
Confidence            54  343221       1112222221    11233345566666664  344432 22222   33566666 788999


Q ss_pred             HHHHhhhhhCCCCChhHHHHHHH-----HHHhc---CChHHH---HHHHhhCCCCC----CHhHHHHHHHH--HHhcCCH
Q 041741          628 IFNSMQLDHGVEPILDHYTCMID-----CLGRA---GHFHEA---EMLIDEMPCKD----DPVIWEVLLSS--CRLHANV  690 (748)
Q Consensus       628 ~~~~~~~~~~~~~~~~~~~~l~~-----~~~~~---g~~~~A---~~~~~~~~~~~----~~~~~~~l~~~--~~~~~~~  690 (748)
                      +++.+.   .+.|...-....+.     .|..+   ..+.+-   ..++++...+|    +...-+.|..+  +..+|++
T Consensus       402 LLk~il---~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey  478 (549)
T PF07079_consen  402 LLKLIL---QFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEY  478 (549)
T ss_pred             HHHHHH---HhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccH
Confidence            988874   33333111112221     22211   111111   12233333343    34456666665  5678999


Q ss_pred             HHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHH
Q 041741          691 RLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELM  734 (748)
Q Consensus       691 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  734 (748)
                      .++.-.-.-+.+..| ++.++..+|-+.....++++|..+++.+
T Consensus       479 ~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  479 HKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            999999999999999 9999999999999999999999999863

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.45  E-value=0.00017  Score=42.09  Aligned_cols=31  Identities=39%  Similarity=0.670  Sum_probs=23.3

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 041741           86 VSWNNLISALVRNGLEEKALSVYNKMSNEGF  116 (748)
Q Consensus        86 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~  116 (748)
                      ++|+.++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3677778888888888888888887777653

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.

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.45  E-value=0.0027  Score=61.21  Aligned_cols=158  Identities=16%  Similarity=0.180  Sum_probs=96.3

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHH----cCCCCCH--HHHHHHHHHhcCC-CChHHHHHHHHHhhhhhCCCCC----h
Q 041741          574 WNEMIHGYAQNGYGDEAVRLYKDMIA----SGVKPDD--ITFVAILTACSHS-GLVDVGVEIFNSMQLDHGVEPI----L  642 (748)
Q Consensus       574 ~~~l~~~~~~~~~~~~a~~~~~~m~~----~~~~p~~--~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~----~  642 (748)
                      |.....+|.+. ++++|++.+++..+    .| .|+.  .++..+...|... |++++|++.|++...-+.-...    .
T Consensus        78 ~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G-~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~  155 (282)
T PF14938_consen   78 YEEAANCYKKG-DPDEAIECYEKAIEIYREAG-RFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAA  155 (282)
T ss_dssp             HHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC-cHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHH
Confidence            33344444444 77777777766554    23 3333  3566777788888 9999999999987543322222    3


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhhCC----CCC--CH---hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc---
Q 041741          643 DHYTCMIDCLGRAGHFHEAEMLIDEMP----CKD--DP---VIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAP---  710 (748)
Q Consensus       643 ~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~--~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~---  710 (748)
                      ..+..++..+.+.|++++|.++|++..    ..+  ..   ..+...+-.+...||+..|...+++....+|.-..+   
T Consensus       156 ~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~  235 (282)
T PF14938_consen  156 ECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREY  235 (282)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHH
Confidence            456778899999999999999998763    111  11   122233345667899999999999999998864433   


Q ss_pred             --hHHHhHHHhhc--CChHHHHHHHHH
Q 041741          711 --YSLLANIYSSL--GRWDDLRAVREL  733 (748)
Q Consensus       711 --~~~l~~~~~~~--g~~~~A~~~~~~  733 (748)
                        ...|..++...  ..+++|+.-|..
T Consensus       236 ~~~~~l~~A~~~~D~e~f~~av~~~d~  262 (282)
T PF14938_consen  236 KFLEDLLEAYEEGDVEAFTEAVAEYDS  262 (282)
T ss_dssp             HHHHHHHHHHHTT-CCCHHHHCHHHTT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHcc
Confidence              44445554332  344455555554

>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=97.44  E-value=0.00097  Score=52.09  Aligned_cols=91  Identities=19%  Similarity=0.158  Sum_probs=48.1

Q ss_pred             HHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcC
Q 041741          612 ILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHA  688 (748)
Q Consensus       612 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~  688 (748)
                      +...+...|++++|+..++.+..   ..|+ ...+..++.++...|++++|.+.++...  .+.++..+..+...+...|
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           6 LGNLYYKLGDYDEALEYYEKALE---LDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHhcHHHHHHHHHHHHh---cCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            33344445555555555554421   1121 2344455555555566666666655542  2223345555556666666


Q ss_pred             CHHHHHHHHHHHHhcCC
Q 041741          689 NVRLAKRAAEELFRLDP  705 (748)
Q Consensus       689 ~~~~a~~~~~~~~~~~p  705 (748)
                      +++.|...++.+++..|
T Consensus        83 ~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          83 KYEEALEAYEKALELDP   99 (100)
T ss_pred             hHHHHHHHHHHHHccCC
Confidence            66677766666666655

>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=97.41  E-value=0.00033  Score=50.63  Aligned_cols=64  Identities=14%  Similarity=0.119  Sum_probs=53.8

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcC-CHHHHHHHHHHHHhcCC
Q 041741          642 LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHA-NVRLAKRAAEELFRLDP  705 (748)
Q Consensus       642 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~p  705 (748)
                      ...|..++..+...|++++|+..|++..  .+.++..+..+..++...| ++++|.+.++++++++|
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            4567788888999999999999988875  4446778888888888888 79999999999999988

...

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.40  E-value=0.18  Score=50.54  Aligned_cols=123  Identities=11%  Similarity=0.144  Sum_probs=72.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhCCC-----CCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHH-HHHHHh
Q 041741          441 VASGLIGIYSKCQRNELAERVFHRIPE-----LDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSF-ATVLSS  514 (748)
Q Consensus       441 ~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~l~~~  514 (748)
                      ++-.+++.-.+..-+..|..+|.+..+     .++...++++..|| .++..-|..+|+--.+.  -+|...| ...+.-
T Consensus       368 v~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk--f~d~p~yv~~Yldf  444 (656)
T KOG1914|consen  368 VYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK--FGDSPEYVLKYLDF  444 (656)
T ss_pred             ehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh--cCCChHHHHHHHHH
Confidence            344444444445555555555555543     13444555555544 35566677777665543  2333332 344555


Q ss_pred             hcCCCCchhHHHHHHHHHHhCCCC--chHHHHHHHHHHHhcCCHHHHHHHhhhc
Q 041741          515 CAKLSSSFQGRQVHAQIEKDGYVN--DIFVGSALIEMYCKCGDIYGARQFFDMM  566 (748)
Q Consensus       515 ~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~  566 (748)
                      +...++-..+..+|+.....++++  +..+|..++..=..-|++..+.++-++.
T Consensus       445 L~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~  498 (656)
T KOG1914|consen  445 LSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRR  498 (656)
T ss_pred             HHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            566777777777787777775555  3577777777777778887777765544

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.39  E-value=0.039  Score=56.04  Aligned_cols=52  Identities=19%  Similarity=0.232  Sum_probs=27.6

Q ss_pred             HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC
Q 041741          608 TFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       608 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  669 (748)
                      +...+...+.+...+.-|-++|.+|- +         ...+++.....++|++|..+-++.+
T Consensus       749 ~l~~~a~ylk~l~~~gLAaeIF~k~g-D---------~ksiVqlHve~~~W~eAFalAe~hP  800 (1081)
T KOG1538|consen  749 PLLLCATYLKKLDSPGLAAEIFLKMG-D---------LKSLVQLHVETQRWDEAFALAEKHP  800 (1081)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHhc-c---------HHHHhhheeecccchHhHhhhhhCc
Confidence            33333334444455555666666551 1         2345555666666666666666654

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.37  E-value=0.037  Score=54.05  Aligned_cols=159  Identities=18%  Similarity=0.176  Sum_probs=95.9

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhcCCC-------CHHHHHHHHHHHHH---cCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 041741          545 ALIEMYCKCGDIYGARQFFDMMHGK-------NTVTWNEMIHGYAQ---NGYGDEAVRLYKDMIASGVKPDDITFVAILT  614 (748)
Q Consensus       545 ~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~l~~~~~~---~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~  614 (748)
                      .++-.|....+++...++.+.+...       ....-...+.++-+   .|+.++|++++..+....-.++..+|..+++
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            4444566666666666666665542       12222234445555   6778888888877655555677777777766


Q ss_pred             Hhc---------CCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHH----HHH---hhC-----CCC--
Q 041741          615 ACS---------HSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAE----MLI---DEM-----PCK--  671 (748)
Q Consensus       615 ~~~---------~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~----~~~---~~~-----~~~--  671 (748)
                      .|-         .....++|+..|.+.   +.+.|+..+-..++..+...|...+..    ++.   ..+     ...  
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kg---Fe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKG---FEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHH---HcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            551         123467788777754   456676555445555555555432222    222   111     122  


Q ss_pred             CCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041741          672 DDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK  706 (748)
Q Consensus       672 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  706 (748)
                      .+-..+..++.++.-.||+++|.+.++++..+.|+
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~  337 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPP  337 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCc
Confidence            23444566777888899999999999999999873

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.37  E-value=0.00027  Score=45.29  Aligned_cols=43  Identities=26%  Similarity=0.427  Sum_probs=38.4

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhH
Q 041741          674 PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLAN  716 (748)
Q Consensus       674 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  716 (748)
                      |..+..+...+...|++++|++.++++++.+|+|+.++..|+.
T Consensus         1 p~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            3567788899999999999999999999999999998888875

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.36  E-value=0.0014  Score=61.38  Aligned_cols=91  Identities=8%  Similarity=-0.048  Sum_probs=42.1

Q ss_pred             cCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC----CHhHHHHHHHHHHhcCCH
Q 041741          617 SHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD----DPVIWEVLLSSCRLHANV  690 (748)
Q Consensus       617 ~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~~~~  690 (748)
                      .+.|++++|+..|+.+...+.-.+- ...+-.++.+|...|++++|...|+.+. ..|    .+..+..++..+...|+.
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~  233 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDT  233 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCH
Confidence            4445555555555555432211110 1234445555555555555555555543 111    233344444444455555


Q ss_pred             HHHHHHHHHHHhcCCCC
Q 041741          691 RLAKRAAEELFRLDPKN  707 (748)
Q Consensus       691 ~~a~~~~~~~~~~~p~~  707 (748)
                      ++|...++++++..|++
T Consensus       234 ~~A~~~~~~vi~~yP~s  250 (263)
T PRK10803        234 AKAKAVYQQVIKKYPGT  250 (263)
T ss_pred             HHHHHHHHHHHHHCcCC
Confidence            55555555555555543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.34  E-value=0.013  Score=54.68  Aligned_cols=56  Identities=14%  Similarity=0.192  Sum_probs=47.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCC---cchHHHhHHHhhcCChHHHHHHHHHHH
Q 041741          680 LLSSCRLHANVRLAKRAAEELFRLDPKNS---APYSLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       680 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      +...|.+.|.+..|..-++.+++..|+.+   .++..+..+|...|..++|..+.+.+.
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            44557788999999999999999988755   468889999999999999999887654

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.34  E-value=0.0059  Score=58.56  Aligned_cols=134  Identities=12%  Similarity=0.132  Sum_probs=92.1

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH-hcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHH
Q 041741          572 VTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTA-CSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMID  650 (748)
Q Consensus       572 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~-~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  650 (748)
                      ..|-.+++...+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|..+|+...+.+  ..+...+...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHH
Confidence            356777777777777888888888887542 2233344433333 333566777888888886554  445566778888


Q ss_pred             HHHhcCChHHHHHHHhhCC-CCC----CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 041741          651 CLGRAGHFHEAEMLIDEMP-CKD----DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS  708 (748)
Q Consensus       651 ~~~~~g~~~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  708 (748)
                      .+.+.|+.+.|..+|++.. .-|    ...+|...+..-...|+.+....+.+++.+.-|++.
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~  141 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDN  141 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhh
Confidence            8888888888988888875 222    235888888888888999999999999888887643

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.

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.33  E-value=0.0015  Score=52.44  Aligned_cols=86  Identities=21%  Similarity=-0.001  Sum_probs=50.4

Q ss_pred             HHHHHHhcCChHHHHHHHhhCC-CCC----CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC---CCcchHHHhHHHh
Q 041741          648 MIDCLGRAGHFHEAEMLIDEMP-CKD----DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK---NSAPYSLLANIYS  719 (748)
Q Consensus       648 l~~~~~~~g~~~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~  719 (748)
                      ++.++-..|+.++|+.+|++.. ..+    ....+..+...++..|++++|..++++.+...|+   +......++.++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            4455556666666666666553 111    1234445556666667777777777766666665   4445555666666


Q ss_pred             hcCChHHHHHHHHH
Q 041741          720 SLGRWDDLRAVREL  733 (748)
Q Consensus       720 ~~g~~~~A~~~~~~  733 (748)
                      ..|+.++|++.+-.
T Consensus        87 ~~gr~~eAl~~~l~  100 (120)
T PF12688_consen   87 NLGRPKEALEWLLE  100 (120)
T ss_pred             HCCCHHHHHHHHHH
Confidence            66777766665443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.32  E-value=0.18  Score=48.99  Aligned_cols=105  Identities=13%  Similarity=0.178  Sum_probs=58.8

Q ss_pred             HHHHHHHHhcCChhHHHHHhccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHH
Q 041741          276 NSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIK  355 (748)
Q Consensus       276 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  355 (748)
                      +..+.-+...|....|.++..+..-|+..-|...+.+++..++|++-..+...      +-++.-|..++.+|...|+..
T Consensus       181 ~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~  254 (319)
T PF04840_consen  181 NDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKK  254 (319)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHH
Confidence            33444555566666666666666556666666666666666666655544321      112355566666666666666


Q ss_pred             HHHHHhccCCCCCcchHHHHHHHHHccCCHHHHHHHH
Q 041741          356 TGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLF  392 (748)
Q Consensus       356 ~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  392 (748)
                      +|...+..+      .+..-+..|.+.|++.+|.+.-
T Consensus       255 eA~~yI~k~------~~~~rv~~y~~~~~~~~A~~~A  285 (319)
T PF04840_consen  255 EASKYIPKI------PDEERVEMYLKCGDYKEAAQEA  285 (319)
T ss_pred             HHHHHHHhC------ChHHHHHHHHHCCCHHHHHHHH
Confidence            666655552      2244455556666666665543

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

>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=0.0027  Score=48.84  Aligned_cols=78  Identities=15%  Similarity=0.111  Sum_probs=65.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCC-CCCcchHHHHHHHhcccc--------CcHHHhHHHHHHHHHCCCCcHhHHHH
Q 041741           90 NLISALVRNGLEEKALSVYNKMSNEGF-VPTHITLASVFKASTALL--------DVEHGRRCHGLVIKIGLDKNIYVANA  160 (748)
Q Consensus        90 ~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~  160 (748)
                      ..|.-+...+++.....+|+.+++.|+ .|+..+|+.++.+.+++.        .+-....+|+.|...++.|+..+|+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            445566677999999999999999999 899999999999887653        23456778999999999999999999


Q ss_pred             HHHHHHh
Q 041741          161 LLSLYAK  167 (748)
Q Consensus       161 li~~~~~  167 (748)
                      ++..+.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            9887765

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 [, , ].

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.30  E-value=0.0036  Score=55.04  Aligned_cols=62  Identities=15%  Similarity=0.112  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC--HHHHHHHHHHhcCCCChHHHHHHHHHhh
Q 041741          572 VTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPD--DITFVAILTACSHSGLVDVGVEIFNSMQ  633 (748)
Q Consensus       572 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~  633 (748)
                      ..|..++..+...|++++|+..|++.......|.  ..++..+...+...|++++|+..+++..
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al   99 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQAL   99 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3455566666666666666666666665421211  1345556666666666666666666553

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.29  E-value=0.0069  Score=50.54  Aligned_cols=95  Identities=11%  Similarity=0.010  Sum_probs=58.8

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCC
Q 041741          545 ALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGL  621 (748)
Q Consensus       545 ~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~  621 (748)
                      .+...+...|++++|..+|+.+..   .+..-|-.|..++...|++.+|+..|....... +-|+..+-.+..++...|+
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG~  118 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACDN  118 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCC
Confidence            344445566777777777765542   245556666677777777777777777776653 3344556666667777777


Q ss_pred             hHHHHHHHHHhhhhhCCCC
Q 041741          622 VDVGVEIFNSMQLDHGVEP  640 (748)
Q Consensus       622 ~~~A~~~~~~~~~~~~~~~  640 (748)
                      .+.|.+.|+......+-.|
T Consensus       119 ~~~A~~aF~~Ai~~~~~~~  137 (157)
T PRK15363        119 VCYAIKALKAVVRICGEVS  137 (157)
T ss_pred             HHHHHHHHHHHHHHhccCh
Confidence            7777777776644333333

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.27  E-value=0.0011  Score=63.04  Aligned_cols=257  Identities=13%  Similarity=0.036  Sum_probs=146.4

Q ss_pred             HHhCCCchHHHHHHHHHHHCCCC---CCHHHHHHHHHhhcCCCCchhHHHHHHHHH--Hh--CCCC-chHHHHHHHHHHH
Q 041741          480 LSLNSLDIEAFMFFKQMRQNEMY---PTQFSFATVLSSCAKLSSSFQGRQVHAQIE--KD--GYVN-DIFVGSALIEMYC  551 (748)
Q Consensus       480 ~~~~~~~~~a~~~~~~m~~~~~~---p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~--~~~~-~~~~~~~l~~~~~  551 (748)
                      +++.|+....+.+|+...+.|-.   .-+..|..|.++|.-.+++++|.++...=.  ..  |-.. .......|...+-
T Consensus        27 Lck~gdcraGv~ff~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtlK  106 (639)
T KOG1130|consen   27 LCKMGDCRAGVDFFKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTLK  106 (639)
T ss_pred             HHhccchhhhHHHHHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchhh
Confidence            55666666666666666665521   112234455566666666666666543311  00  1111 1112222333344


Q ss_pred             hcCCHHHHHHHhhhcCC---------CCHHHHHHHHHHHHHcCC--------------------hhHHHHHHHHHHH---
Q 041741          552 KCGDIYGARQFFDMMHG---------KNTVTWNEMIHGYAQNGY--------------------GDEAVRLYKDMIA---  599 (748)
Q Consensus       552 ~~g~~~~A~~~~~~~~~---------~~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~m~~---  599 (748)
                      -.|.+++|.-...+-..         -....+..+...|...|+                    ++.|.+.|.+-++   
T Consensus       107 v~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~~  186 (639)
T KOG1130|consen  107 VKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELSE  186 (639)
T ss_pred             hhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556665543322110         012233344555544332                    2334444443222   


Q ss_pred             -cCCC-CCHHHHHHHHHHhcCCCChHHHHHHHHHh---hhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC----
Q 041741          600 -SGVK-PDDITFVAILTACSHSGLVDVGVEIFNSM---QLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP----  669 (748)
Q Consensus       600 -~~~~-p~~~~~~~l~~~~~~~~~~~~A~~~~~~~---~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~----  669 (748)
                       .|-. .-...|..|...|.-.|+++.|+...+.-   .+++|-+.. ...+..++.++.-.|+++.|.+.|+.-.    
T Consensus       187 ~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAi  266 (639)
T KOG1130|consen  187 KLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAI  266 (639)
T ss_pred             HhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHH
Confidence             1100 11135677777778889999998876532   133443332 4467789999999999999999887642    


Q ss_pred             -CC---CCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC----CC--CCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          670 -CK---DDPVIWEVLLSSCRLHANVRLAKRAAEELFRLD----PK--NSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       670 -~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                       ..   .....-..|.+.|.-..++++|+.+..+=+.+.    ..  ..-++++|+.+|-..|..++|+.+.+.-++
T Consensus       267 elg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  267 ELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence             11   123444567777777788999998877765542    21  345799999999999999999998887665

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.25  E-value=0.0011  Score=65.16  Aligned_cols=63  Identities=14%  Similarity=-0.083  Sum_probs=32.4

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc---hHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          674 PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAP---YSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       674 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      +..+..+...+...|++++|...++++++++|+++.+   ++.++.+|..+|+.++|+..++++.+
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4444555555555555555555555555555554432   55555555555555555555555443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.25  E-value=0.0036  Score=60.40  Aligned_cols=159  Identities=8%  Similarity=-0.038  Sum_probs=94.5

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCC---CCCH--HHHHHHHHHhcCCCChHHHHHHHHHhhhhhC--CCCC--hhHHHH
Q 041741          577 MIHGYAQNGYGDEAVRLYKDMIASGV---KPDD--ITFVAILTACSHSGLVDVGVEIFNSMQLDHG--VEPI--LDHYTC  647 (748)
Q Consensus       577 l~~~~~~~~~~~~a~~~~~~m~~~~~---~p~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~--~~~~~~  647 (748)
                      ....|...|++++|.+.|.+..+...   .+..  ..|......|.+. ++++|+..+++...-+.  -.|+  ...+..
T Consensus        41 Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~~~  119 (282)
T PF14938_consen   41 AANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGRFSQAAKCLKE  119 (282)
T ss_dssp             HHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            44555556666666666655443211   1111  2233333344333 66677776666532211  1121  345667


Q ss_pred             HHHHHHhc-CChHHHHHHHhhCC------CCC--CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc-------ch
Q 041741          648 MIDCLGRA-GHFHEAEMLIDEMP------CKD--DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSA-------PY  711 (748)
Q Consensus       648 l~~~~~~~-g~~~~A~~~~~~~~------~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-------~~  711 (748)
                      ++..|... |++++|.+.|++..      ..+  ....+..++..+...|++++|.+.+++.....-+++.       .+
T Consensus       120 lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~  199 (282)
T PF14938_consen  120 LAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYF  199 (282)
T ss_dssp             HHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHH
Confidence            78888888 99999999988773      111  1345667777899999999999999998876443332       24


Q ss_pred             HHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          712 SLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       712 ~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      ...+-++...||.-.|.+.+++...
T Consensus       200 l~a~l~~L~~~D~v~A~~~~~~~~~  224 (282)
T PF14938_consen  200 LKAILCHLAMGDYVAARKALERYCS  224 (282)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHGT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4566678888999999999998543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.24  E-value=0.00075  Score=49.43  Aligned_cols=67  Identities=18%  Similarity=0.192  Sum_probs=55.2

Q ss_pred             HHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHh
Q 041741          649 IDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLA  715 (748)
Q Consensus       649 ~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  715 (748)
                      ..+|.+.+++++|.+.++.+.  .+.++..|...+..+...|++++|.+.++++++..|+++......+
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~~~a   70 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARALRA   70 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHHHHH
Confidence            356788999999999999886  4456778888888899999999999999999999997766655443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.21  E-value=0.0042  Score=58.30  Aligned_cols=95  Identities=14%  Similarity=0.030  Sum_probs=67.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCC-CCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC---cchHHHhH
Q 041741          645 YTCMIDCLGRAGHFHEAEMLIDEMP-CKDD----PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS---APYSLLAN  716 (748)
Q Consensus       645 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~  716 (748)
                      |......+.+.|++++|...|+... ..|+    +..+..++..+...|++++|...|++++...|+++   .++..++.
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~  225 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGV  225 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHH
Confidence            4444444456688888888887775 2232    35666677778888888888888888888777654   45666678


Q ss_pred             HHhhcCChHHHHHHHHHHHhcCC
Q 041741          717 IYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       717 ~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      ++...|++++|..+|+.+.+..+
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~~yP  248 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIKKYP  248 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCc
Confidence            88888888888888887766544

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.17  E-value=0.0067  Score=60.50  Aligned_cols=120  Identities=9%  Similarity=0.056  Sum_probs=82.3

Q ss_pred             CCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHh--CCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC----CCHHH
Q 041741          500 EMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKD--GYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG----KNTVT  573 (748)
Q Consensus       500 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~  573 (748)
                      +.+.+...+..+++.+....+.+.+..++..+...  ....-+.+..++++.|.+.|..+.+..+++.=..    ||..+
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            34556667777777777777777777777777665  2222333445777778888888888877765443    77778


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC
Q 041741          574 WNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHS  619 (748)
Q Consensus       574 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  619 (748)
                      ++.|++.+.+.|++..|.++...|...+...+..|+...+.+|.+-
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            8888888888888888888777777766666666666555555443

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 [].

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.12  E-value=0.15  Score=52.05  Aligned_cols=101  Identities=7%  Similarity=-0.004  Sum_probs=67.4

Q ss_pred             HHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhh
Q 041741          557 YGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDH  636 (748)
Q Consensus       557 ~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  636 (748)
                      +-+.++-.++...+..+...+..-+.+...+.-|.++|.+|-+         ...+++.....++|++|..+-++.   .
T Consensus       733 d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~h---P  800 (1081)
T KOG1538|consen  733 DMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKH---P  800 (1081)
T ss_pred             HHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhC---c
Confidence            3334444444445666666666666677778888889888765         346677888999999999998765   3


Q ss_pred             CCCCChhH-----------HHHHHHHHHhcCChHHHHHHHhhCC
Q 041741          637 GVEPILDH-----------YTCMIDCLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       637 ~~~~~~~~-----------~~~l~~~~~~~g~~~~A~~~~~~~~  669 (748)
                      .+.||+..           +...-.+|.++|+..||..+++++.
T Consensus       801 e~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLt  844 (1081)
T KOG1538|consen  801 EFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLT  844 (1081)
T ss_pred             cccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhh
Confidence            55666432           2233456667777777777777664

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.10  E-value=0.0061  Score=60.76  Aligned_cols=120  Identities=11%  Similarity=0.046  Sum_probs=98.7

Q ss_pred             CCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHC--CCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCC----CCeeh
Q 041741          115 GFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIG--LDKNIYVANALLSLYAKCGWTKHAVPVFEEMSE----PNEVT  188 (748)
Q Consensus       115 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~  188 (748)
                      +.+.+......+++.+....+++.+..++-......  ...-..|..++|+.|.+.|..+.++.++..-..    ||..+
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            445566677888888888888888888888887763  333445667999999999999999999887554    89999


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhcc
Q 041741          189 FTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCARE  234 (748)
Q Consensus       189 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~  234 (748)
                      +|.|+..+.+.|++..|.++...|...+...+..|+...+.+|.+.
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            9999999999999999999999999888888888888877777665

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.08  E-value=0.025  Score=50.80  Aligned_cols=136  Identities=11%  Similarity=0.021  Sum_probs=95.0

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhC----CCCChhHHHHH
Q 041741          573 TWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHG----VEPILDHYTCM  648 (748)
Q Consensus       573 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~~~l  648 (748)
                      .-+.++.++.-.|.+.-.+..+++.++...+-++.....|++.-.+.||.+.|..+|+...+..+    +.-........
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            34566677777788888888999988865555666777888888889999999999987633222    22223333344


Q ss_pred             HHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 041741          649 IDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS  708 (748)
Q Consensus       649 ~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  708 (748)
                      ...+.-++++.+|...+.++.  .+.++...+.-.-...-.|+...|...++.+.+..|...
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~  320 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHY  320 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccc
Confidence            556677788888888888876  333455555555555556788888888888888888533

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.95  E-value=0.065  Score=48.23  Aligned_cols=146  Identities=15%  Similarity=0.116  Sum_probs=90.8

Q ss_pred             hHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhh
Q 041741          588 DEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDE  667 (748)
Q Consensus       588 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  667 (748)
                      +..++.|++=..       ...+.++..+.-.|.+.-....+.+.. ....+.++.....+++.-...||.+.|...+++
T Consensus       166 ESsv~lW~KRl~-------~Vmy~~~~~llG~kEy~iS~d~~~~vi-~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~  237 (366)
T KOG2796|consen  166 ESSIRLWRKRLG-------RVMYSMANCLLGMKEYVLSVDAYHSVI-KYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQD  237 (366)
T ss_pred             hhHHHHHHHHHH-------HHHHHHHHHHhcchhhhhhHHHHHHHH-HhCCcccHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            445555554332       123444555555566666667777763 333344555666777777777777777777764


Q ss_pred             CC--------CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          668 MP--------CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       668 ~~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      ..        ......+.......+.-++++..|...+.+.++.+|.++.+...-+-+..-.|+..+|++..+.|+++-+
T Consensus       238 vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P  317 (366)
T KOG2796|consen  238 VEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDP  317 (366)
T ss_pred             HHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence            32        2222333344444566677777777777777777777777777777777777777777777777766544


Q ss_pred             CC
Q 041741          740 VK  741 (748)
Q Consensus       740 ~~  741 (748)
                      .+
T Consensus       318 ~~  319 (366)
T KOG2796|consen  318 RH  319 (366)
T ss_pred             cc
Confidence            33

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.92  E-value=0.66  Score=48.14  Aligned_cols=62  Identities=8%  Similarity=0.036  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHH-cCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHh
Q 041741          571 TVTWNEMIHGYAQNGYGDEAVRLYKDMIA-SGVKPDDITFVAILTACSHSGLVDVGVEIFNSM  632 (748)
Q Consensus       571 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~-~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~  632 (748)
                      ...|-+|.+-....|..+.|+..--.+.+ ..+-|....|..+.-+-+....+...-+.|-++
T Consensus      1021 AyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raFGtCSKAfmkL 1083 (1189)
T KOG2041|consen 1021 AYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAFGTCSKAFMKL 1083 (1189)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhhhhhHHHHHHH
Confidence            34455566666777888888775444332 225566677776655544444444333333333

>PRK11906 transcriptional regulator; Provisional

Probab=96.91  E-value=0.0087  Score=59.17  Aligned_cols=142  Identities=8%  Similarity=0.078  Sum_probs=87.0

Q ss_pred             ChhHHHHHHHHHHH-cCCCCCH-HHHHHHHHHhcC---------CCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHHH
Q 041741          586 YGDEAVRLYKDMIA-SGVKPDD-ITFVAILTACSH---------SGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCLG  653 (748)
Q Consensus       586 ~~~~a~~~~~~m~~-~~~~p~~-~~~~~l~~~~~~---------~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~  653 (748)
                      ..+.|+.+|.+... ..+.|+. ..|..+..++..         .....+|.++.++..   .+.| |......++.++.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv---eld~~Da~a~~~~g~~~~  349 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS---DITTVDGKILAIMGLITG  349 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH---hcCCCCHHHHHHHHHHHH
Confidence            34668888888882 1245655 456655554421         122344555544443   3333 3555666777777


Q ss_pred             hcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc--hHHHhHHHhhcCChHHHHH
Q 041741          654 RAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAP--YSLLANIYSSLGRWDDLRA  729 (748)
Q Consensus       654 ~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~--~~~l~~~~~~~g~~~~A~~  729 (748)
                      -.|+++.|..+|++.. ..| .+..|......+...|+.++|.+.++++++++|....+  .......|+..+ .++|..
T Consensus       350 ~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~~-~~~~~~  428 (458)
T PRK11906        350 LSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPNP-LKNNIK  428 (458)
T ss_pred             hhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCCc-hhhhHH
Confidence            7777888888888775 444 45666666666777888888888888888888865544  333333455544 455555


Q ss_pred             HH
Q 041741          730 VR  731 (748)
Q Consensus       730 ~~  731 (748)
                      .|
T Consensus       429 ~~  430 (458)
T PRK11906        429 LY  430 (458)
T ss_pred             HH
Confidence            44

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.89  E-value=0.037  Score=50.26  Aligned_cols=50  Identities=16%  Similarity=0.106  Sum_probs=39.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCc---chHHHhHHHhhcCChHHHHH
Q 041741          680 LLSSCRLHANVRLAKRAAEELFRLDPKNSA---PYSLLANIYSSLGRWDDLRA  729 (748)
Q Consensus       680 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~~  729 (748)
                      ++..|.+.|.+..|..-++.+++..|+.+.   ++..++.+|.+.|..+.|..
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            445578899999999999999999997553   58889999999999885543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.89  E-value=0.26  Score=44.86  Aligned_cols=58  Identities=21%  Similarity=0.236  Sum_probs=46.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCc---chHHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          680 LLSSCRLHANVRLAKRAAEELFRLDPKNSA---PYSLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       680 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      +...|.+.|.+..|..-++.+++..|+.+.   ++..+..+|...|..++|...-+-+...
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            455688889999999999999998876554   5777788899999999998887765443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.87  E-value=0.024  Score=46.46  Aligned_cols=92  Identities=13%  Similarity=0.061  Sum_probs=68.0

Q ss_pred             HHHHHHHhcCChHHHHHHHhhCC----CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc---hHHHhHHH
Q 041741          647 CMIDCLGRAGHFHEAEMLIDEMP----CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAP---YSLLANIY  718 (748)
Q Consensus       647 ~l~~~~~~~g~~~~A~~~~~~~~----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~---~~~l~~~~  718 (748)
                      .-+....+.|++++|.+.|+.+.    ..| .+.....++.++...++++.|...+++.++++|.++.+   +...|-++
T Consensus        15 ~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   15 QEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            34555667899999998888884    222 45566678888889999999999999999999987754   66666667


Q ss_pred             hhcCC---------------hHHHHHHHHHHHhcC
Q 041741          719 SSLGR---------------WDDLRAVRELMSENC  738 (748)
Q Consensus       719 ~~~g~---------------~~~A~~~~~~~~~~~  738 (748)
                      ..+..               ..+|...|+.+.++-
T Consensus        95 ~~~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~y  129 (142)
T PF13512_consen   95 YEQDEGSLQSFFRSDRDPTPARQAFRDFEQLVRRY  129 (142)
T ss_pred             HHHhhhHHhhhcccccCcHHHHHHHHHHHHHHHHC
Confidence            77665               667777777765543

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=96.86  E-value=0.0075  Score=57.86  Aligned_cols=129  Identities=13%  Similarity=0.145  Sum_probs=100.8

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHh-cCChHHHHHHHhhCC--CCCCHhHHHHHHHH
Q 041741          607 ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGR-AGHFHEAEMLIDEMP--CKDDPVIWEVLLSS  683 (748)
Q Consensus       607 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  683 (748)
                      .+|..+++..-+.+..+.|..+|.++...  -..+...|...+..-.+ .++.+.|.++|+...  .+.+...|..++..
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~--~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKD--KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            46778888888888899999999999522  23345666666666344 567777999999985  67789999999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCC---cchHHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          684 CRLHANVRLAKRAAEELFRLDPKNS---APYSLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       684 ~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      +...|+.+.|..++++++..-|.+.   ..+...+..-.+.|+.+....+.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999999877544   47888888889999999999999988764

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.

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.85  E-value=0.028  Score=45.28  Aligned_cols=93  Identities=17%  Similarity=0.198  Sum_probs=65.9

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCH--HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHH
Q 041741          576 EMIHGYAQNGYGDEAVRLYKDMIASGVKPDD--ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCL  652 (748)
Q Consensus       576 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~  652 (748)
                      .+..++-..|+.++|+.+|++....|.....  ..+..+...+...|++++|..++++....+.-.+ +......++-++
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHH
Confidence            3556777889999999999999988866553  3566777888889999999999988854432211 122222345677


Q ss_pred             HhcCChHHHHHHHhhC
Q 041741          653 GRAGHFHEAEMLIDEM  668 (748)
Q Consensus       653 ~~~g~~~~A~~~~~~~  668 (748)
                      ...|+.++|+..+-..
T Consensus        86 ~~~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEA  101 (120)
T ss_pred             HHCCCHHHHHHHHHHH
Confidence            8889999988877554

>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=96.83  E-value=0.0012  Score=49.02  Aligned_cols=61  Identities=13%  Similarity=0.115  Sum_probs=41.6

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhc----CCC---CCcchHHHhHHHhhcCChHHHHHHHHHHH
Q 041741          675 VIWEVLLSSCRLHANVRLAKRAAEELFRL----DPK---NSAPYSLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       675 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~p~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      .++..+...+...|++++|+..+++++++    .++   -..++..+|.+|...|++++|++++++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45566666777777777777777777764    222   23457778888888888888888877654

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.78  E-value=0.18  Score=47.13  Aligned_cols=57  Identities=9%  Similarity=-0.042  Sum_probs=32.6

Q ss_pred             HHHHHHhCCCchHHHHHHHHHHHCCCCCCHH-H---HHHHHHhhcCCCCchhHHHHHHHHHHh
Q 041741          476 MIAGLSLNSLDIEAFMFFKQMRQNEMYPTQF-S---FATVLSSCAKLSSSFQGRQVHAQIEKD  534 (748)
Q Consensus       476 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~---~~~l~~~~~~~~~~~~a~~~~~~~~~~  534 (748)
                      ....+...|++++|.+.|+++...  .|+.. .   .-.+..++.+.++++.|...++.+.+.
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            344455667777777777777664  23221 1   123445556666666666666666655

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=96.76  E-value=0.024  Score=43.79  Aligned_cols=78  Identities=15%  Similarity=0.023  Sum_probs=61.9

Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHCCC-CCCHHHHHHHHHhhcCCCC--------chhHHHHHHHHHHhCCCCchHHHHH
Q 041741          475 SMIAGLSLNSLDIEAFMFFKQMRQNEM-YPTQFSFATVLSSCAKLSS--------SFQGRQVHAQIEKDGYVNDIFVGSA  545 (748)
Q Consensus       475 ~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~l~~~~~~~~~--------~~~a~~~~~~~~~~~~~~~~~~~~~  545 (748)
                      ..|..+...+++.....+|+.+.+.|+ .|+..+|+.++.+.++..-        ......+++.|...+++|+..+|+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            345566667999999999999999999 8999999999988765432        2345677888888888888888888


Q ss_pred             HHHHHHh
Q 041741          546 LIEMYCK  552 (748)
Q Consensus       546 l~~~~~~  552 (748)
                      ++..+.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            8877665

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 [, , ].

>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=96.75  E-value=0.0087  Score=52.47  Aligned_cols=96  Identities=11%  Similarity=0.128  Sum_probs=68.7

Q ss_pred             HHhhccC--CCCCchhHHHHHHHHHhc-----CChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccc-------------
Q 041741           74 YKLFDEM--PERNVVSWNNLISALVRN-----GLEEKALSVYNKMSNEGFVPTHITLASVFKASTAL-------------  133 (748)
Q Consensus        74 ~~~~~~~--~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-------------  133 (748)
                      ...|+..  ...|-.+|..++..|.+.     |..+=....+..|.+-|+.-|..+|+.|+..+-+.             
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            3444444  345666777777776643     44555566777777778888888888888776543             


Q ss_pred             ---cCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcC
Q 041741          134 ---LDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCG  169 (748)
Q Consensus       134 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  169 (748)
                         .+.+-|.+++++|...|+-||..++..+++.+++.+
T Consensus       114 hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence               234668899999999999999999999999886644

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.72  E-value=0.015  Score=56.07  Aligned_cols=138  Identities=12%  Similarity=0.045  Sum_probs=101.7

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcC
Q 041741          577 MIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAG  656 (748)
Q Consensus       577 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  656 (748)
                      -.+.|.+.|++..|..-|++.+..  -...           ..-+.++.... .        ..-...+..++-++.+.+
T Consensus       214 ~Gn~~fK~gk~~~A~~~Yerav~~--l~~~-----------~~~~~ee~~~~-~--------~~k~~~~lNlA~c~lKl~  271 (397)
T KOG0543|consen  214 RGNVLFKEGKFKLAKKRYERAVSF--LEYR-----------RSFDEEEQKKA-E--------ALKLACHLNLAACYLKLK  271 (397)
T ss_pred             hhhHHHhhchHHHHHHHHHHHHHH--hhcc-----------ccCCHHHHHHH-H--------HHHHHHhhHHHHHHHhhh
Confidence            456778888888888888876652  1111           00111111111 1        111244677899999999


Q ss_pred             ChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHH-HHHHHH
Q 041741          657 HFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDL-RAVREL  733 (748)
Q Consensus       657 ~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A-~~~~~~  733 (748)
                      ++.+|+.......  .+++...+..-..++...|+++.|...++++++++|+|-.+...|..+-.+...+.+. .+.|..
T Consensus       272 ~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~  351 (397)
T KOG0543|consen  272 EYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKIREYEEKEKKMYAN  351 (397)
T ss_pred             hHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999998875  4567778878888999999999999999999999999999999999988888776655 678888


Q ss_pred             HHh
Q 041741          734 MSE  736 (748)
Q Consensus       734 ~~~  736 (748)
                      |-.
T Consensus       352 mF~  354 (397)
T KOG0543|consen  352 MFA  354 (397)
T ss_pred             Hhh
Confidence            865

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.69  E-value=0.012  Score=46.39  Aligned_cols=91  Identities=18%  Similarity=0.152  Sum_probs=73.2

Q ss_pred             HHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC----cchHHHhHHHhhcC
Q 041741          649 IDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS----APYSLLANIYSSLG  722 (748)
Q Consensus       649 ~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~----~~~~~l~~~~~~~g  722 (748)
                      +-++...|+.+.|++.|.+..  .+..+..|+.-...++-+|++++|..-+.+++++.....    .++...+.+|...|
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            456778899999999988774  455788889999999999999999999999999754332    35778888899999


Q ss_pred             ChHHHHHHHHHHHhcCC
Q 041741          723 RWDDLRAVRELMSENCI  739 (748)
Q Consensus       723 ~~~~A~~~~~~~~~~~~  739 (748)
                      +.+.|+.-|+..-+-|.
T Consensus       130 ~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLGS  146 (175)
T ss_pred             chHHHHHhHHHHHHhCC
Confidence            99999998887766554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.67  E-value=0.006  Score=58.65  Aligned_cols=90  Identities=16%  Similarity=0.105  Sum_probs=71.3

Q ss_pred             HHHHHhcCChHHHHHHHhhCC--------CCC---------CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcch
Q 041741          649 IDCLGRAGHFHEAEMLIDEMP--------CKD---------DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPY  711 (748)
Q Consensus       649 ~~~~~~~g~~~~A~~~~~~~~--------~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  711 (748)
                      +..|.+.|++..|...|++..        .++         -...+..+..++.+.+++..|++...++++++|+|+.++
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KAL  294 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKAL  294 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHH
Confidence            445666666666666665532        111         123556777788999999999999999999999999999


Q ss_pred             HHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          712 SLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       712 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      +..+.+|...|+++.|+..|+++.+-.
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~~  321 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKLE  321 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHhC
Confidence            999999999999999999999986643

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.61  E-value=0.0045  Score=58.98  Aligned_cols=221  Identities=13%  Similarity=0.037  Sum_probs=139.7

Q ss_pred             HhhcCCCCchhHHHHHHHHHHhCCCC---chHHHHHHHHHHHhcCCHHHHHHHhhhcC-------C--CCHHHHHHHHHH
Q 041741          513 SSCAKLSSSFQGRQVHAQIEKDGYVN---DIFVGSALIEMYCKCGDIYGARQFFDMMH-------G--KNTVTWNEMIHG  580 (748)
Q Consensus       513 ~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~--~~~~~~~~l~~~  580 (748)
                      .-+|+.|+......+|+...+.|..-   -..+|..|..+|.-.+++++|.++-..-.       .  -...+-..|.+.
T Consensus        25 ERLck~gdcraGv~ff~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNt  104 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNT  104 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccch
Confidence            34788999999999999999887432   24567788888888899999998754211       0  122233445556


Q ss_pred             HHHcCChhHHHHHHHH----HHHcCCCC-CHHHHHHHHHHhcCCCC--------------------hHHHHHHHHHhh--
Q 041741          581 YAQNGYGDEAVRLYKD----MIASGVKP-DDITFVAILTACSHSGL--------------------VDVGVEIFNSMQ--  633 (748)
Q Consensus       581 ~~~~~~~~~a~~~~~~----m~~~~~~p-~~~~~~~l~~~~~~~~~--------------------~~~A~~~~~~~~--  633 (748)
                      +.-.|.+++|+....+    ..+.|-.. ....+..+...|...|+                    ++.|.++|..-.  
T Consensus       105 lKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l  184 (639)
T KOG1130|consen  105 LKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLEL  184 (639)
T ss_pred             hhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHH
Confidence            6667777777654433    22222111 12344555555544332                    233444443211  


Q ss_pred             -hhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-----CC---CCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 041741          634 -LDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-----CK---DDPVIWEVLLSSCRLHANVRLAKRAAEELFRL  703 (748)
Q Consensus       634 -~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  703 (748)
                       .+.|-... -..|..|+..|.-.|+++.|+..-+.-.     +.   .....+..+.+++.-.|+++.|.+.|+..+.+
T Consensus       185 ~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~L  264 (639)
T KOG1130|consen  185 SEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNL  264 (639)
T ss_pred             HHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHH
Confidence             11111111 2345667777777899999987654321     11   12345667788888899999999999987764


Q ss_pred             ----C--CCCCcchHHHhHHHhhcCChHHHHHHHHH
Q 041741          704 ----D--PKNSAPYSLLANIYSSLGRWDDLRAVREL  733 (748)
Q Consensus       704 ----~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  733 (748)
                          .  ...++..++|++.|.-..++++|+.+..+
T Consensus       265 Aielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~r  300 (639)
T KOG1130|consen  265 AIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQR  300 (639)
T ss_pred             HHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence                2  22556789999999999999999998775

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.59  E-value=0.76  Score=44.31  Aligned_cols=277  Identities=14%  Similarity=0.071  Sum_probs=135.6

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHh--hccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHH
Q 041741          382 SENHKEAIKLFREMQFRGVKPDRTTLAIILSSC--AAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAE  459 (748)
Q Consensus       382 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  459 (748)
                      .||-..|.+.-.+..+. +..|...+..++.+.  .-.|+.+.+.+-|+.|....-. ...-...|.-.-.+.|+.+.|.
T Consensus        97 AGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~dPEt-RllGLRgLyleAqr~GareaAr  174 (531)
T COG3898          97 AGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDDPET-RLLGLRGLYLEAQRLGAREAAR  174 (531)
T ss_pred             cCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcChHH-HHHhHHHHHHHHHhcccHHHHH
Confidence            34555555444433322 333444444444332  2345555555555555431100 0011122222233456666555


Q ss_pred             HHHhhCCCC---CcchHHHHHHHHHhCCCchHHHHHHHHHHHCC-CCCCHH--HHHHHHHhhc---CCCCchhHHHHHHH
Q 041741          460 RVFHRIPEL---DIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNE-MYPTQF--SFATVLSSCA---KLSSSFQGRQVHAQ  530 (748)
Q Consensus       460 ~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~--~~~~l~~~~~---~~~~~~~a~~~~~~  530 (748)
                      ..-++.-..   -...+.+.+...+..|+++.|+++++.-.... +.++..  .-..|+.+-.   -..+...|...-.+
T Consensus       175 ~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~  254 (531)
T COG3898         175 HYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALE  254 (531)
T ss_pred             HHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHH
Confidence            555544432   23356777888888888888888887765532 333332  1222332211   11233334433333


Q ss_pred             HHHhCCCCchH-HHHHHHHHHHhcCCHHHHHHHhhhcCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHc-CCCCCH
Q 041741          531 IEKDGYVNDIF-VGSALIEMYCKCGDIYGARQFFDMMHG--KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS-GVKPDD  606 (748)
Q Consensus       531 ~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~~p~~  606 (748)
                      ..+  ..|+.. .--.-..++.+.|++.++-.+++.+-+  |.+..+..  -.+.+.|  +.++.-+++.... .++||.
T Consensus       255 a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia~l--Y~~ar~g--dta~dRlkRa~~L~slk~nn  328 (531)
T COG3898         255 ANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIALL--YVRARSG--DTALDRLKRAKKLESLKPNN  328 (531)
T ss_pred             Hhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHHHH--HHHhcCC--CcHHHHHHHHHHHHhcCccc
Confidence            333  233321 111234566677777777777776654  33333322  2223333  3333333333221 134443


Q ss_pred             -HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhc-CChHHHHHHHhhCC
Q 041741          607 -ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRA-GHFHEAEMLIDEMP  669 (748)
Q Consensus       607 -~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~  669 (748)
                       .+...+.++-...|++..|..--+...   ...|....|..|.++-... ||-.++..++.+..
T Consensus       329 aes~~~va~aAlda~e~~~ARa~Aeaa~---r~~pres~~lLlAdIeeAetGDqg~vR~wlAqav  390 (531)
T COG3898         329 AESSLAVAEAALDAGEFSAARAKAEAAA---REAPRESAYLLLADIEEAETGDQGKVRQWLAQAV  390 (531)
T ss_pred             hHHHHHHHHHHHhccchHHHHHHHHHHh---hhCchhhHHHHHHHHHhhccCchHHHHHHHHHHh
Confidence             455566666667777777666655542   4467777777777665443 77777777766654

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.56  E-value=0.049  Score=49.50  Aligned_cols=142  Identities=16%  Similarity=0.119  Sum_probs=73.2

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH---HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChh-HHHHHH
Q 041741          574 WNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD---ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILD-HYTCMI  649 (748)
Q Consensus       574 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~-~~~~l~  649 (748)
                      +-..+..+...|++.+|...|+++.... +-+.   ...-.++.++.+.|+++.|...+++....+.-.|... .+-.++
T Consensus         8 lY~~a~~~~~~g~y~~Ai~~f~~l~~~~-P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g   86 (203)
T PF13525_consen    8 LYQKALEALQQGDYEEAIKLFEKLIDRY-PNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLG   86 (203)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH--TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHH
Confidence            3344455566666666666666666542 1111   2344555566666666666666666654444444321 111111


Q ss_pred             HHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc-----------------hH
Q 041741          650 DCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAP-----------------YS  712 (748)
Q Consensus       650 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~-----------------~~  712 (748)
                      .++...  .....                   ......+...+|...++.++...|+++-+                 -.
T Consensus        87 ~~~~~~--~~~~~-------------------~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~  145 (203)
T PF13525_consen   87 LSYYKQ--IPGIL-------------------RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHEL  145 (203)
T ss_dssp             HHHHHH--HHHHH--------------------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHh--Cccch-------------------hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHH
Confidence            111111  00000                   01122334556777777777777765543                 45


Q ss_pred             HHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          713 LLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       713 ~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      ..+..|.+.|.+..|...++.+.+.
T Consensus       146 ~ia~~Y~~~~~y~aA~~r~~~v~~~  170 (203)
T PF13525_consen  146 YIARFYYKRGKYKAAIIRFQYVIEN  170 (203)
T ss_dssp             HHHHHHHCTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHH
Confidence            5788899999999999999988764

>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=96.56  E-value=0.0051  Score=52.62  Aligned_cols=68  Identities=24%  Similarity=0.240  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh-----cCCCCCC
Q 041741          676 IWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE-----NCIVKDP  743 (748)
Q Consensus       676 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~  743 (748)
                      .+..++..+...|++++|...++.++..+|-+...+..+..+|...|+..+|.++|+.+++     -|+.|.|
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~  136 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSP  136 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----H
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCH
Confidence            3445666777899999999999999999999999999999999999999999999998864     3665554

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.54  E-value=0.68  Score=45.03  Aligned_cols=226  Identities=12%  Similarity=0.018  Sum_probs=125.3

Q ss_pred             CCHHHHHHHH-HhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHH---------
Q 041741          503 PTQFSFATVL-SSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTV---------  572 (748)
Q Consensus       503 p~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---------  572 (748)
                      |.-.++..+- .++...++.+.|...-....+.... +....-.-..++.-.++.+.|...|++...-++.         
T Consensus       166 pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~~-n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk~~~~  244 (486)
T KOG0550|consen  166 PACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDAT-NAEALYVRGLCLYYNDNADKAINHFQQALRLDPDHQKSKSASM  244 (486)
T ss_pred             chhhHHHHhhhhhhhhcccchhHHHHHHHHHhcccc-hhHHHHhcccccccccchHHHHHHHhhhhccChhhhhHHhHhh
Confidence            3334444332 3345667777777666555554311 1111111112233456777777777776642221         


Q ss_pred             ------HHHHHHHHHHHcCChhHHHHHHHHHHHc---CCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-h
Q 041741          573 ------TWNEMIHGYAQNGYGDEAVRLYKDMIAS---GVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-L  642 (748)
Q Consensus       573 ------~~~~l~~~~~~~~~~~~a~~~~~~m~~~---~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~  642 (748)
                            .+..-.+-..+.|++..|.+.+.+.+..   +..|+...|.....+..+.|+..+|+.-.+...   .+.|. .
T Consensus       245 ~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al---~iD~syi  321 (486)
T KOG0550|consen  245 MPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEAL---KIDSSYI  321 (486)
T ss_pred             hHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhh---hcCHHHH
Confidence                  1222233456778888888888888763   233344456666667778888888888877653   34443 3


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhhCC-CCCC---HhHH---------------HHHHHHHHhcCCHHHHHHHHHHHHhc
Q 041741          643 DHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDD---PVIW---------------EVLLSSCRLHANVRLAKRAAEELFRL  703 (748)
Q Consensus       643 ~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~---~~~~---------------~~l~~~~~~~~~~~~a~~~~~~~~~~  703 (748)
                      ..+..-+.++...++|++|++-+++.. ...+   ..++               ..++..-....+.+--...-+.++..
T Consensus       322 kall~ra~c~l~le~~e~AV~d~~~a~q~~~s~e~r~~l~~A~~aLkkSkRkd~ykilGi~~~as~~eikkayrk~AL~~  401 (486)
T KOG0550|consen  322 KALLRRANCHLALEKWEEAVEDYEKAMQLEKDCEIRRTLREAQLALKKSKRKDWYKILGISRNASDDEIKKAYRKLALVH  401 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhhhhhHHHHhhhhhhcccchhhhHHHHHHHHh
Confidence            344455667777788888888877653 1111   1122               22222222223333444444556666


Q ss_pred             CCCCCcc--------hHHHhHHHhhcCChHHHHHHHH
Q 041741          704 DPKNSAP--------YSLLANIYSSLGRWDDLRAVRE  732 (748)
Q Consensus       704 ~p~~~~~--------~~~l~~~~~~~g~~~~A~~~~~  732 (748)
                      .|+-+..        ....+.+|...+|.+++.++..
T Consensus       402 Hpd~~agsq~eaE~kFkevgeAy~il~d~~kr~r~ds  438 (486)
T KOG0550|consen  402 HPDKNAGSQKEAEAKFKEVGEAYTILSDPMKRVRFDS  438 (486)
T ss_pred             CCCcCcchhHHHHHHHHHHHHHHHHhcCHHHHhhccc
Confidence            7753222        5667888888888888877653

>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=96.49  E-value=0.042  Score=48.38  Aligned_cols=90  Identities=21%  Similarity=0.315  Sum_probs=71.1

Q ss_pred             CCCHHHHHHHHHHHHH-----cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC----------------CChHHHH
Q 041741          568 GKNTVTWNEMIHGYAQ-----NGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHS----------------GLVDVGV  626 (748)
Q Consensus       568 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~----------------~~~~~A~  626 (748)
                      ..+-.+|..++..+.+     .|..+=....++.|.+-|+.-|..+|+.|+..+=+.                .+-+-|+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            4566666667766654     466677778888999999999999999999887432                1346789


Q ss_pred             HHHHHhhhhhCCCCChhHHHHHHHHHHhcCCh
Q 041741          627 EIFNSMQLDHGVEPILDHYTCMIDCLGRAGHF  658 (748)
Q Consensus       627 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  658 (748)
                      .++++| +..|+.||.+++..+++++++.+..
T Consensus       124 ~lL~qM-E~~gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  124 DLLEQM-ENNGVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HHHHHH-HHcCCCCcHHHHHHHHHHhccccHH
Confidence            999999 8999999999999999999877653

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.42  E-value=0.076  Score=49.38  Aligned_cols=108  Identities=13%  Similarity=0.015  Sum_probs=80.5

Q ss_pred             CCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcC---ChHHHHHHHhhCC-CCC-CHhHH
Q 041741          603 KPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAG---HFHEAEMLIDEMP-CKD-DPVIW  677 (748)
Q Consensus       603 ~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~-~~~-~~~~~  677 (748)
                      +-|...|..|...|...|+.+.|...|.+..+-.|  ++...+..+++++....   +..++..+++++. ..| +....
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g--~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAG--DNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCC--CCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHH
Confidence            55667899999999999999999999988854333  23455667777766543   4567888888885 334 56666


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchH
Q 041741          678 EVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYS  712 (748)
Q Consensus       678 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  712 (748)
                      ..|...+...|++.+|...++.++...|.+.....
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~  265 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRS  265 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCCCCchHH
Confidence            66777788999999999999999998886655433

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.36  E-value=0.022  Score=52.09  Aligned_cols=102  Identities=16%  Similarity=0.125  Sum_probs=63.1

Q ss_pred             HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHhhCC-----CCCCHhHHHHHH
Q 041741          608 TFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCLGRAGHFHEAEMLIDEMP-----CKDDPVIWEVLL  681 (748)
Q Consensus       608 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~~l~  681 (748)
                      .|+..+. +.+.|++..|...|....+.+.-.+ ....+-.|++++...|++++|...|..+.     .+..|..+..+.
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            3444443 3445567777777776654332111 13334457777777777777777776653     223466677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCcc
Q 041741          682 SSCRLHANVRLAKRAAEELFRLDPKNSAP  710 (748)
Q Consensus       682 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  710 (748)
                      .+....|+.++|...++++++..|..+.+
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~YP~t~aA  251 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRYPGTDAA  251 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHCCCCHHH
Confidence            77777777777777777777777765443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.35  E-value=1.8  Score=45.80  Aligned_cols=108  Identities=13%  Similarity=0.157  Sum_probs=76.7

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHh
Q 041741          607 ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRL  686 (748)
Q Consensus       607 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~  686 (748)
                      .+.+--+.-+...|+..+|.++-.+..     -||...|-.-+.+++..+++++-.++-++..   +|..|.-....|.+
T Consensus       685 lSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskk---sPIGy~PFVe~c~~  756 (829)
T KOG2280|consen  685 LSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKK---SPIGYLPFVEACLK  756 (829)
T ss_pred             CcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC---CCCCchhHHHHHHh
Confidence            345555566677788888888765552     4777777777888888888888888777755   26666667788888


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHH
Q 041741          687 HANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAV  730 (748)
Q Consensus       687 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  730 (748)
                      .|+.++|..++-+.-.+.        ....+|...|++.+|.+.
T Consensus       757 ~~n~~EA~KYiprv~~l~--------ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  757 QGNKDEAKKYIPRVGGLQ--------EKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             cccHHHHhhhhhccCChH--------HHHHHHHHhccHHHHHHH
Confidence            888888877765432211        577788888888887764

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.31  E-value=0.26  Score=49.27  Aligned_cols=120  Identities=11%  Similarity=0.119  Sum_probs=79.2

Q ss_pred             HHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCC--HhHHHHHHHHHH
Q 041741          610 VAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDD--PVIWEVLLSSCR  685 (748)
Q Consensus       610 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~--~~~~~~l~~~~~  685 (748)
                      ..+..++.+.|+.++|++.++.+.+.............|+++|...+.+.++..++.+-.  .-|.  ...|...+-.++
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHH
Confidence            456667788899999999999996555433345567789999999999999999988875  1233  344555444444


Q ss_pred             hcCC---------------HHHHHHHHHHHHhcCCCCCcchHHHh------HHHhhcCChHHHHHH
Q 041741          686 LHAN---------------VRLAKRAAEELFRLDPKNSAPYSLLA------NIYSSLGRWDDLRAV  730 (748)
Q Consensus       686 ~~~~---------------~~~a~~~~~~~~~~~p~~~~~~~~l~------~~~~~~g~~~~A~~~  730 (748)
                      ..+|               -..|.+.+.++++.+|.-|..+..+-      .-+.+.|| .||+.|
T Consensus       343 av~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp~YLLe~K~LilPPehilkrGD-SEAiaY  407 (539)
T PF04184_consen  343 AVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVPKYLLEMKSLILPPEHILKRGD-SEAIAY  407 (539)
T ss_pred             hhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCchhhhccCCCCCChHHhcCCCc-HHHHHH
Confidence            4443               13467899999999997554322221      12445565 555543

The molecular function of this protein is uncertain.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.29  E-value=0.025  Score=51.76  Aligned_cols=97  Identities=18%  Similarity=0.120  Sum_probs=76.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhCC-CCC----CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC---cchHHHh
Q 041741          644 HYTCMIDCLGRAGHFHEAEMLIDEMP-CKD----DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS---APYSLLA  715 (748)
Q Consensus       644 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~  715 (748)
                      .|+.-. -+.+.|++.+|...|.... .-|    .+....-|+.++...|++++|...|..+.+-.|+++   .++.-|+
T Consensus       144 ~Y~~A~-~~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAAL-DLYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHH-HHHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            355444 4556788999999988774 112    244445588889999999999999999999888765   4588999


Q ss_pred             HHHhhcCChHHHHHHHHHHHhcCCCC
Q 041741          716 NIYSSLGRWDDLRAVRELMSENCIVK  741 (748)
Q Consensus       716 ~~~~~~g~~~~A~~~~~~~~~~~~~~  741 (748)
                      .+..+.|+.++|..+|++..++-+.-
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~YP~t  248 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRYPGT  248 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHCCCC
Confidence            99999999999999999987765543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.27  E-value=1.3  Score=43.57  Aligned_cols=76  Identities=12%  Similarity=0.148  Sum_probs=62.3

Q ss_pred             CCchHHHHHHHHHHHhcCChhHHHHHhccCCCCCc---ccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHH
Q 041741          269 EADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSV---VSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINML  345 (748)
Q Consensus       269 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  345 (748)
                      +.+...|-.|+.-+...+..+...+.++++..|-+   .+|...+++-....++..+..+|.+.......  ...|...+
T Consensus        39 PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l~--ldLW~lYl  116 (660)
T COG5107          39 PTNILSYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSLN--LDLWMLYL  116 (660)
T ss_pred             chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhcc--HhHHHHHH
Confidence            56778999999999999999999999999998755   37888899888899999999999999877554  33444444


Q ss_pred             H
Q 041741          346 V  346 (748)
Q Consensus       346 ~  346 (748)
                      .
T Consensus       117 ~  117 (660)
T COG5107         117 E  117 (660)
T ss_pred             H
Confidence            4

>PRK11619 lytic murein transglycosylase; Provisional

Probab=96.13  E-value=2.7  Score=45.72  Aligned_cols=56  Identities=5%  Similarity=-0.131  Sum_probs=29.5

Q ss_pred             HHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCC
Q 041741          444 GLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNE  500 (748)
Q Consensus       444 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  500 (748)
                      .....+.+.+++....+.+..- ..+...-.....+....|+.++|....+.+=..|
T Consensus       104 ~~l~~La~~~~w~~~~~~~~~~-p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g  159 (644)
T PRK11619        104 RFVNELARREDWRGLLAFSPEK-PKPVEARCNYYYAKWATGQQQEAWQGAKELWLTG  159 (644)
T ss_pred             HHHHHHHHccCHHHHHHhcCCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC
Confidence            3344445566666666633222 2344444555666666777666665555554433

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.98  E-value=0.024  Score=48.54  Aligned_cols=90  Identities=13%  Similarity=0.178  Sum_probs=53.6

Q ss_pred             HHHHHhcCChHHHHHHHhhCC--CCCC-----HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhc
Q 041741          649 IDCLGRAGHFHEAEMLIDEMP--CKDD-----PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSL  721 (748)
Q Consensus       649 ~~~~~~~g~~~~A~~~~~~~~--~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  721 (748)
                      +.-+.+.|++++|..-|....  .++.     ...|..-..++.+.+.++.|+.-..++++++|.+..++...+.+|-+.
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~  181 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKM  181 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhh
Confidence            344555666666666655543  2222     222333333455566677777777777777776666666667777777


Q ss_pred             CChHHHHHHHHHHHhcC
Q 041741          722 GRWDDLRAVRELMSENC  738 (748)
Q Consensus       722 g~~~~A~~~~~~~~~~~  738 (748)
                      .++++|++-|+++.+..
T Consensus       182 ek~eealeDyKki~E~d  198 (271)
T KOG4234|consen  182 EKYEEALEDYKKILESD  198 (271)
T ss_pred             hhHHHHHHHHHHHHHhC
Confidence            77777777777665543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=95.97  E-value=2.5  Score=44.14  Aligned_cols=125  Identities=14%  Similarity=0.084  Sum_probs=58.8

Q ss_pred             cCCHHHHHHHhccCCCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCC----HhhHHHHHHHhhccCChHHHHHH
Q 041741          351 SGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPD----RTTLAIILSSCAAMGILESGKQV  426 (748)
Q Consensus       351 ~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~~~~~~a~~~  426 (748)
                      .|.+++|++++-.+...|     ..+..+.+.|||-.+.++++.-   |-..|    ...+..+...+.....++.|.+.
T Consensus       747 ~g~feeaek~yld~drrD-----LAielr~klgDwfrV~qL~r~g---~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~y  818 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRRD-----LAIELRKKLGDWFRVYQLIRNG---GSDDDDEGKEDAFRNIGETFAEMMEWEEAAKY  818 (1189)
T ss_pred             hcchhHhhhhhhccchhh-----hhHHHHHhhhhHHHHHHHHHcc---CCCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            466666666665554433     2344455556665555554321   11111    12344444445555555555555


Q ss_pred             HHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHH
Q 041741          427 HAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFF  493 (748)
Q Consensus       427 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  493 (748)
                      +..-...         ...+.++....++++-+.+...+++ +......+..++...|.-++|.+.+
T Consensus       819 Y~~~~~~---------e~~~ecly~le~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~  875 (1189)
T KOG2041|consen  819 YSYCGDT---------ENQIECLYRLELFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAY  875 (1189)
T ss_pred             HHhccch---------HhHHHHHHHHHhhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHH
Confidence            4432211         1234445555555555555555544 2233444455555555555555444

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.96  E-value=0.75  Score=41.31  Aligned_cols=86  Identities=14%  Similarity=0.150  Sum_probs=48.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCC-------CCCCH-hHHHHHHHHHHhcCCHHHHHHHHHHHHhc----CCCCCcchH
Q 041741          645 YTCMIDCLGRAGHFHEAEMLIDEMP-------CKDDP-VIWEVLLSSCRLHANVRLAKRAAEELFRL----DPKNSAPYS  712 (748)
Q Consensus       645 ~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~p~~~~~~~  712 (748)
                      +....+.|++...+++|-..+.+-.       .-|++ ..+...+-.+....|+..|+..++..-+.    .|++..+..
T Consensus       153 ~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~le  232 (308)
T KOG1585|consen  153 YGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLE  232 (308)
T ss_pred             HHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHH
Confidence            4445566677777777666555442       11222 22334444455566777777777765443    455556666


Q ss_pred             HHhHHHhhcCChHHHHHHH
Q 041741          713 LLANIYSSLGRWDDLRAVR  731 (748)
Q Consensus       713 ~l~~~~~~~g~~~~A~~~~  731 (748)
                      .|...| ..||.+++-.++
T Consensus       233 nLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  233 NLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHh-ccCCHHHHHHHH
Confidence            666555 456666665543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.94  E-value=0.069  Score=50.44  Aligned_cols=124  Identities=15%  Similarity=0.067  Sum_probs=63.2

Q ss_pred             HHHHhcCCCChHHHHHHHHHhhhhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHhhC-------CCCCC-----Hh
Q 041741          612 ILTACSHSGLVDVGVEIFNSMQLDHGVEPI----LDHYTCMIDCLGRAGHFHEAEMLIDEM-------PCKDD-----PV  675 (748)
Q Consensus       612 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~~~-----~~  675 (748)
                      +..++...+.++++++.|+....-.....|    ...+-.+...+.+..|+++|.-+..+.       ..+.-     ..
T Consensus       128 ~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~  207 (518)
T KOG1941|consen  128 MGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAM  207 (518)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHH
Confidence            444555555666666666655322222222    234556666666666666655443322       11111     11


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcC------CCCCcchHHHhHHHhhcCChHHHHHHHHHHH
Q 041741          676 IWEVLLSSCRLHANVRLAKRAAEELFRLD------PKNSAPYSLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       676 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      .+..+.-+++..|....|.+..+++.++.      |-..-.+..++++|...|+.|.|..-|+.+.
T Consensus       208 ~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  208 SLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence            22233334566666666666666666542      1122235566666767777666666666543

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.93  E-value=0.35  Score=44.94  Aligned_cols=117  Identities=11%  Similarity=0.087  Sum_probs=56.5

Q ss_pred             hcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCCHhHHH---HHHHHHHhcCCHHH
Q 041741          616 CSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWE---VLLSSCRLHANVRL  692 (748)
Q Consensus       616 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---~l~~~~~~~~~~~~  692 (748)
                      ....|++.+|..+|.......  .-+......++++|...|+.+.|..++..++..-...-+.   .-+..+.+..+..+
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~--~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAA--PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhC--cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            345556666666655553211  1113344456666666666666666666665222111111   12222222222222


Q ss_pred             HHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHH
Q 041741          693 AKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       693 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      . ..++.....+|+|...-..|+..+...|+.++|.+.+=.+.
T Consensus       222 ~-~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l  263 (304)
T COG3118         222 I-QDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALL  263 (304)
T ss_pred             H-HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            1 12333344566666666666666666666666666444443

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.88  E-value=0.022  Score=42.17  Aligned_cols=60  Identities=13%  Similarity=0.092  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhCC-----CCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 041741          644 HYTCMIDCLGRAGHFHEAEMLIDEMP-----CKDD----PVIWEVLLSSCRLHANVRLAKRAAEELFRL  703 (748)
Q Consensus       644 ~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  703 (748)
                      ++..++.+|...|++++|+..+++..     .+++    ..++..++..+...|++++|.+.+++++++
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            45556666666666666666655542     1111    334555666677777777777777776654

...

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.81  E-value=1.7  Score=40.78  Aligned_cols=190  Identities=18%  Similarity=0.163  Sum_probs=88.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHhhhcC-----CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH-H
Q 041741          542 VGSALIEMYCKCGDIYGARQFFDMMH-----GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILT-A  615 (748)
Q Consensus       542 ~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~-~  615 (748)
                      ........+...+++..+...+....     ......+......+...+++..+...+.........+. ........ .
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  139 (291)
T COG0457          61 LLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLALGA  139 (291)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHHHH
Confidence            33344444445555555554444432     12333344444444555555555555555555322221 11111112 4


Q ss_pred             hcCCCChHHHHHHHHHhhhhhCCCC----ChhHHHHHHHHHHhcCChHHHHHHHhhCC-C-CC-CHhHHHHHHHHHHhcC
Q 041741          616 CSHSGLVDVGVEIFNSMQLDHGVEP----ILDHYTCMIDCLGRAGHFHEAEMLIDEMP-C-KD-DPVIWEVLLSSCRLHA  688 (748)
Q Consensus       616 ~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~~-~~~~~~~l~~~~~~~~  688 (748)
                      +...|+++.|...+++.. .  ..|    ....+......+...++.++|...+.+.. . +. ....+..+...+...+
T Consensus       140 ~~~~~~~~~a~~~~~~~~-~--~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         140 LYELGDYEEALELYEKAL-E--LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHHcCCHHHHHHHHHHHH-h--cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcc
Confidence            555555566555555552 1  122    12222233333444555566665555553 1 12 2344444555555555


Q ss_pred             CHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHH
Q 041741          689 NVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       689 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      +++.|...+..+....|........++..+...|..+++...+++..
T Consensus       217 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  263 (291)
T COG0457         217 KYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKAL  263 (291)
T ss_pred             cHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHH
Confidence            56666666666666555444445555555554455555555555443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.81  E-value=0.024  Score=33.62  Aligned_cols=33  Identities=27%  Similarity=0.271  Sum_probs=23.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 041741          675 VIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN  707 (748)
Q Consensus       675 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  707 (748)
                      ..|..+...+...|++++|++.++++++++|+|
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            345666777777788888888888888877754

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 ....

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=95.67  E-value=0.1  Score=44.47  Aligned_cols=72  Identities=17%  Similarity=0.306  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhh----hhhCCCCChhHH
Q 041741          573 TWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQ----LDHGVEPILDHY  645 (748)
Q Consensus       573 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~~~~  645 (748)
                      ....++..+...|+++.|+.+++++.... +-+...|..++.+|...|+...|...|+++.    .+.|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            34456666777888888888888888763 4566678888888888888888888877653    245777776543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_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=95.59  E-value=0.023  Score=33.69  Aligned_cols=32  Identities=16%  Similarity=0.070  Sum_probs=23.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041741          675 VIWEVLLSSCRLHANVRLAKRAAEELFRLDPK  706 (748)
Q Consensus       675 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  706 (748)
                      ..|..++..+...|++++|+..++++++++|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            45666777777788888888888888888775

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 ....

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.56  E-value=4.3  Score=43.71  Aligned_cols=174  Identities=13%  Similarity=0.080  Sum_probs=91.9

Q ss_pred             HHHHHHHhcCChhHHHHHhccCCCCCc---ccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 041741          277 SLLDMYAKNGDMDSAEVIFSNLPERSV---VSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGD  353 (748)
Q Consensus       277 ~li~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  353 (748)
                      .-+....+...++.|..+-+.-.-+..   .........+.+.|++++|...|-+-... +.|     ..++.-|.....
T Consensus       339 ~kL~iL~kK~ly~~Ai~LAk~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~  412 (933)
T KOG2114|consen  339 TKLDILFKKNLYKVAINLAKSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQR  412 (933)
T ss_pred             HHHHHHHHhhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHH
Confidence            344555555666666665544322111   12333344556677777777776554432 222     123333334444


Q ss_pred             HHHHHHHhccCCC---CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHH
Q 041741          354 IKTGREMFDSMPS---PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAAS  430 (748)
Q Consensus       354 ~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  430 (748)
                      +.+-...++.+.+   .+...-..|+.+|.+.++.++..++.+..- .|..  ..-+...+..|.+.+-.+.|..+-...
T Consensus       413 IknLt~YLe~L~~~gla~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~  489 (933)
T KOG2114|consen  413 IKNLTSYLEALHKKGLANSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKF  489 (933)
T ss_pred             HHHHHHHHHHHHHcccccchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHh
Confidence            4444444444433   445556677888888888887777766543 2222  112344556666666666665554333


Q ss_pred             HhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCC
Q 041741          431 LKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPE  467 (748)
Q Consensus       431 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  467 (748)
                      ..     ...+   +--.+...+++++|.+.+..++-
T Consensus       490 ~~-----he~v---l~ille~~~ny~eAl~yi~slp~  518 (933)
T KOG2114|consen  490 KK-----HEWV---LDILLEDLHNYEEALRYISSLPI  518 (933)
T ss_pred             cc-----CHHH---HHHHHHHhcCHHHHHHHHhcCCH
Confidence            22     1111   22234456778888888887763

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.56  E-value=3.5  Score=42.65  Aligned_cols=181  Identities=15%  Similarity=0.094  Sum_probs=116.6

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHhhhcCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 041741          539 DIFVGSALIEMYCKCGDIYGARQFFDMMHGK---NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTA  615 (748)
Q Consensus       539 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  615 (748)
                      ....|...+..-.+.|+++.+.-+|+.+.-|   -...|-..+.-....|+.+-|..++....+-.++-.+.+-..-..-
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            3456667777777888888888888887654   2334555555555558888888887777665433333222222223


Q ss_pred             hcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHH---HHHhhCC-CCCCHhHHHH----HHH-HHH
Q 041741          616 CSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAE---MLIDEMP-CKDDPVIWEV----LLS-SCR  685 (748)
Q Consensus       616 ~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~---~~~~~~~-~~~~~~~~~~----l~~-~~~  685 (748)
                      +...|+++.|..+++.+..+.   |+ +..-..-+....+.|+.+.+.   .++.... .+.+......    ... .+.
T Consensus       376 ~e~~~n~~~A~~~lq~i~~e~---pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~  452 (577)
T KOG1258|consen  376 EESNGNFDDAKVILQRIESEY---PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYK  452 (577)
T ss_pred             HHhhccHHHHHHHHHHHHhhC---CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHH
Confidence            456789999999999885332   55 233334456667888888888   5554443 3333332222    222 244


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcC
Q 041741          686 LHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLG  722 (748)
Q Consensus       686 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  722 (748)
                      ..++.+.|...+.++.+..|++-..+..+.+.....+
T Consensus       453 i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  453 IREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            5678899999999999999988888888888877665

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.54  E-value=1.1  Score=41.91  Aligned_cols=150  Identities=16%  Similarity=0.142  Sum_probs=96.7

Q ss_pred             HHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCCh
Q 041741          579 HGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHF  658 (748)
Q Consensus       579 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  658 (748)
                      ......|++.+|...|+...... +-+...-..+..+|...|+.+.|..++..+-.+. -.........-++.+.++...
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~-~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQA-QDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccc-hhhHHHHHHHHHHHHHHHhcC
Confidence            44566778888888888877752 3333455667778888888888888887762111 011111122345666666666


Q ss_pred             HHHHHHHhhCCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CCCCcchHHHhHHHhhcCChHHHHHH
Q 041741          659 HEAEMLIDEMPCKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLD--PKNSAPYSLLANIYSSLGRWDDLRAV  730 (748)
Q Consensus       659 ~~A~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~  730 (748)
                      .+...+-++....| |...-..+...+...|+.+.|.+.+-.+++.+  -+|..+-..|..++...|..+.+...
T Consensus       220 ~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~~~~  294 (304)
T COG3118         220 PEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPLVLA  294 (304)
T ss_pred             CCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHHHHH
Confidence            66666666665445 56666677777888888888888877777754  34667777777777777755444433

>PRK15331 chaperone protein SicA; Provisional

Probab=95.53  E-value=0.28  Score=41.45  Aligned_cols=86  Identities=8%  Similarity=0.009  Sum_probs=37.9

Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHH
Q 041741          581 YAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHE  660 (748)
Q Consensus       581 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  660 (748)
                      +...|++++|..+|.-+.-.+ .-+..-+..|..+|-..+.+++|+..|.....-..  -|+..+-..+.++...|+.+.
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~~~~~  123 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK--NDYRPVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc--CCCCccchHHHHHHHhCCHHH
Confidence            334555555555555544432 12222333444444445555555555544321111  112223335555555555555


Q ss_pred             HHHHHhhCC
Q 041741          661 AEMLIDEMP  669 (748)
Q Consensus       661 A~~~~~~~~  669 (748)
                      |..-|+...
T Consensus       124 A~~~f~~a~  132 (165)
T PRK15331        124 ARQCFELVN  132 (165)
T ss_pred             HHHHHHHHH
Confidence            555554443

>PRK11906 transcriptional regulator; Provisional

Probab=95.44  E-value=0.51  Score=47.24  Aligned_cols=145  Identities=13%  Similarity=0.049  Sum_probs=102.7

Q ss_pred             CHHHHHHHhhhcC---CCC---HHHHHHHHHHHHHc---------CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC
Q 041741          555 DIYGARQFFDMMH---GKN---TVTWNEMIHGYAQN---------GYGDEAVRLYKDMIASGVKPDDITFVAILTACSHS  619 (748)
Q Consensus       555 ~~~~A~~~~~~~~---~~~---~~~~~~l~~~~~~~---------~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  619 (748)
                      ..+.|..+|.+..   .-|   ...|..+..++...         .+..+|.++.++..+.+ +-|......+..+....
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            4678888999887   433   55666666655432         23456888888888875 66777888888888888


Q ss_pred             CChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhC-CCCCC---HhHHHHHHHHHHhcCCHHHHH
Q 041741          620 GLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEM-PCKDD---PVIWEVLLSSCRLHANVRLAK  694 (748)
Q Consensus       620 ~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~---~~~~~~l~~~~~~~~~~~~a~  694 (748)
                      ++++.|...|++..   .+.|+ ...+...+..+.-+|+.++|.+.+++. ...|.   ..+....+..|... -.+.|.
T Consensus       352 ~~~~~a~~~f~rA~---~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~  427 (458)
T PRK11906        352 GQAKVSHILFEQAK---IHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPN-PLKNNI  427 (458)
T ss_pred             cchhhHHHHHHHHh---hcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCC-chhhhH
Confidence            88999999999885   66787 556667777778899999999999984 45554   23344444456554 567778


Q ss_pred             HHHHHHHhcC
Q 041741          695 RAAEELFRLD  704 (748)
Q Consensus       695 ~~~~~~~~~~  704 (748)
                      ..|-+-.+.+
T Consensus       428 ~~~~~~~~~~  437 (458)
T PRK11906        428 KLYYKETESE  437 (458)
T ss_pred             HHHhhccccc
Confidence            8777644433

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.41  E-value=0.51  Score=47.16  Aligned_cols=62  Identities=13%  Similarity=0.029  Sum_probs=37.7

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHhhhcCC--CCH----HHHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 041741          539 DIFVGSALIEMYCKCGDIYGARQFFDMMHG--KNT----VTWNEMIHGYAQNGYGDEAVRLYKDMIAS  600 (748)
Q Consensus       539 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  600 (748)
                      +...++.+..+|.+.|++++|...|++..+  |+.    .+|..+..+|...|+.++|+..++++++.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            455666666666666666666666665442  332    23666666666666666666666666663

>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=95.28  E-value=3  Score=40.16  Aligned_cols=99  Identities=11%  Similarity=0.028  Sum_probs=49.0

Q ss_pred             HHHHHHHhhcCCCCchh---HHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCC---CHHHHHHHHHH
Q 041741          507 SFATVLSSCAKLSSSFQ---GRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGK---NTVTWNEMIHG  580 (748)
Q Consensus       507 ~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~  580 (748)
                      ++..++.++...+..+.   |..+++.+.... +-.+.++-.-+..+.+.++.+.+.+.+..|...   ....+...+..
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l~~  164 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSILHH  164 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHHHH
Confidence            45556666666655443   444444443332 222333334455555567777777777766531   22333333333


Q ss_pred             HHH--cCChhHHHHHHHHHHHcCCCCCH
Q 041741          581 YAQ--NGYGDEAVRLYKDMIASGVKPDD  606 (748)
Q Consensus       581 ~~~--~~~~~~a~~~~~~m~~~~~~p~~  606 (748)
                      +..  ......+...++.+....+.|..
T Consensus       165 i~~l~~~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  165 IKQLAEKSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHhhCcHHHHHHHHHHHHHHhCCCh
Confidence            311  12334566666666655555554

It is also involved in sporulation [].

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=95.25  E-value=2.1  Score=43.10  Aligned_cols=150  Identities=10%  Similarity=0.004  Sum_probs=83.2

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC---CHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC--hh
Q 041741          569 KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKP---DDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI--LD  643 (748)
Q Consensus       569 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~  643 (748)
                      ....+|..++..+.+.|+++.|...+.++...+..+   .+.....-.......|+..+|+..++..... ....+  ..
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~-~~~~~~~~~  222 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC-RLSKNIDSI  222 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH-Hhhhccccc
Confidence            355678888888899999999999888888753221   2223333455566778888888888777431 11111  11


Q ss_pred             HHHHHHHHHHhcCChHHHHHH-HhhCCCCCCHhHHHHHHHHHHhc------CCHHHHHHHHHHHHhcCCCCCcchHHHhH
Q 041741          644 HYTCMIDCLGRAGHFHEAEML-IDEMPCKDDPVIWEVLLSSCRLH------ANVRLAKRAAEELFRLDPKNSAPYSLLAN  716 (748)
Q Consensus       644 ~~~~l~~~~~~~g~~~~A~~~-~~~~~~~~~~~~~~~l~~~~~~~------~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  716 (748)
                      ....+...+..  ..+..... ........-...+..+...+...      ++.+.+...++.+.+..|....++..++.
T Consensus       223 ~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~  300 (352)
T PF02259_consen  223 SNAELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWAL  300 (352)
T ss_pred             cHHHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHH
Confidence            11111111000  00000000 00000000012222233333333      78899999999999999999899999988


Q ss_pred             HHhhc
Q 041741          717 IYSSL  721 (748)
Q Consensus       717 ~~~~~  721 (748)
                      .+.+.
T Consensus       301 ~~~~~  305 (352)
T PF02259_consen  301 FNDKL  305 (352)
T ss_pred             HHHHH
Confidence            88665

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.21  E-value=1.2  Score=35.82  Aligned_cols=141  Identities=13%  Similarity=0.156  Sum_probs=82.0

Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHH
Q 041741          581 YAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHE  660 (748)
Q Consensus       581 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  660 (748)
                      +.-.|..++..++..+....   .+..-++-++--....-+-+...+.++.+-+-+.+.| -.....++.+|.+.|... 
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~-C~NlKrVi~C~~~~n~~s-   86 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISK-CGNLKRVIECYAKRNKLS-   86 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG--S-THHHHHHHHHTT----
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCchh-hcchHHHHHHHHHhcchH-
Confidence            44568888888888888774   3333344444433344455555666666532222222 123445666666655433 


Q ss_pred             HHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCCC
Q 041741          661 AEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIV  740 (748)
Q Consensus       661 A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  740 (748)
                                    ......+......|.-+.-..++..+...+..+|..+.-++.+|.+.|+..+|-++++++=++|++
T Consensus        87 --------------e~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   87 --------------EYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             --------------HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             --------------HHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence                          233345566777888888888888877655558899999999999999999999999998888764

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.96  E-value=0.54  Score=38.80  Aligned_cols=118  Identities=17%  Similarity=0.146  Sum_probs=60.4

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCH---HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHH
Q 041741          576 EMIHGYAQNGYGDEAVRLYKDMIASGVKPDD---ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCL  652 (748)
Q Consensus       576 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  652 (748)
                      .-.....+.|++++|.+.|+.+... .+...   .....++.+|.+.+++++|+..+++.++.+.-.|++. |.....++
T Consensus        15 ~~a~~~l~~~~Y~~A~~~le~L~~r-yP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vd-Ya~Y~~gL   92 (142)
T PF13512_consen   15 QEAQEALQKGNYEEAIKQLEALDTR-YPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVD-YAYYMRGL   92 (142)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCcc-HHHHHHHH
Confidence            3344455666666676666666664 22222   2344556666666666666666666654444444432 22222222


Q ss_pred             HhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc
Q 041741          653 GRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAP  710 (748)
Q Consensus       653 ~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  710 (748)
                      ..-...+   ..+..+.            ..=+..+....|...++.+++..|++.-+
T Consensus        93 ~~~~~~~---~~~~~~~------------~~drD~~~~~~A~~~f~~lv~~yP~S~ya  135 (142)
T PF13512_consen   93 SYYEQDE---GSLQSFF------------RSDRDPTPARQAFRDFEQLVRRYPNSEYA  135 (142)
T ss_pred             HHHHHhh---hHHhhhc------------ccccCcHHHHHHHHHHHHHHHHCcCChhH
Confidence            2211111   1111111            11111223568888999999999976543

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=94.84  E-value=0.34  Score=39.49  Aligned_cols=49  Identities=8%  Similarity=0.183  Sum_probs=25.1

Q ss_pred             CCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHH
Q 041741          602 VKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMID  650 (748)
Q Consensus       602 ~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  650 (748)
                      ..|+..++.+++.+|+..|++..|+.+.+.....++++.+...|..|.+
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            3455555555555555555555555555555445554444444444443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=94.69  E-value=0.18  Score=41.48  Aligned_cols=53  Identities=13%  Similarity=0.077  Sum_probs=34.2

Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          686 LHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       686 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      ..++.+++..++..+.-+.|+.+..-..-++++...|+|++|.++++++.+++
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            35666666666666666666666666666666666666666666666654433

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>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=94.69  E-value=6.3  Score=47.92  Aligned_cols=311  Identities=11%  Similarity=-0.027  Sum_probs=168.0

Q ss_pred             HHhhccCChHHHHHHHHHHHhh--cCCchhHHHHHHHHHHHhcCChHHHHHHHhh-CCCCCcchHHHHHHHHHhCCCchH
Q 041741          412 SSCAAMGILESGKQVHAASLKT--ASHIDNYVASGLIGIYSKCQRNELAERVFHR-IPELDIVCWNSMIAGLSLNSLDIE  488 (748)
Q Consensus       412 ~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~  488 (748)
                      .+-.+.+.+..|...++.-...  ........+..+...|...++++...-+... ..+++   ...-|......|++..
T Consensus      1391 ~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~s---l~~qil~~e~~g~~~d 1467 (2382)
T KOG0890|consen 1391 RASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPS---LYQQILEHEASGNWAD 1467 (2382)
T ss_pred             HHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCcc---HHHHHHHHHhhccHHH
Confidence            3444556666666665552110  1111223344444588888888877766663 33332   2234455567899999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC
Q 041741          489 AFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG  568 (748)
Q Consensus       489 a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  568 (748)
                      |...|+.+.+.+ ++...+++-++......+.+....-..+-.....-+-....++.=+.+--+.++++.....+.   .
T Consensus      1468 a~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~se~~~~~~s~~~eaaW~l~qwD~~e~~l~---~ 1543 (2382)
T KOG0890|consen 1468 AAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINRSEEVDELNSLGVEAAWRLSQWDLLESYLS---D 1543 (2382)
T ss_pred             HHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhccCHHHHHHHHHHHHHHhhhcchhhhhhhhh---c
Confidence            999999998664 333667777777777777777666544444333212122233333445567777777777665   3


Q ss_pred             CCHHHHHHH--HHHHHHcCChh--HHHHHHHHHHHcCCCCCH---------HHHHHHHHHhcCCCChHHHHHHHHHhhhh
Q 041741          569 KNTVTWNEM--IHGYAQNGYGD--EAVRLYKDMIASGVKPDD---------ITFVAILTACSHSGLVDVGVEIFNSMQLD  635 (748)
Q Consensus       569 ~~~~~~~~l--~~~~~~~~~~~--~a~~~~~~m~~~~~~p~~---------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  635 (748)
                      .+..+|...  +....+..+-+  .-.+..+.+++.-+.|-.         ..|..++...... +.+.-.+.      .
T Consensus      1544 ~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~-el~~~~~~------l 1616 (2382)
T KOG0890|consen 1544 RNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLL-ELENSIEE------L 1616 (2382)
T ss_pred             ccccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHH-HHHHHHHH------h
Confidence            444455543  33333332222  222344444332111111         1233333222111 11111111      1


Q ss_pred             hCCCCChhHH---HHHHHHHHhcCChHHHHHHHhhC---------C---CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 041741          636 HGVEPILDHY---TCMIDCLGRAGHFHEAEMLIDEM---------P---CKDDPVIWEVLLSSCRLHANVRLAKRAAEEL  700 (748)
Q Consensus       636 ~~~~~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~---------~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  700 (748)
                      .++.++..+.   .....-+.+.+..-.+.+.+-.+         .   ...-..+|...+...+..|.++.|...+-++
T Consensus      1617 ~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~nall~A 1696 (2382)
T KOG0890|consen 1617 KKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQNALLNA 1696 (2382)
T ss_pred             hccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHHHHHhh
Confidence            1233332111   01112222222222233222111         1   1123567888899999999999999999999


Q ss_pred             HhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          701 FRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       701 ~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      .+..  -+.++...|+..+..|+...|+.++++..+..
T Consensus      1697 ~e~r--~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1697 KESR--LPEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             hhcc--cchHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            8877  46899999999999999999999999987643

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.66  E-value=2.3  Score=37.55  Aligned_cols=162  Identities=17%  Similarity=0.138  Sum_probs=95.0

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHH
Q 041741          570 NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMI  649 (748)
Q Consensus       570 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  649 (748)
                      -+..||-|.--+...|+++.|.+.|+...+.+..-+-...|. .-++.-.|++.-|.+-+.+.-..-...|-...|   .
T Consensus        98 m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNR-gi~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LW---L  173 (297)
T COG4785          98 MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNR-GIALYYGGRYKLAQDDLLAFYQDDPNDPFRSLW---L  173 (297)
T ss_pred             cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcc-ceeeeecCchHhhHHHHHHHHhcCCCChHHHHH---H
Confidence            355788888888899999999999999998542222222222 224456688888887766553222222222222   2


Q ss_pred             HHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-------CcchHHHhHHHhhcC
Q 041741          650 DCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN-------SAPYSLLANIYSSLG  722 (748)
Q Consensus       650 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g  722 (748)
                      ..-.+.-++.+|..-+.+-..+.+...|...+-.+.- |... -+..++++.+...++       ..++..|++-|...|
T Consensus       174 Yl~E~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G  251 (297)
T COG4785         174 YLNEQKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYL-GKIS-EETLMERLKADATDNTSLAEHLTETYFYLGKYYLSLG  251 (297)
T ss_pred             HHHHhhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHhccc
Confidence            2223445677777654433224455555444333211 2211 133344444433333       347999999999999


Q ss_pred             ChHHHHHHHHHHHhc
Q 041741          723 RWDDLRAVRELMSEN  737 (748)
Q Consensus       723 ~~~~A~~~~~~~~~~  737 (748)
                      +.++|...|+.....
T Consensus       252 ~~~~A~~LfKLaian  266 (297)
T COG4785         252 DLDEATALFKLAVAN  266 (297)
T ss_pred             cHHHHHHHHHHHHHH
Confidence            999999999976553

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.63  E-value=0.09  Score=41.66  Aligned_cols=54  Identities=13%  Similarity=0.042  Sum_probs=51.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          683 SCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       683 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .+...|+.+.|++.|.+++.+-|+++++|...+.++.-+|+.++|+.-+++..+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~Ale  105 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALE  105 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHH
Confidence            466789999999999999999999999999999999999999999999998876

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.60  E-value=0.18  Score=42.34  Aligned_cols=73  Identities=22%  Similarity=0.067  Sum_probs=43.6

Q ss_pred             HhcCChHHHHHHHhhCC-CCCCHh-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChH
Q 041741          653 GRAGHFHEAEMLIDEMP-CKDDPV-IWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWD  725 (748)
Q Consensus       653 ~~~g~~~~A~~~~~~~~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  725 (748)
                      .+.++.+++..++..+. ..|... .-..-...+...|++.+|..+++.+.+..|..+..-..++.++...||.+
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~~   95 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDPS   95 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCChH
Confidence            35566777777766664 334322 22223334556677777777777766666666666666666666666543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.49  E-value=0.36  Score=50.24  Aligned_cols=161  Identities=13%  Similarity=0.031  Sum_probs=103.6

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHh-------c---CCCChHHHHHHHHHhhhhhCCC
Q 041741          571 TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDI-TFVAILTAC-------S---HSGLVDVGVEIFNSMQLDHGVE  639 (748)
Q Consensus       571 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~-------~---~~~~~~~A~~~~~~~~~~~~~~  639 (748)
                      +..+..++....-.||-+.+++.+.+..+.+ ..... .--.|+.-|       .   .....+.|.++++.+..   .-
T Consensus       188 Pp~~~kll~~vGF~gdR~~GL~~L~~~~~~~-~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~---~y  263 (468)
T PF10300_consen  188 PPKVLKLLSFVGFSGDRELGLRLLWEASKSE-NIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLK---RY  263 (468)
T ss_pred             CHHHHHHHhhcCcCCcHHHHHHHHHHHhccC-CcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHH---hC
Confidence            4455667777777889999999988876643 22222 222222211       1   34567788888888853   34


Q ss_pred             CChhHHH-HHHHHHHhcCChHHHHHHHhhCCC-CC-----CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcch-
Q 041741          640 PILDHYT-CMIDCLGRAGHFHEAEMLIDEMPC-KD-----DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPY-  711 (748)
Q Consensus       640 ~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~-~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~-  711 (748)
                      |+...|. .-++.+...|+.++|.+.+++... +.     ....+..+...+....++++|.+.+..+.+.+.-+...| 
T Consensus       264 P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~  343 (468)
T PF10300_consen  264 PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYA  343 (468)
T ss_pred             CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHH
Confidence            6655444 446777788999999999987641 11     233455566667778899999999999888766555444 


Q ss_pred             HHHhHHHhhcCChHHHHHHHHHHH
Q 041741          712 SLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       712 ~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      +..|-++...|+.+.+.+..+++.
T Consensus       344 Y~~a~c~~~l~~~~~~~~~~~~a~  367 (468)
T PF10300_consen  344 YLAAACLLMLGREEEAKEHKKEAE  367 (468)
T ss_pred             HHHHHHHHhhccchhhhhhHHHHH
Confidence            444555566687766666655544

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.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.46  E-value=1.2  Score=41.94  Aligned_cols=46  Identities=13%  Similarity=0.023  Sum_probs=20.0

Q ss_pred             CCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q 041741          554 GDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIA  599 (748)
Q Consensus       554 g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  599 (748)
                      |++.+|...++++.+   .|..+++--=.+|.-.|+.+.-...+++...
T Consensus       117 g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip  165 (491)
T KOG2610|consen  117 GKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIP  165 (491)
T ss_pred             ccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhcc
Confidence            444444444444432   1333344334444444444444444444443

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.45  E-value=2.8  Score=37.64  Aligned_cols=18  Identities=44%  Similarity=0.490  Sum_probs=10.7

Q ss_pred             CCHHHHHHHHHHHHhcCC
Q 041741          688 ANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       688 ~~~~~a~~~~~~~~~~~p  705 (748)
                      .|.-.+...+++-.+++|
T Consensus       209 ~D~v~a~~ALeky~~~dP  226 (288)
T KOG1586|consen  209 ADEVNAQRALEKYQELDP  226 (288)
T ss_pred             ccHHHHHHHHHHHHhcCC
Confidence            455556666666666655

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.43  E-value=0.057  Score=32.51  Aligned_cols=26  Identities=19%  Similarity=0.252  Sum_probs=21.5

Q ss_pred             chHHHhHHHhhcCChHHHHHHHHHHH
Q 041741          710 PYSLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       710 ~~~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      ++..|+.+|...|++++|+++|++..
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            36789999999999999999999854

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.30  E-value=1.6  Score=36.78  Aligned_cols=85  Identities=8%  Similarity=0.068  Sum_probs=39.9

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhc
Q 041741          576 EMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRA  655 (748)
Q Consensus       576 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  655 (748)
                      .++..+...+.......+++.+...+ ..+....+.++..|++.+ .++.++.++.       ..+......+++.|.+.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~-------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN-------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh-------ccccCCHHHHHHHHHHc
Confidence            34444444555555555666555554 234445555555555432 2233333321       11122233355555555


Q ss_pred             CChHHHHHHHhhCC
Q 041741          656 GHFHEAEMLIDEMP  669 (748)
Q Consensus       656 g~~~~A~~~~~~~~  669 (748)
                      +-++++..++.++.
T Consensus        83 ~l~~~~~~l~~k~~   96 (140)
T smart00299       83 KLYEEAVELYKKDG   96 (140)
T ss_pred             CcHHHHHHHHHhhc
Confidence            55555555555543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.27  E-value=1.5  Score=45.82  Aligned_cols=157  Identities=14%  Similarity=0.041  Sum_probs=100.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHhhhcCC-CCHH---HHHHHHHH------HH----HcCChhHHHHHHHHHHHcCCCCCHHH
Q 041741          543 GSALIEMYCKCGDIYGARQFFDMMHG-KNTV---TWNEMIHG------YA----QNGYGDEAVRLYKDMIASGVKPDDIT  608 (748)
Q Consensus       543 ~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~---~~~~l~~~------~~----~~~~~~~a~~~~~~m~~~~~~p~~~~  608 (748)
                      +..++...+=.|+-+.+.+.+....+ +++.   +--.|+.-      ++    ...+.+.|.++++.+.+.  .|+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~l  268 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSAL  268 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHH
Confidence            34566667778999999999988764 3322   22222211      11    234667899999999985  677765


Q ss_pred             HH-HHHHHhcCCCChHHHHHHHHHhhhhhCCCCC--hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHH
Q 041741          609 FV-AILTACSHSGLVDVGVEIFNSMQLDHGVEPI--LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSS  683 (748)
Q Consensus       609 ~~-~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  683 (748)
                      |. .-.+.+...|++++|++.|++......--+.  .-.+-.++.++.-..+|++|...+..+.  .+=+..+|..+..+
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a~  348 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAAA  348 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHHH
Confidence            54 3445668889999999999976421111122  2334567788889999999999999996  23345555555554


Q ss_pred             -HHhcCCHHHHHHHHHHHH
Q 041741          684 -CRLHANVRLAKRAAEELF  701 (748)
Q Consensus       684 -~~~~~~~~~a~~~~~~~~  701 (748)
                       +...|+.+.+....+++.
T Consensus       349 c~~~l~~~~~~~~~~~~a~  367 (468)
T PF10300_consen  349 CLLMLGREEEAKEHKKEAE  367 (468)
T ss_pred             HHHhhccchhhhhhHHHHH
Confidence             455677644444434333

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.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=94.24  E-value=2.3  Score=42.06  Aligned_cols=163  Identities=10%  Similarity=-0.008  Sum_probs=101.7

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcC---CCCCHHHHHHHHHHhcC---CCChHHHHHHHHHhhhhhCCCCChhHHHH
Q 041741          574 WNEMIHGYAQNGYGDEAVRLYKDMIASG---VKPDDITFVAILTACSH---SGLVDVGVEIFNSMQLDHGVEPILDHYTC  647 (748)
Q Consensus       574 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~---~~p~~~~~~~l~~~~~~---~~~~~~A~~~~~~~~~~~~~~~~~~~~~~  647 (748)
                      .-.++-+|....+++.-+++.+.+....   +.-....--...-++.+   .|+.++|+.++..+. .....++.+++..
T Consensus       144 v~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l-~~~~~~~~d~~gL  222 (374)
T PF13281_consen  144 VINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVL-ESDENPDPDTLGL  222 (374)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHH-hccCCCChHHHHH
Confidence            3355667889999999999999998741   11112222344556666   899999999999852 3456677888888


Q ss_pred             HHHHHHh---------cCChHHHHHHHhhCC-CCCCHhHHHHHHHHHHhcC-CHHHHHHHHHHH------H-hc---CC-
Q 041741          648 MIDCLGR---------AGHFHEAEMLIDEMP-CKDDPVIWEVLLSSCRLHA-NVRLAKRAAEEL------F-RL---DP-  705 (748)
Q Consensus       648 l~~~~~~---------~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~------~-~~---~p-  705 (748)
                      +++.|..         ....++|...|.+.- ..|+...=-.++..+...| +.+...+.-+-.      + +.   ++ 
T Consensus       223 ~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  223 LGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            8887753         224678888888763 4454322222222233333 222222211111      1 11   12 


Q ss_pred             CCCcchHHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          706 KNSAPYSLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       706 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      ++--.+..++.++.-.||.++|.+.+++|.+.
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            13345778888999999999999999998764

>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=94.21  E-value=2.4  Score=34.13  Aligned_cols=136  Identities=7%  Similarity=0.033  Sum_probs=70.2

Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHH---HHHHHHHHHhcCChH
Q 041741          380 SQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYV---ASGLIGIYSKCQRNE  456 (748)
Q Consensus       380 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~  456 (748)
                      .-.|..++..+++.+...+   .+..-++.++--....-+.+...+.   +...|.-.|...   ...++.+|.+.+.  
T Consensus        13 ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~---LdsIGkiFDis~C~NlKrVi~C~~~~n~--   84 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVET---LDSIGKIFDISKCGNLKRVIECYAKRNK--   84 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHH---HHHHGGGS-GGG-S-THHHHHHHHHTT---
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHH---HHHHhhhcCchhhcchHHHHHHHHHhcc--
Confidence            3456777777777776654   3344444444333333333333333   323332222211   1233444444333  


Q ss_pred             HHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCC
Q 041741          457 LAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGY  536 (748)
Q Consensus       457 ~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  536 (748)
                                  +......-+..+..+|+-+.-.+++.++.+. -.+++.....+..+|.+.|+..++.+++.+.-+.|+
T Consensus        85 ------------~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   85 ------------LSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             --------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             ------------hHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence                        2233445567778888888888888887653 366777777788888888888888888888777764

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.10  E-value=12  Score=42.45  Aligned_cols=115  Identities=14%  Similarity=0.066  Sum_probs=69.0

Q ss_pred             HHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHH
Q 041741          546 LIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVG  625 (748)
Q Consensus       546 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A  625 (748)
                      .+..--+.|-+.+|..++.--.+.--..|.+....+.....+++|.-.|+..-+         ..-.+.+|...|+|.+|
T Consensus       914 ~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~  984 (1265)
T KOG1920|consen  914 CKNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREA  984 (1265)
T ss_pred             HHHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHH
Confidence            334344555666666655433333333455555566667777777777665332         23446677788888888


Q ss_pred             HHHHHHhhhhhCCCCC--hhHHHHHHHHHHhcCChHHHHHHHhhCCCCCC
Q 041741          626 VEIFNSMQLDHGVEPI--LDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDD  673 (748)
Q Consensus       626 ~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  673 (748)
                      +.+..++.    ..-+  ..+-..|+..+...+++-+|.++..+....|.
T Consensus       985 l~~a~ql~----~~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd~~ 1030 (1265)
T KOG1920|consen  985 LSLAAQLS----EGKDELVILAEELVSRLVEQRKHYEAAKILLEYLSDPE 1030 (1265)
T ss_pred             HHHHHhhc----CCHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcCHH
Confidence            88877662    1111  22235677777788888888888877764443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.07  E-value=5.1  Score=37.33  Aligned_cols=197  Identities=14%  Similarity=0.041  Sum_probs=135.0

Q ss_pred             HHHHHHHHHhhcCCCCchhHHHHHHHHHHh-CCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--CCH-HHHHHHHH-
Q 041741          505 QFSFATVLSSCAKLSSSFQGRQVHAQIEKD-GYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG--KNT-VTWNEMIH-  579 (748)
Q Consensus       505 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~l~~-  579 (748)
                      ...+......+...++...+...+...... ........+......+...+++..+.+.+.....  ++. ........ 
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALG  138 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHH
Confidence            345555555666666666666666655543 2334455556666667777778888888887664  222 22333333 


Q ss_pred             HHHHcCChhHHHHHHHHHHHcCCCC----CHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC--hhHHHHHHHHHH
Q 041741          580 GYAQNGYGDEAVRLYKDMIASGVKP----DDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI--LDHYTCMIDCLG  653 (748)
Q Consensus       580 ~~~~~~~~~~a~~~~~~m~~~~~~p----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~~  653 (748)
                      .+...|+++.+...+++...  ..|    ....+......+...++.+.+...+....   ...++  ...+..+...+.
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~~~~~~~  213 (291)
T COG0457         139 ALYELGDYEEALELYEKALE--LDPELNELAEALLALGALLEALGRYEEALELLEKAL---KLNPDDDAEALLNLGLLYL  213 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHh--cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH---hhCcccchHHHHHhhHHHH
Confidence            78889999999999999866  334    22344444445677889999999998884   22333  566778888999


Q ss_pred             hcCChHHHHHHHhhCC-CCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041741          654 RAGHFHEAEMLIDEMP-CKDD-PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK  706 (748)
Q Consensus       654 ~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  706 (748)
                      ..+++++|...+.... ..|+ ...+......+...++.+.+...+.+.+...|.
T Consensus       214 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         214 KLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             HcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            9999999999988875 3343 455555555555777899999999999999996

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.06  E-value=9.8  Score=40.59  Aligned_cols=339  Identities=13%  Similarity=0.104  Sum_probs=168.2

Q ss_pred             cCCCchHHHH-----HHHHHHHhcCChhHHHHHhccCCCCC---cccHHHHHHHHHhcC--ChhHHHHHHHHHHhcCCCC
Q 041741          267 GFEADLHLSN-----SLLDMYAKNGDMDSAEVIFSNLPERS---VVSWNVMIAGYGQKY--QSTKAIELLQRMKSCGFEP  336 (748)
Q Consensus       267 ~~~~~~~~~~-----~li~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~--~~~~a~~~~~~m~~~g~~p  336 (748)
                      |++.+..-|.     .+++-+...+.+..|.++-..+..|.   ...|......+.+..  .-+++++-.++=..... -
T Consensus       427 gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~-~  505 (829)
T KOG2280|consen  427 GIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKL-T  505 (829)
T ss_pred             CccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHHHHHHhcccC-C
Confidence            5555544443     35666777788888888887777664   334444445555442  22333333333222222 3


Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHhccCCC--------CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHH
Q 041741          337 DEVTSINMLVACVRSGDIKTGREMFDSMPS--------PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLA  408 (748)
Q Consensus       337 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--------~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~  408 (748)
                      +...|..+.+-....|+.+-|..+++.=+.        .+..-+...+.-....|+.+....++-.+.+.   .+...+.
T Consensus       506 ~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~---~~~s~l~  582 (829)
T KOG2280|consen  506 PGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNK---LNRSSLF  582 (829)
T ss_pred             CceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHH---HHHHHHH
Confidence            445677777777778888888888765432        22333455566666777777777776666553   1111121


Q ss_pred             HHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchH
Q 041741          409 IILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIE  488 (748)
Q Consensus       409 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  488 (748)
                      ..+      .+...|..+|....+..-.      ..+.+.|.. ++...+...|..                  ++    
T Consensus       583 ~~l------~~~p~a~~lY~~~~r~~~~------~~l~d~y~q-~dn~~~~a~~~~------------------q~----  627 (829)
T KOG2280|consen  583 MTL------RNQPLALSLYRQFMRHQDR------ATLYDFYNQ-DDNHQALASFHL------------------QA----  627 (829)
T ss_pred             HHH------HhchhhhHHHHHHHHhhch------hhhhhhhhc-ccchhhhhhhhh------------------hh----
Confidence            111      1112223333332221100      001111111 111111111000                  00    


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCch----------hHHHHHHHHHHh-CCCCchHHHHHHHHHHHhcCCHH
Q 041741          489 AFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSF----------QGRQVHAQIEKD-GYVNDIFVGSALIEMYCKCGDIY  557 (748)
Q Consensus       489 a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~----------~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~  557 (748)
                       ...++.  ..|..|+..   .....+.+.....          +-..+...+... |....--+.+..+.-+...|+..
T Consensus       628 -~~~~~~--~~~r~~~lk---~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k  701 (829)
T KOG2280|consen  628 -SYAAET--IEGRIPALK---TAANAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNK  701 (829)
T ss_pred             -hhhhhh--hcccchhHH---HHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchH
Confidence             000000  011122211   1122222222111          111112222221 32232333344455566678888


Q ss_pred             HHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhC
Q 041741          558 GARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHG  637 (748)
Q Consensus       558 ~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  637 (748)
                      +|.++-.+..-||-..|-.-+.+++..+++++-.+.-+.+.      ++.-|.-...+|.+.|+.++|..++-+..   +
T Consensus       702 ~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA~KYiprv~---~  772 (829)
T KOG2280|consen  702 RAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEAKKYIPRVG---G  772 (829)
T ss_pred             HHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHHhhhhhccC---C
Confidence            88888888877888777777788888888776555444322      13446666778888888888887776552   2


Q ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHh
Q 041741          638 VEPILDHYTCMIDCLGRAGHFHEAEMLID  666 (748)
Q Consensus       638 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  666 (748)
                      .       ...+.+|.+.|++.+|.+.--
T Consensus       773 l-------~ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  773 L-------QEKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             h-------HHHHHHHHHhccHHHHHHHHH
Confidence            1       146677788888887776543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.06  E-value=0.37  Score=44.12  Aligned_cols=98  Identities=9%  Similarity=0.076  Sum_probs=74.6

Q ss_pred             HHhhccCC--CCCchhHHHHHHHHHhc-----CChhHHHHHHHHHHhCCCCCCcchHHHHHHHhcccc------------
Q 041741           74 YKLFDEMP--ERNVVSWNNLISALVRN-----GLEEKALSVYNKMSNEGFVPTHITLASVFKASTALL------------  134 (748)
Q Consensus        74 ~~~~~~~~--~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~------------  134 (748)
                      ...|+..+  ++|-.+|...+..+...     +..+=....++.|.+-|+.-|..+|..|++.+-+..            
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~  133 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFL  133 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHh
Confidence            45555555  46777888888887654     344445577888999999999999999998776543            


Q ss_pred             ----CcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCCh
Q 041741          135 ----DVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWT  171 (748)
Q Consensus       135 ----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  171 (748)
                          +-+-+..++++|...|+.||-.+-..|++++.+.+-.
T Consensus       134 HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  134 HYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             hCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence                3345788999999999999999999999998876643

>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=93.92  E-value=0.54  Score=38.37  Aligned_cols=48  Identities=15%  Similarity=0.130  Sum_probs=23.9

Q ss_pred             CCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHh-CCCCchHHHHHHHH
Q 041741          501 MYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKD-GYVNDIFVGSALIE  548 (748)
Q Consensus       501 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~  548 (748)
                      ..|+..+..+++.+++..+++..|.++++.+.+. +++.+..+|..|++
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            3455555555555555555555555555554443 44444444444443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=93.88  E-value=2  Score=36.30  Aligned_cols=97  Identities=14%  Similarity=0.122  Sum_probs=51.1

Q ss_pred             cCCCChHHHHHHHHHhhhhhCCCCChhHHH-HHHHHHHhcCChHHHHHHHhhCC-CCCCHhHHHHHHHHHHhcCCHHHHH
Q 041741          617 SHSGLVDVGVEIFNSMQLDHGVEPILDHYT-CMIDCLGRAGHFHEAEMLIDEMP-CKDDPVIWEVLLSSCRLHANVRLAK  694 (748)
Q Consensus       617 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~  694 (748)
                      ...++.+++..++..+.   -+.|...... .-+..+.+.|++.+|..+++++. ..|....-..|+..|........=.
T Consensus        21 l~~~~~~D~e~lL~ALr---vLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~~Wr   97 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALR---VLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDPSWR   97 (160)
T ss_pred             HccCChHHHHHHHHHHH---HhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCChHHH
Confidence            45567777777777774   3445432222 23445667777788877777775 3343344444555444333222334


Q ss_pred             HHHHHHHhcCCCCCcchHHHhHH
Q 041741          695 RAAEELFRLDPKNSAPYSLLANI  717 (748)
Q Consensus       695 ~~~~~~~~~~p~~~~~~~~l~~~  717 (748)
                      ....++++..| |+.+...+..+
T Consensus        98 ~~A~evle~~~-d~~a~~Lv~~L  119 (160)
T PF09613_consen   98 RYADEVLESGA-DPDARALVRAL  119 (160)
T ss_pred             HHHHHHHhcCC-ChHHHHHHHHH
Confidence            44555555555 44444444333

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.35  E-value=0.12  Score=32.88  Aligned_cols=32  Identities=22%  Similarity=0.174  Sum_probs=28.0

Q ss_pred             CcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          708 SAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       708 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      |.++..++.+|...|++++|++.|+++.+..+
T Consensus         1 p~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P   32 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQPDEAERLLRRALALDP   32 (44)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            45788999999999999999999999877554

>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=93.35  E-value=0.14  Score=30.20  Aligned_cols=31  Identities=16%  Similarity=0.093  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041741          676 IWEVLLSSCRLHANVRLAKRAAEELFRLDPK  706 (748)
Q Consensus       676 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  706 (748)
                      +|..+...+...|++++|...++++++++|+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            4555666677777777777777777777773

...

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.30  E-value=3.9  Score=34.40  Aligned_cols=63  Identities=19%  Similarity=0.366  Sum_probs=30.8

Q ss_pred             HHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhc-CChHHHHHHHhhCCCCCCHhHHHHHHHHHH
Q 041741          610 VAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRA-GHFHEAEMLIDEMPCKDDPVIWEVLLSSCR  685 (748)
Q Consensus       610 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~  685 (748)
                      ..+++.|.+.+.++++.-++.++    |.      +...+..+... ++.+.|.+++++.   .++..|..++..+.
T Consensus        73 ~~~~~~c~~~~l~~~~~~l~~k~----~~------~~~Al~~~l~~~~d~~~a~~~~~~~---~~~~lw~~~~~~~l  136 (140)
T smart00299       73 EKVGKLCEKAKLYEEAVELYKKD----GN------FKDAIVTLIEHLGNYEKAIEYFVKQ---NNPELWAEVLKALL  136 (140)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHhh----cC------HHHHHHHHHHcccCHHHHHHHHHhC---CCHHHHHHHHHHHH
Confidence            33455555555555555555544    11      22223333333 5666666666652   24555655555443

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=93.20  E-value=12  Score=38.91  Aligned_cols=141  Identities=13%  Similarity=0.120  Sum_probs=84.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHhccCCC--CCcch-HHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHh-
Q 041741          339 VTSINMLVACVRSGDIKTGREMFDSMPS--PSVSS-WNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSC-  414 (748)
Q Consensus       339 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~-  414 (748)
                      ..+..++.--....+.+.+...++.+..  |...- |......=.+.|..+.+.++|++-... ++-+...+...+.-+ 
T Consensus        46 ~~wt~li~~~~~~~~~~~~r~~y~~fL~kyPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~~f~~  124 (577)
T KOG1258|consen   46 DAWTTLIQENDSIEDVDALREVYDIFLSKYPLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYLAFLK  124 (577)
T ss_pred             cchHHHHhccCchhHHHHHHHHHHHHHhhCccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHHHHHh
Confidence            3344455443344445556666666664  33332 334444456778888888888887763 555555555555433 


Q ss_pred             hccCChHHHHHHHHHHHhh-cCCc-hhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHH
Q 041741          415 AAMGILESGKQVHAASLKT-ASHI-DNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGL  480 (748)
Q Consensus       415 ~~~~~~~~a~~~~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~  480 (748)
                      ...|+.+.....++.+... |... +...+...+.--..++++.....+++++.+.....++..-..|
T Consensus       125 n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP~~~~~~~f~~f  192 (577)
T KOG1258|consen  125 NNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIPLHQLNRHFDRF  192 (577)
T ss_pred             ccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhhhhHhHHHHHHH
Confidence            3567777777777777663 3332 4455666666667777788888888777765555444444333

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.17  E-value=5  Score=35.08  Aligned_cols=114  Identities=9%  Similarity=0.005  Sum_probs=71.8

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHH--HHHHHhcCCCChHHHHHHHHHhhhhhCCCCChh----HHHHHHHHHHhcCChHHHH
Q 041741          589 EAVRLYKDMIASGVKPDDITFV--AILTACSHSGLVDVGVEIFNSMQLDHGVEPILD----HYTCMIDCLGRAGHFHEAE  662 (748)
Q Consensus       589 ~a~~~~~~m~~~~~~p~~~~~~--~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~A~  662 (748)
                      +.....+++....-......+.  .+...+...+++++|...++...   +.+.|..    .-..|++.....|.+++|+
T Consensus        70 ~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l---~~t~De~lk~l~~lRLArvq~q~~k~D~AL  146 (207)
T COG2976          70 KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQAL---AQTKDENLKALAALRLARVQLQQKKADAAL  146 (207)
T ss_pred             hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHH---ccchhHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence            5555566666642122222222  33456678888888888887663   2222211    1225677788889999999


Q ss_pred             HHHhhCCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          663 MLIDEMPCKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       663 ~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      ..++....+. .+.....-...+...|+-++|...|+++++..+
T Consensus       147 ~~L~t~~~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~  190 (207)
T COG2976         147 KTLDTIKEESWAAIVAELRGDILLAKGDKQEARAAYEKALESDA  190 (207)
T ss_pred             HHHhccccccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccC
Confidence            9888876221 233344445668888999999999999988875

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=93.04  E-value=1.2  Score=40.97  Aligned_cols=99  Identities=14%  Similarity=0.213  Sum_probs=75.4

Q ss_pred             HHHhhhcC--CCCHHHHHHHHHHHHH-----cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCC-----------
Q 041741          560 RQFFDMMH--GKNTVTWNEMIHGYAQ-----NGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGL-----------  621 (748)
Q Consensus       560 ~~~~~~~~--~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~-----------  621 (748)
                      +..|..+.  +.|-.+|-..+..+..     .+.++=....++.|.+-|+.-|..+|+.|+..+-+...           
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~  133 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFL  133 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHh
Confidence            44555555  4577777777776654     35666677788899999999999999999987754332           


Q ss_pred             -----hHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChH
Q 041741          622 -----VDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFH  659 (748)
Q Consensus       622 -----~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  659 (748)
                           -+=++.++++| +..|+.||..+-..+++++.+.+..-
T Consensus       134 HYP~QQ~C~I~vLeqM-E~hGVmPdkE~e~~lvn~FGr~~~p~  175 (406)
T KOG3941|consen  134 HYPQQQNCAIKVLEQM-EWHGVMPDKEIEDILVNAFGRWNFPT  175 (406)
T ss_pred             hCchhhhHHHHHHHHH-HHcCCCCchHHHHHHHHHhccccccH
Confidence                 24478999999 89999999999999999999887643

>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=92.91  E-value=1.3  Score=45.39  Aligned_cols=130  Identities=15%  Similarity=0.169  Sum_probs=73.4

Q ss_pred             hhHHHHHHHccCCchhhhhhhhcCCCCchhhhhHHHHHhhcCCChhHHHHhhccCCCCCchhHHHHHHHHHhcCChhHHH
Q 041741           26 CNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKAL  105 (748)
Q Consensus        26 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  105 (748)
                      .+.++.-+-+.|..+.|+.+-+.-        ..-.....+.|+++.|.++.++..  +...|..|......+|+.+-|+
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D~--------~~rFeLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe  367 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTDP--------DHRFELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIELAE  367 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS-H--------HHHHHHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCCh--------HHHhHHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHH
Confidence            566666666677766666664331        123344455577777777666554  4457777777777888888777


Q ss_pred             HHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhc
Q 041741          106 SVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEE  180 (748)
Q Consensus       106 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  180 (748)
                      +.|.+...         |..++-.+...|+.+...++.+.....|-      ++....++...|+.++..+++.+
T Consensus       368 ~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  368 ECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            77777543         34555556666666666666555554441      33333444445555555554443

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.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.75  E-value=17  Score=39.46  Aligned_cols=54  Identities=6%  Similarity=0.159  Sum_probs=41.9

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q 041741          545 ALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMI  598 (748)
Q Consensus       545 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  598 (748)
                      .++..+.+..+.+.+..+.+...+.++..|..++..+++.+.++.-.+...+.+
T Consensus       710 dl~~~~~q~~d~E~~it~~~~~g~~~p~l~~~~L~yF~~~~~i~~~~~~v~~vl  763 (933)
T KOG2114|consen  710 DLMLYFQQISDPETVITLCERLGKEDPSLWLHALKYFVSEESIEDCYEIVYKVL  763 (933)
T ss_pred             HHHHHHHHhhChHHHHHHHHHhCccChHHHHHHHHHHhhhcchhhHHHHHHHHH
Confidence            567778888888999888888888889999999999998886666555444433

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.75  E-value=1.9  Score=36.55  Aligned_cols=142  Identities=13%  Similarity=0.138  Sum_probs=91.3

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHH--
Q 041741          570 NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDI-TFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYT--  646 (748)
Q Consensus       570 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~--  646 (748)
                      +...|..-++ +.+.+..++|+.-|..+.+.|...=+. ............|+...|+..|+++-.+..++.-.....  
T Consensus        58 sgd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          58 SGDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             chHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHH
Confidence            3344444444 456678899999999999887543222 222333455788999999999998853322222111222  


Q ss_pred             HHHHHHHhcCChHHHHHHHhhCCCCC---CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHH
Q 041741          647 CMIDCLGRAGHFHEAEMLIDEMPCKD---DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSL  713 (748)
Q Consensus       647 ~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  713 (748)
                      .-+..+...|.+++....++.+....   ....-..|.-+..+.|++.+|...|+++.. +...|.....
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~-Da~aprnirq  205 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN-DAQAPRNIRQ  205 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc-cccCcHHHHH
Confidence            23456778999999998888886222   234556777778889999999999998776 3333333333

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.72  E-value=5.7  Score=33.86  Aligned_cols=119  Identities=13%  Similarity=0.077  Sum_probs=77.1

Q ss_pred             HHhcCCHHHHHHHhhhcCCCCHHHHHHHH-----HHHHHcCChhHHHHHHHHHHHcCCCCCHH-HHHHH--HHHhcCCCC
Q 041741          550 YCKCGDIYGARQFFDMMHGKNTVTWNEMI-----HGYAQNGYGDEAVRLYKDMIASGVKPDDI-TFVAI--LTACSHSGL  621 (748)
Q Consensus       550 ~~~~g~~~~A~~~~~~~~~~~~~~~~~l~-----~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~l--~~~~~~~~~  621 (748)
                      ..+.++.++|+.-|..+.+.+.-.|..|.     ......|+...|+..|++.-.-...|-.. -...|  ...+...|.
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            45667888888888888776555555443     34566788888888888877643334332 12222  223467788


Q ss_pred             hHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC
Q 041741          622 VDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       622 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  669 (748)
                      ++....-.+-+ ...+.+.....-..|+-+-.+.|++.+|..+|..+.
T Consensus       148 y~dV~srvepL-a~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia  194 (221)
T COG4649         148 YDDVSSRVEPL-AGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIA  194 (221)
T ss_pred             HHHHHHHhhhc-cCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHH
Confidence            88877777766 233333344455577777788888888888888774

>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=92.62  E-value=0.019  Score=48.85  Aligned_cols=83  Identities=18%  Similarity=0.218  Sum_probs=46.0

Q ss_pred             HHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHH
Q 041741          511 VLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEA  590 (748)
Q Consensus       511 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  590 (748)
                      ++..+.+.+.+.....+++.+...+...+....+.++..|++.+..++..++++....   .....++..|.+.|.++.+
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHHH
Confidence            4555666667777777777777666556667777777777777666666666652221   2223334444444444444


Q ss_pred             HHHHHH
Q 041741          591 VRLYKD  596 (748)
Q Consensus       591 ~~~~~~  596 (748)
                      .-++.+
T Consensus        90 ~~Ly~~   95 (143)
T PF00637_consen   90 VYLYSK   95 (143)
T ss_dssp             HHHHHC
T ss_pred             HHHHHH
Confidence            444443

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.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=92.57  E-value=0.47  Score=44.47  Aligned_cols=59  Identities=19%  Similarity=0.187  Sum_probs=36.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          678 EVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       678 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      ..++..+...|+.+.+...++.++..+|-+...+..+..+|.+.|+...|+..|+.+++
T Consensus       157 ~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         157 TKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            34445555566666666666666666666666666666666666666666666666544

>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=92.55  E-value=3.1  Score=42.77  Aligned_cols=132  Identities=14%  Similarity=0.077  Sum_probs=73.8

Q ss_pred             HHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCCh
Q 041741          508 FATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYG  587 (748)
Q Consensus       508 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~  587 (748)
                      ...++.-+.+.|-++.|.++...         +.   .-.....+.|+++.|.++.+...  +...|..|......+|++
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D---------~~---~rFeLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~  363 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTD---------PD---HRFELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNI  363 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCC---------hH---HHhHHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCH
Confidence            44555555556666666554322         21   23455667788888887776654  556788888888888888


Q ss_pred             hHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhh
Q 041741          588 DEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDE  667 (748)
Q Consensus       588 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  667 (748)
                      +-|.+.|++..+         +..|+-.|...|+.+.-.++.+.. ...|      -++....++.-.|+.++..+++.+
T Consensus       364 ~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a-~~~~------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  364 ELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIA-EERG------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHH-HHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHH-HHcc------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            888877776543         455555566666666555555444 2211      123333444445666666666655


Q ss_pred             CC
Q 041741          668 MP  669 (748)
Q Consensus       668 ~~  669 (748)
                      ..
T Consensus       428 ~~  429 (443)
T PF04053_consen  428 TG  429 (443)
T ss_dssp             TT
T ss_pred             cC
Confidence            43

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.

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=92.47  E-value=0.13  Score=28.14  Aligned_cols=24  Identities=17%  Similarity=0.074  Sum_probs=20.3

Q ss_pred             cchHHHhHHHhhcCChHHHHHHHH
Q 041741          709 APYSLLANIYSSLGRWDDLRAVRE  732 (748)
Q Consensus       709 ~~~~~l~~~~~~~g~~~~A~~~~~  732 (748)
                      .+...++.++...|+.++|+..++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHh
Confidence            467788999999999999998876

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.24  E-value=2.5  Score=36.84  Aligned_cols=91  Identities=13%  Similarity=0.016  Sum_probs=67.5

Q ss_pred             HHHHHHHhcCChHHHHHHHhhCCCCCCHh-----HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhc
Q 041741          647 CMIDCLGRAGHFHEAEMLIDEMPCKDDPV-----IWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSL  721 (748)
Q Consensus       647 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  721 (748)
                      .++..+..+|++++|...++.....|...     .-..|.......|.++.|...++....-.= .+......|+++...
T Consensus        94 ~lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w-~~~~~elrGDill~k  172 (207)
T COG2976          94 ELAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW-AAIVAELRGDILLAK  172 (207)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH-HHHHHHHhhhHHHHc
Confidence            45677889999999999998775344332     333455567788999999888875332211 234577889999999


Q ss_pred             CChHHHHHHHHHHHhcC
Q 041741          722 GRWDDLRAVRELMSENC  738 (748)
Q Consensus       722 g~~~~A~~~~~~~~~~~  738 (748)
                      ||.++|+.-|++....+
T Consensus       173 g~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         173 GDKQEARAAYEKALESD  189 (207)
T ss_pred             CchHHHHHHHHHHHHcc
Confidence            99999999999988765

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.09  E-value=20  Score=38.66  Aligned_cols=72  Identities=19%  Similarity=0.290  Sum_probs=38.0

Q ss_pred             HHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCH
Q 041741          611 AILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANV  690 (748)
Q Consensus       611 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  690 (748)
                      ..+..|.+.|-+++-+-++.+|    |     .+..+|.-.--+.++.++|.++.+.   ..|+..|..|+..+...-.+
T Consensus       639 kA~eiC~q~~~~~E~VYlLgrm----G-----n~k~AL~lII~el~die~AIefvKe---q~D~eLWe~LI~~~ldkPe~  706 (846)
T KOG2066|consen  639 KALEICSQKNFYEELVYLLGRM----G-----NAKEALKLIINELRDIEKAIEFVKE---QDDSELWEDLINYSLDKPEF  706 (846)
T ss_pred             HHHHHHHhhCcHHHHHHHHHhh----c-----chHHHHHHHHHHhhCHHHHHHHHHh---cCCHHHHHHHHHHhhcCcHH
Confidence            3344444445555555555444    2     1122222223344555556555555   56889999999877655444


Q ss_pred             HHHH
Q 041741          691 RLAK  694 (748)
Q Consensus       691 ~~a~  694 (748)
                      -.+.
T Consensus       707 ~~~l  710 (846)
T KOG2066|consen  707 IKAL  710 (846)
T ss_pred             HHHH
Confidence            4333

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.03  E-value=0.16  Score=29.98  Aligned_cols=29  Identities=21%  Similarity=0.287  Sum_probs=24.6

Q ss_pred             cchHHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          709 APYSLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       709 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      .++..+|.+|...|++++|++.+++..+.
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            46789999999999999999999987653

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 ....

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=91.81  E-value=0.3  Score=45.90  Aligned_cols=96  Identities=16%  Similarity=0.060  Sum_probs=68.3

Q ss_pred             HHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhc
Q 041741          611 AILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLH  687 (748)
Q Consensus       611 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~  687 (748)
                      --..-|.++|++++|+..|.+..   ...| +..++..-+.+|.+.+++..|..=+....  ...-...|..-+.+-...
T Consensus       102 E~GN~yFKQgKy~EAIDCYs~~i---a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~L  178 (536)
T KOG4648|consen  102 ERGNTYFKQGKYEEAIDCYSTAI---AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESL  178 (536)
T ss_pred             HhhhhhhhccchhHHHHHhhhhh---ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            33667889999999999998764   4556 66677777888999988887776666554  111122333334444456


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCc
Q 041741          688 ANVRLAKRAAEELFRLDPKNSA  709 (748)
Q Consensus       688 ~~~~~a~~~~~~~~~~~p~~~~  709 (748)
                      |+.++|.+-++.++++.|++..
T Consensus       179 g~~~EAKkD~E~vL~LEP~~~E  200 (536)
T KOG4648|consen  179 GNNMEAKKDCETVLALEPKNIE  200 (536)
T ss_pred             hhHHHHHHhHHHHHhhCcccHH
Confidence            8889999999999999997543

>PRK09687 putative lyase; Provisional

Probab=91.77  E-value=13  Score=35.77  Aligned_cols=71  Identities=11%  Similarity=0.083  Sum_probs=34.9

Q ss_pred             CchHHHHHHHHHHHhcCChhHHHHHhccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHH
Q 041741          270 ADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINML  345 (748)
Q Consensus       270 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  345 (748)
                      ++..+....+.++.+.++......+.+.+..++  .....+.++...|.. +|+..+..+.+.  .||...-...+
T Consensus       204 ~~~~VR~~A~~aLg~~~~~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~  274 (280)
T PRK09687        204 KNEEIRIEAIIGLALRKDKRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAI  274 (280)
T ss_pred             CChHHHHHHHHHHHccCChhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHH
Confidence            444555555566666665433333333333222  233455666666664 566666666653  23444433333

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=91.76  E-value=16  Score=39.83  Aligned_cols=47  Identities=13%  Similarity=0.099  Sum_probs=23.8

Q ss_pred             chHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhcc
Q 041741          370 SSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAM  417 (748)
Q Consensus       370 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  417 (748)
                      .....+|..+.+.|++++|.++..+... +.......+...+..+...
T Consensus       112 ~p~Wa~Iyy~LR~G~~~~A~~~~~~~~~-~~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  112 DPIWALIYYCLRCGDYDEALEVANENRN-QFQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             EEHHHHHHHHHTTT-HHHHHHHHHHTGG-GS-TTTTHHHHHHHHCTTT
T ss_pred             CccHHHHHHHHhcCCHHHHHHHHHHhhh-hhcchhHHHHHHHHHHHhC
Confidence            3344555566666666666666644332 2344445555555555443

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.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=91.58  E-value=0.2  Score=29.19  Aligned_cols=29  Identities=21%  Similarity=0.268  Sum_probs=20.2

Q ss_pred             chHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          710 PYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       710 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      ++..+|.+|.+.|++++|.++|+++.++-
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~~   30 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKRY   30 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            35667777777777777777777766543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.35  E-value=0.35  Score=29.05  Aligned_cols=27  Identities=19%  Similarity=0.065  Sum_probs=19.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 041741          677 WEVLLSSCRLHANVRLAKRAAEELFRL  703 (748)
Q Consensus       677 ~~~l~~~~~~~~~~~~a~~~~~~~~~~  703 (748)
                      +..|...|...|++++|++++++++.+
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            566777888888888888888885544

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.32  E-value=1.7  Score=41.07  Aligned_cols=158  Identities=13%  Similarity=-0.030  Sum_probs=118.1

Q ss_pred             HHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHH----HHHHHHHHhcCC
Q 041741          582 AQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHY----TCMIDCLGRAGH  657 (748)
Q Consensus       582 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~g~  657 (748)
                      ..+|++.+|...|+++++. .+.|...+...=.+|...|..+.-...++++.-  .-.|+...|    ..++.++...|-
T Consensus       114 ~~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip--~wn~dlp~~sYv~GmyaFgL~E~g~  190 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIP--KWNADLPCYSYVHGMYAFGLEECGI  190 (491)
T ss_pred             hccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhcc--ccCCCCcHHHHHHHHHHhhHHHhcc
Confidence            3578899999999999986 567778888888899999999988888888742  224554333    355667789999


Q ss_pred             hHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC----CCcchHHHhHHHhhcCChHHHHHHH
Q 041741          658 FHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK----NSAPYSLLANIYSSLGRWDDLRAVR  731 (748)
Q Consensus       658 ~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~A~~~~  731 (748)
                      +++|.+.-++..  .+.|.-.......++...|+..++.+..++--..-..    -...|.+.+-.+...+.++.|+++|
T Consensus       191 y~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  191 YDDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             chhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            999999998885  3346667778888899999999999988764332221    1234777888889999999999999


Q ss_pred             HHHHhcCCCCC
Q 041741          732 ELMSENCIVKD  742 (748)
Q Consensus       732 ~~~~~~~~~~~  742 (748)
                      ..=.-....++
T Consensus       271 D~ei~k~l~k~  281 (491)
T KOG2610|consen  271 DREIWKRLEKD  281 (491)
T ss_pred             HHHHHHHhhcc
Confidence            86433333333

>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=91.21  E-value=2.8  Score=36.99  Aligned_cols=75  Identities=16%  Similarity=0.138  Sum_probs=56.9

Q ss_pred             HHhcCChHHHHHHHhhCCCCC---CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC----CCcchHHHhHHHhhcCCh
Q 041741          652 LGRAGHFHEAEMLIDEMPCKD---DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK----NSAPYSLLANIYSSLGRW  724 (748)
Q Consensus       652 ~~~~g~~~~A~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~  724 (748)
                      ..+.|+ ++|...|-.+...|   ++.....|+..|. ..|.++++..+-+++++.+.    ||.++..|+.+|.+.|++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            344555 77888887776444   4555555555554 67999999999999997543    678999999999999999


Q ss_pred             HHHH
Q 041741          725 DDLR  728 (748)
Q Consensus       725 ~~A~  728 (748)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            9885

>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=91.21  E-value=9.1  Score=32.99  Aligned_cols=40  Identities=13%  Similarity=0.150  Sum_probs=29.6

Q ss_pred             HHHHHHhcCCCchHHHHHHHHHHHhcCChhHHHHHhccCC
Q 041741          260 HCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLP  299 (748)
Q Consensus       260 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  299 (748)
                      ...+.+.+++|+...+..+++.+.+.|.+.....++..-.
T Consensus        17 irSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~V   56 (167)
T PF07035_consen   17 IRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQYHV   56 (167)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcc
Confidence            3344566888888899999999999888877666655433

>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=91.17  E-value=0.13  Score=48.52  Aligned_cols=87  Identities=15%  Similarity=0.155  Sum_probs=58.9

Q ss_pred             hcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHH
Q 041741          654 RAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVR  731 (748)
Q Consensus       654 ~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  731 (748)
                      ..|.+++|++.+.+..  .++....+..-.++++..+.+..|++-+..+++++|+...-|-..+.+..-+|+|++|.+.+
T Consensus       126 n~G~~~~ai~~~t~ai~lnp~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~aa~dl  205 (377)
T KOG1308|consen  126 NDGEFDTAIELFTSAIELNPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEAAHDL  205 (377)
T ss_pred             cCcchhhhhcccccccccCCchhhhcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhchHHHHHHH
Confidence            3466777777766654  23344445555566777777777777777777777777777777777777777777777777


Q ss_pred             HHHHhcCCC
Q 041741          732 ELMSENCIV  740 (748)
Q Consensus       732 ~~~~~~~~~  740 (748)
                      +...+.++.
T Consensus       206 ~~a~kld~d  214 (377)
T KOG1308|consen  206 ALACKLDYD  214 (377)
T ss_pred             HHHHhcccc
Confidence            766655543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=91.14  E-value=15  Score=35.49  Aligned_cols=54  Identities=13%  Similarity=0.001  Sum_probs=27.7

Q ss_pred             HHHhhcCCCCchhHHHHHHHHHHhC-----CCCchHHHHHHHHHHHhcCCHHHHHHHhh
Q 041741          511 VLSSCAKLSSSFQGRQVHAQIEKDG-----YVNDIFVGSALIEMYCKCGDIYGARQFFD  564 (748)
Q Consensus       511 l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  564 (748)
                      +..++...+.++++.+.|+...+..     ......++..|...|.+..++++|.-+..
T Consensus       128 ~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~  186 (518)
T KOG1941|consen  128 MGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPC  186 (518)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhH
Confidence            4445555555666666555544321     11123455556666666666666554443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.06  E-value=0.23  Score=29.30  Aligned_cols=29  Identities=24%  Similarity=0.308  Sum_probs=24.7

Q ss_pred             cchHHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          709 APYSLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       709 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      .++..+|.+|...|++++|+..+++..+-
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            46789999999999999999999997653

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 ....

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=91.03  E-value=0.5  Score=42.24  Aligned_cols=85  Identities=8%  Similarity=-0.046  Sum_probs=63.5

Q ss_pred             HHHhcCChHHHHHHHhhCC-CCCCH-hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHH
Q 041741          651 CLGRAGHFHEAEMLIDEMP-CKDDP-VIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLR  728 (748)
Q Consensus       651 ~~~~~g~~~~A~~~~~~~~-~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  728 (748)
                      .|....+++.|..-|.+.. ..|.. ..|..-+..+.+..+++.+..-..+++++.|+....++.|+........+++|+
T Consensus        19 k~f~~k~y~~ai~~y~raI~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~eaI   98 (284)
T KOG4642|consen   19 KCFIPKRYDDAIDCYSRAICINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDEAI   98 (284)
T ss_pred             cccchhhhchHHHHHHHHHhcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccHHH
Confidence            3444556667776665553 56665 444555556667888888888888889999988888899999988888899998


Q ss_pred             HHHHHHH
Q 041741          729 AVRELMS  735 (748)
Q Consensus       729 ~~~~~~~  735 (748)
                      ..+++..
T Consensus        99 ~~Lqra~  105 (284)
T KOG4642|consen   99 KVLQRAY  105 (284)
T ss_pred             HHHHHHH
Confidence            8888873

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=90.68  E-value=9.3  Score=38.82  Aligned_cols=75  Identities=15%  Similarity=0.122  Sum_probs=52.3

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHhhhcCC--C---CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH-HHHHHHH
Q 041741          540 IFVGSALIEMYCKCGDIYGARQFFDMMHG--K---NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD-ITFVAIL  613 (748)
Q Consensus       540 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~  613 (748)
                      +.+-..+..+.-+.|+.++|.+.++++.+  |   +......|+.++...+.+.++..++.+..+...+.+. .+|+..+
T Consensus       259 ~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaAL  338 (539)
T PF04184_consen  259 VYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAAL  338 (539)
T ss_pred             hhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHH
Confidence            44445567777788999999999988864  2   2345667889999999999999999887654332222 3566554


Q ss_pred             H
Q 041741          614 T  614 (748)
Q Consensus       614 ~  614 (748)
                      -
T Consensus       339 L  339 (539)
T PF04184_consen  339 L  339 (539)
T ss_pred             H
Confidence            3

The molecular function of this protein is uncertain.

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.44  E-value=14  Score=33.97  Aligned_cols=180  Identities=13%  Similarity=0.133  Sum_probs=85.5

Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHC---CC--CCCHHHHHHHHHhhcCCCCchhHHHHHHHHHH----h-CCCCchHHHH
Q 041741          475 SMIAGLSLNSLDIEAFMFFKQMRQN---EM--YPTQFSFATVLSSCAKLSSSFQGRQVHAQIEK----D-GYVNDIFVGS  544 (748)
Q Consensus       475 ~li~~~~~~~~~~~a~~~~~~m~~~---~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~-~~~~~~~~~~  544 (748)
                      .+|..+.+.+++++.+..+++|...   .+  .-+..+.+.++...+...+.+...++++.-..    . +-..-..+-.
T Consensus        70 QmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNt  149 (440)
T KOG1464|consen   70 QMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNT  149 (440)
T ss_pred             HHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccc
Confidence            3455555566666655555555321   11  11233445555544444444433333332111    1 1111112223


Q ss_pred             HHHHHHHhcCCHHHHHHHhhhcCC--------C-------CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcC-CCCCHHH
Q 041741          545 ALIEMYCKCGDIYGARQFFDMMHG--------K-------NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASG-VKPDDIT  608 (748)
Q Consensus       545 ~l~~~~~~~g~~~~A~~~~~~~~~--------~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~  608 (748)
                      -|...|...|.+.+..+++.++..        .       -...|..-|+.|..+++-.....++++.+... --|.+..
T Consensus       150 KLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlI  229 (440)
T KOG1464|consen  150 KLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLI  229 (440)
T ss_pred             hHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHH
Confidence            455566666666666666665542        0       12355566677777777777777777765432 2344433


Q ss_pred             HHHHHHHh-----cCCCChHHHHH-HHHHhhhhhCC--CCCh---hHHHHHHHHHHhcC
Q 041741          609 FVAILTAC-----SHSGLVDVGVE-IFNSMQLDHGV--EPIL---DHYTCMIDCLGRAG  656 (748)
Q Consensus       609 ~~~l~~~~-----~~~~~~~~A~~-~~~~~~~~~~~--~~~~---~~~~~l~~~~~~~g  656 (748)
                       ..+++-|     .+.|.+++|.. .|+.. +.+.-  .|..   --|..++.++.+.|
T Consensus       230 -mGvIRECGGKMHlreg~fe~AhTDFFEAF-KNYDEsGspRRttCLKYLVLANMLmkS~  286 (440)
T KOG1464|consen  230 -MGVIRECGGKMHLREGEFEKAHTDFFEAF-KNYDESGSPRRTTCLKYLVLANMLMKSG  286 (440)
T ss_pred             -HhHHHHcCCccccccchHHHHHhHHHHHH-hcccccCCcchhHHHHHHHHHHHHHHcC
Confidence             3344544     45677777654 33333 32221  2221   12445666666655

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=90.25  E-value=2.6  Score=37.28  Aligned_cols=111  Identities=14%  Similarity=0.096  Sum_probs=67.6

Q ss_pred             hcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCC-HhHHHHHHHHHHhcCCHHH
Q 041741          616 CSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDD-PVIWEVLLSSCRLHANVRL  692 (748)
Q Consensus       616 ~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~  692 (748)
                      |-..|-+.-|.--|.+..   .+.|+ +..|+.++--+...|+++.|.+.|+... ..|. ......-.-.+.--|+++.
T Consensus        75 YDSlGL~~LAR~DftQaL---ai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~L  151 (297)
T COG4785          75 YDSLGLRALARNDFSQAL---AIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKL  151 (297)
T ss_pred             hhhhhHHHHHhhhhhhhh---hcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHh
Confidence            455566666666555543   66777 5667777777888888888888888774 3332 2222222222334578888


Q ss_pred             HHHHHHHHHhcCCCCCcchHHHhHHHhhcC--ChHHHHHHHH
Q 041741          693 AKRAAEELFRLDPKNSAPYSLLANIYSSLG--RWDDLRAVRE  732 (748)
Q Consensus       693 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g--~~~~A~~~~~  732 (748)
                      |.+-+.+-.+.+|+||-   .-.|+|....  |..+|..-+.
T Consensus       152 Aq~d~~~fYQ~D~~DPf---R~LWLYl~E~k~dP~~A~tnL~  190 (297)
T COG4785         152 AQDDLLAFYQDDPNDPF---RSLWLYLNEQKLDPKQAKTNLK  190 (297)
T ss_pred             hHHHHHHHHhcCCCChH---HHHHHHHHHhhCCHHHHHHHHH
Confidence            88888888888887763   2334444433  4445655443

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=90.07  E-value=0.7  Score=30.63  Aligned_cols=37  Identities=22%  Similarity=0.236  Sum_probs=27.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHH
Q 041741          678 EVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLL  714 (748)
Q Consensus       678 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  714 (748)
                      ..+.-++.+.|++++|.+..+.+++.+|+|.++....
T Consensus         5 Y~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa~~L~   41 (53)
T PF14853_consen    5 YYLAIGHYKLGEYEKARRYCDALLEIEPDNRQAQSLK   41 (53)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHHHHHH
Confidence            3455678899999999999999999999886654443

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=89.56  E-value=0.68  Score=26.87  Aligned_cols=31  Identities=13%  Similarity=-0.003  Sum_probs=24.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 041741          677 WEVLLSSCRLHANVRLAKRAAEELFRLDPKN  707 (748)
Q Consensus       677 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  707 (748)
                      +..++.++...|++++|...++++++..|++
T Consensus         3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~P~s   33 (33)
T PF13174_consen    3 LYRLARCYYKLGDYDEAIEYFQRLIKRYPDS   33 (33)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCcCC
Confidence            3456667778899999999999999988853

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=89.26  E-value=26  Score=35.17  Aligned_cols=68  Identities=19%  Similarity=0.220  Sum_probs=36.0

Q ss_pred             CchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCC
Q 041741           84 NVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLD  152 (748)
Q Consensus        84 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  152 (748)
                      |..+|-.|++-+..++.+++..+++++|..- ++.-+.+|..-+.+=....++..++.++....+....
T Consensus        41 nI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l~  108 (660)
T COG5107          41 NILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSLN  108 (660)
T ss_pred             hHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhcc
Confidence            3445555666666666666666666665431 2333344555555444555566666666555555444

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=89.25  E-value=0.95  Score=42.76  Aligned_cols=93  Identities=15%  Similarity=0.115  Sum_probs=62.5

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhc
Q 041741          577 MIHGYAQNGYGDEAVRLYKDMIASGVKP-DDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRA  655 (748)
Q Consensus       577 l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  655 (748)
                      -.+.|.++|.+++|+..|.+....  .| |.+++..-..+|.+..++..|..-..... ... ..-...|..-+.+-...
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Ai-aLd-~~Y~KAYSRR~~AR~~L  178 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAI-ALD-KLYVKAYSRRMQARESL  178 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHH-Hhh-HHHHHHHHHHHHHHHHH
Confidence            477899999999999999998884  56 88888888899999999888877766553 100 00122333333333445


Q ss_pred             CChHHHHHHHhhCC-CCCC
Q 041741          656 GHFHEAEMLIDEMP-CKDD  673 (748)
Q Consensus       656 g~~~~A~~~~~~~~-~~~~  673 (748)
                      |+..+|.+=++... ..|.
T Consensus       179 g~~~EAKkD~E~vL~LEP~  197 (536)
T KOG4648|consen  179 GNNMEAKKDCETVLALEPK  197 (536)
T ss_pred             hhHHHHHHhHHHHHhhCcc
Confidence            66666666555543 4555

>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=88.67  E-value=0.63  Score=27.31  Aligned_cols=28  Identities=29%  Similarity=0.419  Sum_probs=25.1

Q ss_pred             cchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          709 APYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       709 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .++..++.+|...|++++|..+|++..+
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            3678899999999999999999998765

...

>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=88.56  E-value=0.1  Score=44.29  Aligned_cols=84  Identities=15%  Similarity=0.103  Sum_probs=60.2

Q ss_pred             HHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCCCCeehHHHHHHHHHcCCCHHHH
Q 041741          126 VFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEA  205 (748)
Q Consensus       126 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  205 (748)
                      ++..+.+.+.......+++.+.+.+...+....+.++..|++.++.+...++++....   .-...++..+-+.|.++++
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHHH
Confidence            4555666667777777777777776666788889999999999888888888874332   3345677777778888888


Q ss_pred             HHHHHHH
Q 041741          206 LEMFRLM  212 (748)
Q Consensus       206 ~~~~~~m  212 (748)
                      .-++.++
T Consensus        90 ~~Ly~~~   96 (143)
T PF00637_consen   90 VYLYSKL   96 (143)
T ss_dssp             HHHHHCC
T ss_pred             HHHHHHc
Confidence            8777765

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.

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=88.55  E-value=22  Score=33.44  Aligned_cols=58  Identities=16%  Similarity=0.039  Sum_probs=52.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          679 VLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       679 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .....|..+|.+.+|.+..++++.++|=+.+.+..|..++...||.-+|.+.|+.+.+
T Consensus       284 kva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya~  341 (361)
T COG3947         284 KVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYAE  341 (361)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHHH
Confidence            3445588899999999999999999999999999999999999999999999998754

>PRK10941 hypothetical protein; Provisional

Probab=88.48  E-value=2  Score=40.58  Aligned_cols=62  Identities=23%  Similarity=0.258  Sum_probs=46.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          678 EVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       678 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      +.+-.++.+.+++++|..+.+.++.+.|++|.-+.-.|-+|.+.|.+..|..-++...+..+
T Consensus       185 ~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P  246 (269)
T PRK10941        185 DTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCP  246 (269)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCC
Confidence            44455677788888888888888888888887778888888888888888877776655443

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=88.47  E-value=4.3  Score=38.28  Aligned_cols=79  Identities=10%  Similarity=0.249  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhh----hhCCCCChhHHHH
Q 041741          572 VTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQL----DHGVEPILDHYTC  647 (748)
Q Consensus       572 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~~~~~~  647 (748)
                      .++..++..+...|+++.+.+.++++.... +-+...|..++.+|...|+...|+..|+++..    +.|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            345556667777777777777777777753 45666777777777777777777777776532    3466666555444


Q ss_pred             HHHH
Q 041741          648 MIDC  651 (748)
Q Consensus       648 l~~~  651 (748)
                      ..++
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            4443

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=88.33  E-value=1  Score=34.15  Aligned_cols=54  Identities=26%  Similarity=0.196  Sum_probs=31.9

Q ss_pred             CCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CCcchHHHhHHHhhcCChH
Q 041741          672 DDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK--NSAPYSLLANIYSSLGRWD  725 (748)
Q Consensus       672 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~  725 (748)
                      .|......+...+...|+++.|.+.+-.+++.+|+  +..+-..+..++...|.-+
T Consensus        20 ~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~f~~lg~~~   75 (90)
T PF14561_consen   20 DDLDARYALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDIFELLGPGD   75 (90)
T ss_dssp             T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHHHHHH-TT-
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHHHHHcCCCC
Confidence            34556666666677777777777777777776654  3556666666666666643

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.22  E-value=42  Score=36.37  Aligned_cols=25  Identities=12%  Similarity=0.308  Sum_probs=18.3

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHH
Q 041741          372 WNAMLSSYSQSENHKEAIKLFREMQ  396 (748)
Q Consensus       372 ~~~ll~~~~~~~~~~~a~~~~~~m~  396 (748)
                      -..|+..|...+++..|+.++-..+
T Consensus       508 ~e~La~LYl~d~~Y~~Al~~ylklk  532 (846)
T KOG2066|consen  508 LEVLAHLYLYDNKYEKALPIYLKLQ  532 (846)
T ss_pred             HHHHHHHHHHccChHHHHHHHHhcc
Confidence            3447778888888888888776554

>PRK09687 putative lyase; Provisional

Probab=88.19  E-value=25  Score=33.77  Aligned_cols=25  Identities=4%  Similarity=-0.056  Sum_probs=11.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          680 LLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       680 l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      .+.++...|+. +|...+.++...+|
T Consensus       241 a~~ALg~ig~~-~a~p~L~~l~~~~~  265 (280)
T PRK09687        241 IIEAAGELGDK-TLLPVLDTLLYKFD  265 (280)
T ss_pred             HHHHHHhcCCH-hHHHHHHHHHhhCC
Confidence            33444444443 35555555555444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=88.18  E-value=11  Score=36.31  Aligned_cols=68  Identities=18%  Similarity=0.227  Sum_probs=40.1

Q ss_pred             hHHHHHHHHHHHcCCCCCHH--HHHHHHHHhcCCCC--hHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcC
Q 041741          588 DEAVRLYKDMIASGVKPDDI--TFVAILTACSHSGL--VDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAG  656 (748)
Q Consensus       588 ~~a~~~~~~m~~~~~~p~~~--~~~~l~~~~~~~~~--~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  656 (748)
                      +.+..+|+.+.+.|+..+..  ....++..+.....  ...+.++++.+ ++.++++....|..++-.-.-.+
T Consensus       160 ~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l-~~~~~kik~~~yp~lGlLall~~  231 (297)
T PF13170_consen  160 ERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNAL-KKNGVKIKYMHYPTLGLLALLED  231 (297)
T ss_pred             HHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHH-HHcCCccccccccHHHHHHhcCC
Confidence            44667777788877766553  33444443332222  34677788877 56688877776666654443333

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=88.13  E-value=22  Score=32.93  Aligned_cols=62  Identities=15%  Similarity=0.017  Sum_probs=41.9

Q ss_pred             HHHHHHHhcCChHHHHHHHhhCC-CCC-C---HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 041741          647 CMIDCLGRAGHFHEAEMLIDEMP-CKD-D---PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS  708 (748)
Q Consensus       647 ~l~~~~~~~g~~~~A~~~~~~~~-~~~-~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  708 (748)
                      .+++-|.+.|.+-.|..-++.+. .-| .   ...+-.+..+|...|-.++|...-+-+-...|+++
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N~p~s~  238 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGANYPDSQ  238 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCc
Confidence            35677888899988888888875 112 2   33444556678888888888877766555556443

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=88.09  E-value=0.77  Score=39.38  Aligned_cols=29  Identities=28%  Similarity=0.372  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHhcCCCCCcchHHHhHHHhh
Q 041741          692 LAKRAAEELFRLDPKNSAPYSLLANIYSS  720 (748)
Q Consensus       692 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  720 (748)
                      +|+.-+++++.++|+...++..+|.+|..
T Consensus        53 dAisK~eeAL~I~P~~hdAlw~lGnA~ts   81 (186)
T PF06552_consen   53 DAISKFEEALKINPNKHDALWCLGNAYTS   81 (186)
T ss_dssp             HHHHHHHHHHHH-TT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHHHH
Confidence            33444444444444444444444444433

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.

>PF04910 Tcf25: Transcriptional repressor TCF25; InterPro: IPR006994 This entry appears to represent a novel family of basic helix-loop-helix (bHLH) proteins that control differentiation and development of a variety of organs [, ]

Probab=87.96  E-value=8.8  Score=38.39  Aligned_cols=70  Identities=17%  Similarity=0.139  Sum_probs=50.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCC-CCcchHHHhHHH-hhcCChHHHHHHHHHHHhc---C-CCCCCCCCC
Q 041741          678 EVLLSSCRLHANVRLAKRAAEELFRLDPK-NSAPYSLLANIY-SSLGRWDDLRAVRELMSEN---C-IVKDPAYSL  747 (748)
Q Consensus       678 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~---~-~~~~~~~~~  747 (748)
                      ...+..+.+.|-+..|.+..+-++.++|. ||.......+.| .+.++++--++..+.....   . ...-|+++|
T Consensus       107 ~r~i~~L~~RG~~rTAlE~~KlLlsLdp~~DP~g~ll~ID~~ALrs~~y~~Li~~~~~~~~~~~~~~~~~lPn~a~  182 (360)
T PF04910_consen  107 FRYIQSLGRRGCWRTALEWCKLLLSLDPDEDPLGVLLFIDYYALRSRQYQWLIDFSESPLAKCYRNWLSLLPNFAF  182 (360)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhcCCCCCcchhHHHHHHHHHhcCCHHHHHHHHHhHhhhhhhhhhhhCccHHH
Confidence            33455677889999999999999999999 888777777776 4557777777777765542   1 223566654

Human Nulp1 (Q2MK75 from SWISSPROT) is a basic helix-loop-helix protein expressed broadly during early embryonic organogenesis. Over expression of human Nulp1 in COS-7 cells inhibits the transcriptional activity of serum response factor (SRF), suggesting that Nulp1 may act as a novel bHLH transcriptional repressor in the SRF signalling pathway to mediate cellular functions [].

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=87.91  E-value=32  Score=34.57  Aligned_cols=54  Identities=6%  Similarity=-0.085  Sum_probs=27.4

Q ss_pred             HHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHh
Q 041741          477 IAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKD  534 (748)
Q Consensus       477 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  534 (748)
                      ..+.-+.|+++...+........  .++...+..+...  ..++.+.+....+.....
T Consensus         5 ~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~   58 (352)
T PF02259_consen    5 AEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQL   58 (352)
T ss_pred             HHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHHH
Confidence            44555677777644433333211  2233333333322  667777777766665543

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=87.85  E-value=46  Score=36.39  Aligned_cols=28  Identities=25%  Similarity=0.315  Sum_probs=17.5

Q ss_pred             HHHhcCChHHHHHHHhhCCCCC-CHhHHH
Q 041741          651 CLGRAGHFHEAEMLIDEMPCKD-DPVIWE  678 (748)
Q Consensus       651 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~  678 (748)
                      -+...|++++|++.++++..-| ++....
T Consensus       514 ~~~~~g~~~~AL~~i~~L~liP~~~~~V~  542 (613)
T PF04097_consen  514 DLYHAGQYEQALDIIEKLDLIPLDPSEVR  542 (613)
T ss_dssp             HHHHTT-HHHHHHHHHHTT-S-S-HHHHH
T ss_pred             HHHHcCCHHHHHHHHHhCCCCCCCHHHHH
Confidence            3567899999999999997444 344333

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.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=87.81  E-value=28  Score=33.76  Aligned_cols=134  Identities=10%  Similarity=0.064  Sum_probs=73.5

Q ss_pred             HHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhc--cC----ChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHH
Q 041741          385 HKEAIKLFREMQFRGVKPDRTTLAIILSSCAA--MG----ILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELA  458 (748)
Q Consensus       385 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~--~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  458 (748)
                      +++.+.+++.|.+.|.+-+..++....-....  ..    ....+..+++.|.+..+-.+                    
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLT--------------------  137 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLT--------------------  137 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCcccc--------------------
Confidence            34556777888888887777666553322222  11    23344455555555443221                    


Q ss_pred             HHHHhhCCCCCcchHHHHHHHHHhCCCc----hHHHHHHHHHHHCCCCCCHH--HHHHHHHhhcCCCC--chhHHHHHHH
Q 041741          459 ERVFHRIPELDIVCWNSMIAGLSLNSLD----IEAFMFFKQMRQNEMYPTQF--SFATVLSSCAKLSS--SFQGRQVHAQ  530 (748)
Q Consensus       459 ~~~~~~~~~~~~~~~~~li~~~~~~~~~----~~a~~~~~~m~~~~~~p~~~--~~~~l~~~~~~~~~--~~~a~~~~~~  530 (748)
                              .++-.++..++..  ..++.    +.+...|+.+.+.|+..+..  ..+.++..+....+  ..++..+++.
T Consensus       138 --------s~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~  207 (297)
T PF13170_consen  138 --------SPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNA  207 (297)
T ss_pred             --------CccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHH
Confidence                    1122233333322  22222    55677788888878776433  34444444443333  3467888888


Q ss_pred             HHHhCCCCchHHHHHHHH
Q 041741          531 IEKDGYVNDIFVGSALIE  548 (748)
Q Consensus       531 ~~~~~~~~~~~~~~~l~~  548 (748)
                      +.+.|+++....|..+.-
T Consensus       208 l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  208 LKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHcCCccccccccHHHH
Confidence            888888887777665543

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=87.77  E-value=57  Score=37.38  Aligned_cols=149  Identities=12%  Similarity=0.115  Sum_probs=77.3

Q ss_pred             ChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHH----hhcCCCCchhHHHHHH
Q 041741          454 RNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLS----SCAKLSSSFQGRQVHA  529 (748)
Q Consensus       454 ~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~----~~~~~~~~~~a~~~~~  529 (748)
                      +++.|+.-+..+.   ...|...+..--++|.+.+|+.++        .|+...+..+..    .+.....++.|.-.|+
T Consensus       895 ry~~AL~hLs~~~---~~~~~e~~n~I~kh~Ly~~aL~ly--------~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye  963 (1265)
T KOG1920|consen  895 RYEDALSHLSECG---ETYFPECKNYIKKHGLYDEALALY--------KPDSEKQKVIYEAYADHLREELMSDEAALMYE  963 (1265)
T ss_pred             HHHHHHHHHHHcC---ccccHHHHHHHHhcccchhhhhee--------ccCHHHHHHHHHHHHHHHHHhccccHHHHHHH
Confidence            3444444443332   333444455555666666666654        344444433332    2333444444444433


Q ss_pred             HHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHH---HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH
Q 041741          530 QIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVT---WNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD  606 (748)
Q Consensus       530 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  606 (748)
                      ..-+.         .--+.+|..+|+|.+|..+..++..+-...   -..|+..+...+++-+|-+++.+...   .|..
T Consensus       964 ~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~s---d~~~ 1031 (1265)
T KOG1920|consen  964 RCGKL---------EKALKAYKECGDWREALSLAAQLSEGKDELVILAEELVSRLVEQRKHYEAAKILLEYLS---DPEE 1031 (1265)
T ss_pred             HhccH---------HHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhc---CHHH
Confidence            32211         123556677778888887777766532222   25677777778888888777777665   2222


Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHH
Q 041741          607 ITFVAILTACSHSGLVDVGVEIFN  630 (748)
Q Consensus       607 ~~~~~l~~~~~~~~~~~~A~~~~~  630 (748)
                           .+..+++...|++|..+..
T Consensus      1032 -----av~ll~ka~~~~eAlrva~ 1050 (1265)
T KOG1920|consen 1032 -----AVALLCKAKEWEEALRVAS 1050 (1265)
T ss_pred             -----HHHHHhhHhHHHHHHHHHH
Confidence                 2233444445555555443

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=87.72  E-value=15  Score=32.84  Aligned_cols=126  Identities=13%  Similarity=0.111  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhh-hhCCCCChhHHHHHHHHH
Q 041741          574 WNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQL-DHGVEPILDHYTCMIDCL  652 (748)
Q Consensus       574 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~  652 (748)
                      .+..+..+.+.+...+++...++-++.+ +-|..+-..+++.++-.|++++|..-++-... .....+....|..++++-
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~e   82 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRCE   82 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHHH
Confidence            3445667778888999999888877763 34445667788899999999999888776521 123334456666666542


Q ss_pred             HhcCChHHHH-HHHhhC--C---CCCCHhHHHHHHHH--HHhcCCHHHHHHHHHHHHhcCCCC
Q 041741          653 GRAGHFHEAE-MLIDEM--P---CKDDPVIWEVLLSS--CRLHANVRLAKRAAEELFRLDPKN  707 (748)
Q Consensus       653 ~~~g~~~~A~-~~~~~~--~---~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~p~~  707 (748)
                      .       +. ++|.--  +   ..|.+.....+...  +..-|.-+.+...-+++++..|..
T Consensus        83 a-------~R~evfag~~~Pgflg~p~p~wva~L~aala~h~dg~gea~~alreqal~aa~~~  138 (273)
T COG4455          83 A-------ARNEVFAGGAVPGFLGGPSPEWVAALLAALALHSDGAGEARTALREQALKAAPVP  138 (273)
T ss_pred             H-------HHHHHhccCCCCCCcCCCCHHHHHHHHHHHhcccCCcchHHHHHHHHHHhhCCCC
Confidence            2       22 223222  1   33555555555544  333345566677777788877753

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.67  E-value=21  Score=32.33  Aligned_cols=144  Identities=10%  Similarity=0.067  Sum_probs=66.0

Q ss_pred             HHHhCCCchHHHHHHHHHHHC-----CCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHh--CCCC--chHHHHHHHHH
Q 041741          479 GLSLNSLDIEAFMFFKQMRQN-----EMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKD--GYVN--DIFVGSALIEM  549 (748)
Q Consensus       479 ~~~~~~~~~~a~~~~~~m~~~-----~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~--~~~~~~~l~~~  549 (748)
                      .+.-.+.+++|.++|.+....     +...--..|.-....+.+.|+-..+-..+-++-+.  ...|  .+.....-|..
T Consensus        23 lfgg~~k~eeAadl~~~Aan~yklaK~w~~AG~aflkaA~~h~k~~skhDaat~YveA~~cykk~~~~eAv~cL~~aieI  102 (288)
T KOG1586|consen   23 LFGGSNKYEEAAELYERAANMYKLAKNWSAAGDAFLKAADLHLKAGSKHDAATTYVEAANCYKKVDPEEAVNCLEKAIEI  102 (288)
T ss_pred             ccCCCcchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHhhccChHHHHHHHHHHHHH
Confidence            344456778888887765321     11111123333334444444433333333333222  1122  12233333444


Q ss_pred             HHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHc-CChhHHHHHHHHHHHc--CCCCCH---HHHHHHHHHhcCCCChH
Q 041741          550 YCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQN-GYGDEAVRLYKDMIAS--GVKPDD---ITFVAILTACSHSGLVD  623 (748)
Q Consensus       550 ~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~m~~~--~~~p~~---~~~~~l~~~~~~~~~~~  623 (748)
                      |...|++..|......           +...|-.. .+++.|+..|++.-+-  |-..+.   .++.-+...-...+++.
T Consensus       103 yt~~Grf~~aAk~~~~-----------iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~  171 (288)
T KOG1586|consen  103 YTDMGRFTMAAKHHIE-----------IAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYS  171 (288)
T ss_pred             HHhhhHHHHHHhhhhh-----------HHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            5555555444433222           22233222 4556666666665542  111111   22333333346678899


Q ss_pred             HHHHHHHHhh
Q 041741          624 VGVEIFNSMQ  633 (748)
Q Consensus       624 ~A~~~~~~~~  633 (748)
                      +|+.+|++..
T Consensus       172 ~Ai~iyeqva  181 (288)
T KOG1586|consen  172 KAIDIYEQVA  181 (288)
T ss_pred             HHHHHHHHHH
Confidence            9999999883

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.66  E-value=51  Score=37.04  Aligned_cols=28  Identities=7%  Similarity=0.246  Sum_probs=24.2

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHHHHC
Q 041741          472 CWNSMIAGLSLNSLDIEAFMFFKQMRQN  499 (748)
Q Consensus       472 ~~~~li~~~~~~~~~~~a~~~~~~m~~~  499 (748)
                      -|..|+..|...|+.++|+++|.+....
T Consensus       506 ~y~~Li~LY~~kg~h~~AL~ll~~l~d~  533 (877)
T KOG2063|consen  506 KYRELIELYATKGMHEKALQLLRDLVDE  533 (877)
T ss_pred             cHHHHHHHHHhccchHHHHHHHHHHhcc
Confidence            4788899999999999999999988764

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.56  E-value=21  Score=32.66  Aligned_cols=166  Identities=10%  Similarity=-0.029  Sum_probs=79.9

Q ss_pred             HHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChH
Q 041741          547 IEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVD  623 (748)
Q Consensus       547 ~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  623 (748)
                      ..+|....++++|...+.+..+   .|...|.       ..+.++.|.-+.+++.+.  +--...|+.....|...|..+
T Consensus        38 AvafRnAk~feKakdcLlkA~~~yEnnrslfh-------AAKayEqaamLake~~kl--sEvvdl~eKAs~lY~E~Gspd  108 (308)
T KOG1585|consen   38 AVAFRNAKKFEKAKDCLLKASKGYENNRSLFH-------AAKAYEQAAMLAKELSKL--SEVVDLYEKASELYVECGSPD  108 (308)
T ss_pred             HHHHHhhccHHHHHHHHHHHHHHHHhcccHHH-------HHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHHHHhCCcc
Confidence            3445555666666655544331   2221111       112234444444444441  111123444555566666666


Q ss_pred             HHHHHHHHhhh-hhCCCCC--hhHHHHHHHHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 041741          624 VGVEIFNSMQL-DHGVEPI--LDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEEL  700 (748)
Q Consensus       624 ~A~~~~~~~~~-~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  700 (748)
                      .|-..+++.-+ .....|+  ...|..-.......++...|.+++.+            ....+.+...+++|-..+.+-
T Consensus       109 tAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk------------~sr~lVrl~kf~Eaa~a~lKe  176 (308)
T KOG1585|consen  109 TAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGK------------CSRVLVRLEKFTEAATAFLKE  176 (308)
T ss_pred             hHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHH------------hhhHhhhhHHhhHHHHHHHHh
Confidence            65555554411 0122333  12222222333333344444444333            445666666776666665554


Q ss_pred             Hhc------CCCCCcchHHHhHHHhhcCChHHHHHHHHH
Q 041741          701 FRL------DPKNSAPYSLLANIYSSLGRWDDLRAVREL  733 (748)
Q Consensus       701 ~~~------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  733 (748)
                      ...      .|.-...+....-+|.-..|+..|.+.++.
T Consensus       177 ~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~  215 (308)
T KOG1585|consen  177 GVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRD  215 (308)
T ss_pred             hhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcc
Confidence            432      232223466667777778899999988875

>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=87.53  E-value=5.9  Score=34.85  Aligned_cols=97  Identities=11%  Similarity=-0.018  Sum_probs=55.3

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH--HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCC--CChhHHHH-
Q 041741          573 TWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDI--TFVAILTACSHSGLVDVGVEIFNSMQLDHGVE--PILDHYTC-  647 (748)
Q Consensus       573 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~~~-  647 (748)
                      .+..++.-|.+.|+.+.|++.+.++.+....|...  .+-.+++.+...+++..+.....++.......  ++...-.. 
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            45556667777777777777777777654444442  34556666667777777776666652211111  11111111 


Q ss_pred             -HHHHHHhcCChHHHHHHHhhCC
Q 041741          648 -MIDCLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       648 -l~~~~~~~g~~~~A~~~~~~~~  669 (748)
                       -+-.+...+++.+|.+.|-...
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHccC
Confidence             1222345688888888877664

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.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=87.26  E-value=7.3  Score=34.12  Aligned_cols=32  Identities=9%  Similarity=0.121  Sum_probs=18.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCcchHHH
Q 041741          683 SCRLHANVRLAKRAAEELFRLDPKNSAPYSLL  714 (748)
Q Consensus       683 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  714 (748)
                      +|-....++.|++-|+++++.+|....+-...
T Consensus       177 ayek~ek~eealeDyKki~E~dPs~~ear~~i  208 (271)
T KOG4234|consen  177 AYEKMEKYEEALEDYKKILESDPSRREAREAI  208 (271)
T ss_pred             HHHhhhhHHHHHHHHHHHHHhCcchHHHHHHH
Confidence            34445566666666666666666544443333

>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=87.24  E-value=18  Score=31.15  Aligned_cols=40  Identities=8%  Similarity=0.198  Sum_probs=25.2

Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhc
Q 041741          323 IELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFD  362 (748)
Q Consensus       323 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  362 (748)
                      .+.++.+...|++|+...+..++..+.+.|+......++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq   53 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQ   53 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHh
Confidence            3455566667777777777777777666666555444443

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=87.03  E-value=8.8  Score=34.84  Aligned_cols=57  Identities=14%  Similarity=0.053  Sum_probs=35.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          680 LLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       680 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      +...+...|++-++++.....+..+|.|..+|+..+.+....=+.++|..-+....+
T Consensus       236 y~QC~L~~~e~yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~  292 (329)
T KOG0545|consen  236 YCQCLLKKEEYYEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNEAEAKADLQKVLE  292 (329)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCHHHHHHHHHHHHh
Confidence            334445556666666666666666666666666666666666666666666655443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=86.98  E-value=54  Score=36.27  Aligned_cols=51  Identities=12%  Similarity=0.160  Sum_probs=28.6

Q ss_pred             HHcCChhHHHHHHHHHHHc----CCCCCHHHHHHHHHHhcCCCChHHHHHHHHHh
Q 041741          582 AQNGYGDEAVRLYKDMIAS----GVKPDDITFVAILTACSHSGLVDVGVEIFNSM  632 (748)
Q Consensus       582 ~~~~~~~~a~~~~~~m~~~----~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~  632 (748)
                      ...|+++.|.++.+.....    -..+....+..+..+..-.|++++|..+.+..
T Consensus       469 l~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a~~~~G~~~~Al~~~~~a  523 (894)
T COG2909         469 LNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEAAHIRGELTQALALMQQA  523 (894)
T ss_pred             HhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHHHHHhchHHHHHHHHHHH
Confidence            3456666666666665543    11122234555555666667777777666655

>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=86.61  E-value=32  Score=33.17  Aligned_cols=18  Identities=11%  Similarity=0.058  Sum_probs=10.8

Q ss_pred             hcCChhHHHHHHHHHHhc
Q 041741          315 QKYQSTKAIELLQRMKSC  332 (748)
Q Consensus       315 ~~~~~~~a~~~~~~m~~~  332 (748)
                      +.|+.+.|..++.+....
T Consensus         5 ~~~~~~~A~~~~~K~~~~   22 (278)
T PF08631_consen    5 KQGDLDLAEHMYSKAKDL   22 (278)
T ss_pred             hhCCHHHHHHHHHHhhhH
Confidence            456666666666666543

It is also involved in sporulation [].

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.51  E-value=0.98  Score=28.04  Aligned_cols=28  Identities=29%  Similarity=0.411  Sum_probs=23.0

Q ss_pred             cchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          709 APYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       709 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .++..|+.+|...|++++|+.++++..+
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            3577899999999999999999998765

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=86.40  E-value=6.8  Score=39.16  Aligned_cols=142  Identities=16%  Similarity=0.170  Sum_probs=95.0

Q ss_pred             HHHHHHcCChhHHH-HHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcC
Q 041741          578 IHGYAQNGYGDEAV-RLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAG  656 (748)
Q Consensus       578 ~~~~~~~~~~~~a~-~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  656 (748)
                      |.-....|+.-.|- +++.-+....-.|+...+...+  +...|+++.+...+....  .-+-....+...+++...+.|
T Consensus       296 i~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i--~~~lg~ye~~~~~~s~~~--~~~~s~~~~~~~~~r~~~~l~  371 (831)
T PRK15180        296 ITKQLADGDIIAASQQLFAALRNQQQDPVLIQLRSVI--FSHLGYYEQAYQDISDVE--KIIGTTDSTLRCRLRSLHGLA  371 (831)
T ss_pred             HHHHhhccCHHHHHHHHHHHHHhCCCCchhhHHHHHH--HHHhhhHHHHHHHhhchh--hhhcCCchHHHHHHHhhhchh
Confidence            34445567776665 4555555544455555444443  567899999998887763  223344566778888889999


Q ss_pred             ChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-CCcchHHHhHH-HhhcCC
Q 041741          657 HFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK-NSAPYSLLANI-YSSLGR  723 (748)
Q Consensus       657 ~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~-~~~~g~  723 (748)
                      ++++|...-.-|.  .-.++.+......+....|-++++...+++++.++|+ +..+...|... |+.-|+
T Consensus       372 r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~~g~v~~~~~~~~~~~~~  442 (831)
T PRK15180        372 RWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQSGWVNFLSSTQYFNDGN  442 (831)
T ss_pred             hHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhccCChhcccceeeeccceeccCcc
Confidence            9999999888885  2235666555566677788899999999999999875 44454444443 444443

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=86.16  E-value=2.6  Score=37.35  Aligned_cols=66  Identities=15%  Similarity=0.060  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhC-CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 041741          644 HYTCMIDCLGRAGHFHEAEMLIDEM-PCKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSA  709 (748)
Q Consensus       644 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  709 (748)
                      +....+..+.+.+..++|+...+.- ..+| +...-..++..++..|++++|..-++-+-++.|++..
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~   70 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTV   70 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccch
Confidence            3445667788889999999887654 3555 5667778888889999999999999999999997543

>smart00028 TPR Tetratricopeptide repeats

Probab=86.13  E-value=1.5  Score=24.81  Aligned_cols=27  Identities=22%  Similarity=0.123  Sum_probs=12.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          679 VLLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       679 ~l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      .+...+...|+++.|...++++++.+|
T Consensus         6 ~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        6 NLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            333344444444444444444444444

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=85.90  E-value=4.8  Score=33.49  Aligned_cols=93  Identities=17%  Similarity=0.215  Sum_probs=56.5

Q ss_pred             HHHHHHHHH---hcCCCChHHHHHHHHHhhhhhCCCCC---hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCHhHHHH
Q 041741          607 ITFVAILTA---CSHSGLVDVGVEIFNSMQLDHGVEPI---LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDPVIWEV  679 (748)
Q Consensus       607 ~~~~~l~~~---~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~  679 (748)
                      ...+.|+..   -...++.+++..++..|.   -+.|+   ..++  -+..+...|++++|..+++++. ..+....-..
T Consensus         8 ~iv~gLi~~~~~aL~~~d~~D~e~lLdALr---vLrP~~~e~d~~--dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kA   82 (153)
T TIGR02561         8 RLLGGLIEVLMYALRSADPYDAQAMLDALR---VLRPNLKELDMF--DGWLLIARGNYDEAARILRELLSSAGAPPYGKA   82 (153)
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHH---HhCCCccccchh--HHHHHHHcCCHHHHHHHHHhhhccCCCchHHHH
Confidence            344444443   355789999999999885   44555   4444  3455778999999999999997 3334344444


Q ss_pred             HHHHHH-hcCCHHHHHHHHHHHHhcCC
Q 041741          680 LLSSCR-LHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       680 l~~~~~-~~~~~~~a~~~~~~~~~~~p  705 (748)
                      |...|. ..||++ =......+++..+
T Consensus        83 L~A~CL~al~Dp~-Wr~~A~~~le~~~  108 (153)
T TIGR02561        83 LLALCLNAKGDAE-WHVHADEVLARDA  108 (153)
T ss_pred             HHHHHHHhcCChH-HHHHHHHHHHhCC
Confidence            554444 445443 2344444444444

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=85.72  E-value=1.5  Score=27.76  Aligned_cols=26  Identities=27%  Similarity=0.327  Sum_probs=21.3

Q ss_pred             HHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          712 SLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       712 ~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      ..|+.+|...||.+.|++.+++..+.
T Consensus         3 LdLA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         3 LDLARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             hHHHHHHHHcCChHHHHHHHHHHHHc
Confidence            46888899999999999988887753

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PRK12798 chemotaxis protein; Reviewed

Probab=84.95  E-value=45  Score=33.46  Aligned_cols=179  Identities=12%  Similarity=0.111  Sum_probs=119.1

Q ss_pred             cCCHHHHHHHhhhcCC----CCHHHHHHHHHHHH-HcCChhHHHHHHHHHHHcCCCCCHH----HHHHHHHHhcCCCChH
Q 041741          553 CGDIYGARQFFDMMHG----KNTVTWNEMIHGYA-QNGYGDEAVRLYKDMIASGVKPDDI----TFVAILTACSHSGLVD  623 (748)
Q Consensus       553 ~g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~-~~~~~~~a~~~~~~m~~~~~~p~~~----~~~~l~~~~~~~~~~~  623 (748)
                      .|+-.+|.+.+..+..    +....+-.|+.+-. ...+..+|+++|+...=.  .|-..    .+..-+......|+.+
T Consensus       125 ~Gr~~~a~~~La~i~~~~l~~~lg~~laLv~a~l~~~~dP~~Al~~lD~aRLl--aPGTLvEEAALRRsi~la~~~g~~~  202 (421)
T PRK12798        125 SGRGREARKLLAGVAPEYLPAELGAYLALVQGNLMVATDPATALKLLDQARLL--APGTLVEEAALRRSLFIAAQLGDAD  202 (421)
T ss_pred             cCCHHHHHHHhhcCChhhcCchhhhHHHHHHHHHhcccCHHHHHHHHHHHHHh--CCchHHHHHHHHHhhHHHHhcCcHH
Confidence            5888888888888763    34556666666544 456889999999987763  55543    3444455667889999


Q ss_pred             HHHHHHHHhhhhhCCCCChhHHH-HHHHHHHhcCC---hHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHH
Q 041741          624 VGVEIFNSMQLDHGVEPILDHYT-CMIDCLGRAGH---FHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEE  699 (748)
Q Consensus       624 ~A~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  699 (748)
                      ++..+-.+-...+...|-...|. .++..+.+.++   .+.-..++..|.......+|..+.......|+.+.|.-..++
T Consensus       203 rf~~la~~Y~rRF~~S~YA~~F~~~F~~~~~~~~d~~~~~~l~~~ls~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~  282 (421)
T PRK12798        203 KFEALARNYLRRFRHSPYASQFAQRFVDLVVRLDDEIRDARLVEILSFMDPERQRELYLRIARAALIDGKTELARFASER  282 (421)
T ss_pred             HHHHHHHHHHHHhccCchHHHHHHHHHHHHHhccccccHHHHHHHHHhcCchhHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            88887776666777777655444 34444554443   334444555555233456777888888889999999999999


Q ss_pred             HHhcCCCCCcchHHHhHHH-----hhcCChHHHHHHHHHH
Q 041741          700 LFRLDPKNSAPYSLLANIY-----SSLGRWDDLRAVRELM  734 (748)
Q Consensus       700 ~~~~~p~~~~~~~~l~~~~-----~~~g~~~~A~~~~~~~  734 (748)
                      +..+.+ ....-...+.+|     .-..+.++|.+.++.+
T Consensus       283 A~~L~~-~~~~~~~ra~LY~aaa~v~s~~~~~al~~L~~I  321 (421)
T PRK12798        283 ALKLAD-PDSADAARARLYRGAALVASDDAESALEELSQI  321 (421)
T ss_pred             HHHhcc-CCCcchHHHHHHHHHHccCcccHHHHHHHHhcC
Confidence            999874 344444444444     3446677777777654

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=84.55  E-value=7.7  Score=34.14  Aligned_cols=60  Identities=18%  Similarity=0.192  Sum_probs=33.7

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCc--chHHHHHHHhccccCcHHHhHHHHHH
Q 041741           87 SWNNLISALVRNGLEEKALSVYNKMSNEGFVPTH--ITLASVFKASTALLDVEHGRRCHGLV  146 (748)
Q Consensus        87 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~  146 (748)
                      .+..+..-|.+.|+.+.|++.|.++++....|..  ..+..+++.....+++..+.......
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            4666777777777777777777777765433321  23344444444445554444444333

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.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=84.06  E-value=15  Score=28.23  Aligned_cols=60  Identities=18%  Similarity=0.320  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHH
Q 041741          589 EAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMID  650 (748)
Q Consensus       589 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  650 (748)
                      +..+-++.+....+.|++......+++|.+.+++..|+++++.+..+.+.+  ...|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~--~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNK--KEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCh--HHHHHHHHH
Confidence            355666666777788888888888888888888888888888885444433  335655554

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 ....

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=83.99  E-value=55  Score=33.65  Aligned_cols=173  Identities=10%  Similarity=0.061  Sum_probs=94.5

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHhhhcCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHh
Q 041741          539 DIFVGSALIEMYCKCGDIYGARQFFDMMHG--KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTAC  616 (748)
Q Consensus       539 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  616 (748)
                      +-...-+++..+...-++.-.+.+..++..  .+-..|..++++|..+ ..+.-..+|+++.+..  -|......-+..+
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en-~n~~l~~lWer~ve~d--fnDvv~~ReLa~~  141 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVEYD--FNDVVIGRELADK  141 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHhc--chhHHHHHHHHHH
Confidence            334444555566655555555555555542  4555677777777777 4566777777777753  3333333333333


Q ss_pred             cCCCChHHHHHHHHHhhhhhCCCCC------hhHHHHHHHHHHhcCChHHHHHHHhhCC----CCCCHhHHHHHHHHHHh
Q 041741          617 SHSGLVDVGVEIFNSMQLDHGVEPI------LDHYTCMIDCLGRAGHFHEAEMLIDEMP----CKDDPVIWEVLLSSCRL  686 (748)
Q Consensus       617 ~~~~~~~~A~~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~~l~~~~~~  686 (748)
                      ...++.+++..+|.++..  .+.|.      ...|..+...  -..+.+....+..++.    .......+..+-.-|..
T Consensus       142 yEkik~sk~a~~f~Ka~y--rfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~  217 (711)
T COG1747         142 YEKIKKSKAAEFFGKALY--RFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSE  217 (711)
T ss_pred             HHHhchhhHHHHHHHHHH--HhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcc
Confidence            333677777777777632  22331      1123323221  1345555555555553    11223333444445666


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCcchHHHhHHH
Q 041741          687 HANVRLAKRAAEELFRLDPKNSAPYSLLANIY  718 (748)
Q Consensus       687 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  718 (748)
                      ..++.+|.++++..++.+.+|..+...+..-+
T Consensus       218 ~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~l  249 (711)
T COG1747         218 NENWTEAIRILKHILEHDEKDVWARKEIIENL  249 (711)
T ss_pred             ccCHHHHHHHHHHHhhhcchhhhHHHHHHHHH
Confidence            67788888888887777777766655554443

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=83.81  E-value=2.4  Score=43.33  Aligned_cols=128  Identities=13%  Similarity=0.030  Sum_probs=82.6

Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC
Q 041741          590 AVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       590 a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  669 (748)
                      +-.++.-|... +.|--.++|...-.....|+...|...+...........++ ....|+..+.+.|...+|-.++.+..
T Consensus       592 ~~~~~~~~~~~-~~p~w~~ln~aglywr~~gn~~~a~~cl~~a~~~~p~~~~v-~~v~la~~~~~~~~~~da~~~l~q~l  669 (886)
T KOG4507|consen  592 GSFLFHAINKP-NAPIWLILNEAGLYWRAVGNSTFAIACLQRALNLAPLQQDV-PLVNLANLLIHYGLHLDATKLLLQAL  669 (886)
T ss_pred             HHHHHHHhcCC-CCCeEEEeecccceeeecCCcHHHHHHHHHHhccChhhhcc-cHHHHHHHHHHhhhhccHHHHHHHHH
Confidence            44444444432 23333344433333455688888888877664332222222 34567777888888888887765543


Q ss_pred             --CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHh
Q 041741          670 --CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYS  719 (748)
Q Consensus       670 --~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  719 (748)
                        ....|.+...+...+....++++|++.+++++.++|+++.+...|..+-.
T Consensus       670 ~~~~sepl~~~~~g~~~l~l~~i~~a~~~~~~a~~~~~~~~~~~~~l~~i~c  721 (886)
T KOG4507|consen  670 AINSSEPLTFLSLGNAYLALKNISGALEAFRQALKLTTKCPECENSLKLIRC  721 (886)
T ss_pred             hhcccCchHHHhcchhHHHHhhhHHHHHHHHHHHhcCCCChhhHHHHHHHHH
Confidence              33456777778888888889999999999999999988888766655433

>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=83.59  E-value=1.3e+02  Score=37.72  Aligned_cols=108  Identities=11%  Similarity=0.048  Sum_probs=70.3

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--C--------CCCHhH
Q 041741          607 ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--C--------KDDPVI  676 (748)
Q Consensus       607 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~--------~~~~~~  676 (748)
                      .+|....+.....|.++.|...+-... +.. .  ...+...++.+...|+...|+.++++..  .        ++.|..
T Consensus      1671 e~wLqsAriaR~aG~~q~A~nall~A~-e~r-~--~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~~~~~~~~~~~p~~ 1746 (2382)
T KOG0890|consen 1671 ECWLQSARIARLAGHLQRAQNALLNAK-ESR-L--PEIVLERAKLLWQTGDELNALSVLQEILSKNFPDLHTPYTDTPQS 1746 (2382)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHhhh-hcc-c--chHHHHHHHHHHhhccHHHHHHHHHHHHHhhcccccCCccccchh
Confidence            568888888888999998887765552 222 2  3446667888889999999998887652  1        112332


Q ss_pred             HHHHHHH---------HHhcCC--HHHHHHHHHHHHhcCCCCCcchHHHhHHH
Q 041741          677 WEVLLSS---------CRLHAN--VRLAKRAAEELFRLDPKNSAPYSLLANIY  718 (748)
Q Consensus       677 ~~~l~~~---------~~~~~~--~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  718 (748)
                      .+.++..         ....|+  .+.....|..+.+..|+....++++|.-|
T Consensus      1747 ~n~~i~~~~~L~~~~~~~es~n~~s~~ilk~Y~~~~ail~ewe~~hy~l~~yy 1799 (2382)
T KOG0890|consen 1747 VNLLIFKKAKLKITKYLEESGNFESKDILKYYHDAKAILPEWEDKHYHLGKYY 1799 (2382)
T ss_pred             hhhhhhhhHHHHHHHHHHHhcchhHHHHHHHHHHHHHHcccccCceeeHHHHH
Confidence            2222211         122333  35567888999999998878888887443

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=83.08  E-value=78  Score=34.76  Aligned_cols=194  Identities=11%  Similarity=0.110  Sum_probs=110.6

Q ss_pred             CCCCCcchhhHHHHHHHccCCchhhhhhhhcCCCCchhhhhHHHHHhh-cCCChhHHHHhhccCCC----CCch-----h
Q 041741           18 GLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQC-KSDDLEFAYKLFDEMPE----RNVV-----S   87 (748)
Q Consensus        18 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~----~~~~-----~   87 (748)
                      .-+.+...|..||..-.++  .+.+.+-+.--+..+..++..+.+.+. ...+++.|...+++...    ++..     .
T Consensus        25 ~~~~~l~~Y~kLI~~ai~C--L~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~  102 (608)
T PF10345_consen   25 KSEEQLKQYYKLIATAIKC--LEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRC  102 (608)
T ss_pred             CChhhHHHHHHHHHHHHHH--HHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            3344666788888776665  222222111111234556777777776 67889999988886532    2221     1


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchH----HHH-HHHhccccCcHHHhHHHHHHHHHC---CCCcHhHHH
Q 041741           88 WNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITL----ASV-FKASTALLDVEHGRRCHGLVIKIG---LDKNIYVAN  159 (748)
Q Consensus        88 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~----~~l-l~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~  159 (748)
                      ...+++.+.+.+... |...+++..+.--......|    ..+ +..+...+|...|.+.++.+...-   ..|-..++-
T Consensus       103 ~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~  181 (608)
T PF10345_consen  103 QFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLA  181 (608)
T ss_pred             HHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHH
Confidence            234566666666555 88888887664212112222    222 222223378888888888777654   455556666


Q ss_pred             HHHHHHHh--cCChhhHHHHHhcCC----C---------CCeehHHHHHHHH--HcCCCHHHHHHHHHHHHH
Q 041741          160 ALLSLYAK--CGWTKHAVPVFEEMS----E---------PNEVTFTAMMSGL--AKTDRVVEALEMFRLMIR  214 (748)
Q Consensus       160 ~li~~~~~--~g~~~~a~~~~~~~~----~---------~~~~~~~~li~~~--~~~g~~~~a~~~~~~m~~  214 (748)
                      .++.+...  .+..+++.+.++++.    .         |...+|..++..+  ...|++..+...++++.+
T Consensus       182 ~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~  253 (608)
T PF10345_consen  182 SLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQ  253 (608)
T ss_pred             HHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            66666553  454556666555441    1         2344566666544  467787777777766654

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 [].

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=83.06  E-value=52  Score=35.52  Aligned_cols=79  Identities=18%  Similarity=0.111  Sum_probs=37.1

Q ss_pred             ChHHHHHHHhhCCCCCCHhHHHHHHHHHH----hcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhc-CChHHHHHHH
Q 041741          657 HFHEAEMLIDEMPCKDDPVIWEVLLSSCR----LHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSL-GRWDDLRAVR  731 (748)
Q Consensus       657 ~~~~A~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~  731 (748)
                      +...|.++|......-.......+...+.    ...+.+.|...++++-+.+  ++.+...++..+.-. ++++.+.-.+
T Consensus       343 d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g--~~~A~~~~~~~~~~g~~~~~~~~~~~  420 (552)
T KOG1550|consen  343 DYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAYYKKAAEKG--NPSAAYLLGAFYEYGVGRYDTALALY  420 (552)
T ss_pred             cHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc--ChhhHHHHHHHHHHccccccHHHHHH
Confidence            44566666665542222222222222221    1225666666666666655  334444444443222 5666555555


Q ss_pred             HHHHhc
Q 041741          732 ELMSEN  737 (748)
Q Consensus       732 ~~~~~~  737 (748)
                      ..+.+.
T Consensus       421 ~~~a~~  426 (552)
T KOG1550|consen  421 LYLAEL  426 (552)
T ss_pred             HHHHHh
Confidence            544443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=82.44  E-value=9.6  Score=28.89  Aligned_cols=63  Identities=11%  Similarity=0.010  Sum_probs=44.6

Q ss_pred             ChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHH
Q 041741          100 LEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLS  163 (748)
Q Consensus       100 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  163 (748)
                      +.-++.+-++.+....+.|++....+.+++|.+.+|+..|.++++-.+..... ....|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~-~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA-HKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC-chhhHHHHHH
Confidence            34456677777777778888888888899998889999888888877643211 2334555443

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.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=81.95  E-value=9.5  Score=28.91  Aligned_cols=59  Identities=19%  Similarity=0.322  Sum_probs=40.4

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHH
Q 041741          589 EAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMI  649 (748)
Q Consensus       589 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  649 (748)
                      ++.+-++.+....+.|++....+.+++|-+.+++..|+.+++....+.+.  +...|..++
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~l   83 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYIL   83 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHH
Confidence            45566666777777888888888888888888888888888877323332  333454444

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.

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=81.58  E-value=5.4  Score=36.34  Aligned_cols=63  Identities=14%  Similarity=0.083  Sum_probs=39.4

Q ss_pred             hHHHHHHHHHHhcCCHHH-------HHHHHHHHHhcCC--C----CCcchHHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          675 VIWEVLLSSCRLHANVRL-------AKRAAEELFRLDP--K----NSAPYSLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       675 ~~~~~l~~~~~~~~~~~~-------a~~~~~~~~~~~p--~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      ..+..+.+.|+..|+.+.       |.+.|+++.+...  .    .....+.+|.++.+.|+.++|.+.+.++...
T Consensus       119 ~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~  194 (214)
T PF09986_consen  119 GLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGS  194 (214)
T ss_pred             HHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcC
Confidence            344556666777776443       4444444444332  1    1345777888888888888888888887653

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=80.19  E-value=9.3  Score=29.32  Aligned_cols=60  Identities=12%  Similarity=0.052  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHH
Q 041741          103 KALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLS  163 (748)
Q Consensus       103 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  163 (748)
                      +..+-++.+....+.|++......+++|.+.+|+..|.++++.++..-.. ....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~-~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGN-KKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT--TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC-hHHHHHHHHH
Confidence            55666777777778888888888888888888888888888877655322 2225555554

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 ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	748
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-14
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-07

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 76.4 bits (186), Expect = 2e-14
 Identities = 26/188 (13%), Positives = 52/188 (27%), Gaps = 7/188 (3%)

Query: 494 KQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKC 553
              RQ    P +   A +L       S    +    Q  +           A  +     
Sbjct: 81  DCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLT 140

Query: 554 GDIYGARQFFDMMHGK-------NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD 606
             +  A     + HG+           +N ++ G+A+ G   E V +   +  +G+ PD 
Sbjct: 141 DQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDL 200

Query: 607 ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLID 666
           +++ A L            +E         G++        ++    RA        +  
Sbjct: 201 LSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKP 260

Query: 667 EMPCKDDP 674
                   
Sbjct: 261 TFSLPPQL 268

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 60.6 bits (145), Expect = 1e-09
 Identities = 22/190 (11%), Positives = 51/190 (26%), Gaps = 12/190 (6%)

Query: 262 LTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPER-------SVVSWNVMIAGYG 314
              +           +          +  A  +      +       ++  +N ++ G+ 
Sbjct: 117 QHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWA 176

Query: 315 QKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSG-DIKTGREMFDSM----PSPSV 369
           ++    + + +L  +K  G  PD ++    L    R   D  T     + M         
Sbjct: 177 RQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQA 236

Query: 370 SSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAA 429
                +LS   ++   K   K+          P     + +L    A     S  ++H  
Sbjct: 237 LFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLP 296

Query: 430 SLKTASHIDN 439
                   + 
Sbjct: 297 LKTLQCLFEK 306

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 60.6 bits (145), Expect = 2e-09
 Identities = 11/111 (9%), Positives = 32/111 (28%), Gaps = 7/111 (6%)

Query: 315 QKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSM-------PSP 367
            K           +         +   +     C+ +  +     +              
Sbjct: 104 GKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLL 163

Query: 368 SVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMG 418
           ++  +NA++  +++    KE + +   ++  G+ PD  + A  L       
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQD 214

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 57.5 bits (137), Expect = 1e-08
 Identities = 22/230 (9%), Positives = 69/230 (30%), Gaps = 9/230 (3%)

Query: 488 EAFMFFKQMRQNEMYPTQFSFATVLSSCAK---LSSSFQGRQVHAQIEKDGYVNDIFVGS 544
                  Q  Q ++   Q         C     L  +     VH    +   +  + + +
Sbjct: 110 VEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYN 169

Query: 545 ALIEMYCKCGDIYGARQFFDMMHGK----NTVTWNEMIHGYAQNGYGDEAV-RLYKDMIA 599
           A++  + + G          M+       + +++   +    +       + R  + M  
Sbjct: 170 AVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQ 229

Query: 600 SGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFH 659
            G+K   +    +L+    + ++    ++  +  L   + P ++    + D   + G   
Sbjct: 230 EGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVS 289

Query: 660 EAEMLIDEMPCKDDPVIWEVLLSSCRLHA-NVRLAKRAAEELFRLDPKNS 708
             ++ +     +        +  + R+   +V      ++E+        
Sbjct: 290 YPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKEVKHARKTLK 339

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 54.4 bits (129), Expect = 1e-07
 Identities = 26/181 (14%), Positives = 61/181 (33%), Gaps = 14/181 (7%)

Query: 73  AYKLFDEMPERNVVSWNNLISALVRNGL----EEKALSVYNKMSNEGFVPTHITLASVFK 128
           A  L D   +     W   ++ L++        +   +   + S          L + FK
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 129 ASTALLDVEHG----RRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSE- 183
                  +          HG   K      + + NA++  +A+ G  K  V V   + + 
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQK-RKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDA 194

Query: 184 ---PNEVTFTAMMSGLAKTDRVVEALE-MFRLMIRKAVSIDSVSLSSVLGVCAREGCGVE 239
              P+ +++ A +  + + D+    +E     M ++ + + ++  + +L    R      
Sbjct: 195 GLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKA 254

Query: 240 S 240
            
Sbjct: 255 V 255

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 44.0 bits (102), Expect = 2e-04
 Identities = 12/112 (10%), Positives = 34/112 (30%), Gaps = 12/112 (10%)

Query: 29  LIELYSKCNNTHSAQHLFDKM-------PHKDIYSWNAILSAQCKSDDLEFAYKLFDEMP 81
             +     +    A HL               +  +NA++    +    +    +   + 
Sbjct: 133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVK 192

Query: 82  ER----NVVSWNNLISALVRNGLEEKALSVY-NKMSNEGFVPTHITLASVFK 128
           +     +++S+   +  + R   +   +     +MS EG     +  A +  
Sbjct: 193 DAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLS 244

>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 = 53.7 bits (128), Expect = 2e-07
 Identities = 71/515 (13%), Positives = 150/515 (29%), Gaps = 130/515 (25%)

Query: 31  ELYSKC-NNTHSAQHLFDKM-------------------PHKDIY---------SWNAIL 61
            +Y +  +  ++   +F K                    P K++          +W   +
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW---V 166

Query: 62  SAQ-CKSDDLE--FAYKLF------DEMPERNVVSWNNLISALVRNGLEEKALSVYNKMS 112
           +   C S  ++    +K+F         PE  +     L+  +  N       S   K+ 
Sbjct: 167 ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLR 226

Query: 113 NEGFVPTHITLASVFKASTALL---DVEHGR-------RCHGLVIKIGLDKNIYVANALL 162
                     L         LL   +V++ +        C  L+      +   V + L 
Sbjct: 227 IHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTT----RFKQVTDFLS 282

Query: 163 SLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMI--------R 214
           +                   + + +T T             E   +    +        R
Sbjct: 283 AATTT-----------HISLDHHSMTLTPD-----------EVKSLLLKYLDCRPQDLPR 320

Query: 215 KAVSIDSVSLSSVLGVCAREGCG-------VESD----VFAQSDNKFSRNVHGQQVHCLT 263
           + ++ +   LS ++    R+G         V  D    +   S N      + +    L+
Sbjct: 321 EVLTTNPRRLS-IIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS 379

Query: 264 IKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAI 323
           +   F    H+   LL +   +       V+ + L + S+V          Q  +ST +I
Sbjct: 380 V---FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVE--------KQPKESTISI 428

Query: 324 ELLQRMKSCGFEPDEVTSI-NMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQS 382
             +        + +   ++   +V       I    +  D +P      + + +  + ++
Sbjct: 429 PSIYLELKV--KLENEYALHRSIVDHYN---IPKTFDSDDLIPPYLDQYFYSHIGHHLKN 483

Query: 383 ENHKEAIKLFREM----QFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHI- 437
             H E + LFR +    +F   K    + A      A+  IL + +Q+         +I 
Sbjct: 484 IEHPERMTLFRMVFLDFRFLEQKIRHDSTAW----NASGSILNTLQQLK----FYKPYIC 535

Query: 438 DNY-VASGLIGIYSKCQRNELAERVFHRIPELDIV 471
           DN      L+            E         D++
Sbjct: 536 DNDPKYERLVNAILDFLPK--IEENLICSKYTDLL 568

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	748
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	99.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.94
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.93
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.91
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.9
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.89
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.88
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.88
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.87
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.87
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.86
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.83
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.81
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.79
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.78
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.78
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.77
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.75
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.74
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.74
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.73
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.73
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.71
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.71
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.7
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.7
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.7
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.69
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.67
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.66
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.63
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.62
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.6
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.6
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.59
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.55
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.54
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.54
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.54
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.54
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.53
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.52
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.51
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.51
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.5
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.5
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.5
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.49
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.48
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.47
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.46
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.46
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.46
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.45
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.44
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.44
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.44
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.43
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.37
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.37
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.37
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.32
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.32
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.32
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.31
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.31
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.29
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.29
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.28
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.28
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.26
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.25
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.25
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.25
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.24
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.23
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.22
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.19
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.18
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.13
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.12
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.08
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.07
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.07
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.07
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.06
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.06
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.06
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.02
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.01
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.0
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.0
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.99
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.98
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.98
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.98
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.97
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.95
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.92
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.92
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.91
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.89
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.87
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.87
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.86
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.84
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.84
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.84
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.83
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.79
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.79
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.77
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.77
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.76
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.75
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.75
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.72
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.69
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.69
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.66
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.66
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.66
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.65
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.64
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.62
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.61
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.59
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.59
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.59
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.59
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.59
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.58
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.58
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.57
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.57
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.57
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.56
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.55
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.53
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.52
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.52
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.49
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.49
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.48
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.44
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.44
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.42
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.42
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.42
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.41
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.41
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.4
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.38
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.38
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.38
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.37
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.37
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.36
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.32
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.32
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.31
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.3
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.28
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.28
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.27
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.27
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.27
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.25
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.19
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.19
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.18
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.17
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.16
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.16
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.15
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.14
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.13
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.13
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	98.13
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.13
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.13
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.11
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.1
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.09
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.05
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.02
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.0
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.99
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.99
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.97
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.96
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.92
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.92
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.9
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.89
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.88
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.87
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.83
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.81
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.74
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.62
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.59
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.54
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.53
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.49
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.44
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.41
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.37
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.31
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.22
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.2
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.99
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.97
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.93
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	96.85
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.79
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.63
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.59
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.54
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.47
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.36
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.33
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.3
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.13
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.83
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.71
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.69
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.35
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.21
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.18
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.82
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.81
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.34
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.33
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	94.12
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.11
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	93.65
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	93.52
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.34
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	90.96
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	90.94
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	90.87
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	90.66
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	90.58
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	90.36
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	90.33
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	89.47
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	89.1
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	88.56
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	85.74
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	85.52
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	83.94
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	83.43
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	82.59
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	82.54
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	81.75
2p58_C	116	Putative type III secretion protein YSCG; type III	80.5
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	80.36

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=8.2e-38  Score=341.40  Aligned_cols=500  Identities=7%  Similarity=-0.049  Sum_probs=350.7

Q ss_pred             hhcCCChhHHHHhhccCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHH
Q 041741           64 QCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCH  143 (748)
Q Consensus        64 ~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  143 (748)
                      ....+.+..+...+..++.+++..|+.++..+.+.|++++|+.+|++|..  ..|+..++..+..++.+.|+++.|..++
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~  140 (597)
T 2xpi_A           63 TSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCLL  140 (597)
T ss_dssp             -------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHHH
Confidence            45567777888888888888899999999999999999999999999985  5678889999999999999999999999


Q ss_pred             HHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCCC-------------------CeehHHHHHHHHHcCCCHHH
Q 041741          144 GLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEP-------------------NEVTFTAMMSGLAKTDRVVE  204 (748)
Q Consensus       144 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-------------------~~~~~~~li~~~~~~g~~~~  204 (748)
                      +.+...  +++..+++.++.+|.+.|++++|.++|+++...                   +..+|+.++..|.+.|++++
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            987543  678889999999999999999999999965432                   25567777777777777777


Q ss_pred             HHHHHHHHHHcCCCCCcccHHHHHHHHhccCCCCCcchhcccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHh
Q 041741          205 ALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAK  284 (748)
Q Consensus       205 a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~  284 (748)
                      |+++|++|.+.+  |+..+.                                                            
T Consensus       219 A~~~~~~~~~~~--p~~~~~------------------------------------------------------------  236 (597)
T 2xpi_A          219 AKECYKEALMVD--AKCYEA------------------------------------------------------------  236 (597)
T ss_dssp             HHHHHHHHHHHC--TTCHHH------------------------------------------------------------
T ss_pred             HHHHHHHHHHhC--chhhHH------------------------------------------------------------
Confidence            777777776542  221111                                                            


Q ss_pred             cCChhHHHHHhccCCCCCcccHHHHHHHHHhcCChh--HHHHH-HHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHh
Q 041741          285 NGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQST--KAIEL-LQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMF  361 (748)
Q Consensus       285 ~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~-~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  361 (748)
                                           +..+...+...+..+  .+..+ +..+...+..+...+|..++..|.+.|++++|.++|
T Consensus       237 ---------------------~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~  295 (597)
T 2xpi_A          237 ---------------------FDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYL  295 (597)
T ss_dssp             ---------------------HHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHH
T ss_pred             ---------------------HHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHH
Confidence                                 111111110000000  00011 233333333444445555566666777777777777


Q ss_pred             ccCCC--CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchh
Q 041741          362 DSMPS--PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDN  439 (748)
Q Consensus       362 ~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  439 (748)
                      +.+..  ++..+++.++..|.+.|++++|+++|+++.+.+  |+                                    
T Consensus       296 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~------------------------------------  337 (597)
T 2xpi_A          296 SSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID--PY------------------------------------  337 (597)
T ss_dssp             HTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT------------------------------------
T ss_pred             HHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC--cc------------------------------------
Confidence            77765  666777777777777777777777777776542  11                                    


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCC
Q 041741          440 YVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLS  519 (748)
Q Consensus       440 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~  519 (748)
                                                   +..+++.++.++.+.|++++|..+++++.... +.+..++..++..|.+.|
T Consensus       338 -----------------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g  387 (597)
T 2xpi_A          338 -----------------------------NLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVN  387 (597)
T ss_dssp             -----------------------------CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTT
T ss_pred             -----------------------------cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhc
Confidence                                         33344455555555555555555555555331 334555556666666666


Q ss_pred             CchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHH
Q 041741          520 SSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKD  596 (748)
Q Consensus       520 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~  596 (748)
                      ++++|..+|+.+.+.. +.+..+++.++.+|.+.|++++|.++|+++.+   ++..+|..++.+|.+.|++++|.++|++
T Consensus       388 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  466 (597)
T 2xpi_A          388 KISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQS  466 (597)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6666666666665543 33566777888888888888888888887652   4778888899999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhh---CCCCC--hhHHHHHHHHHHhcCChHHHHHHHhhCC--
Q 041741          597 MIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDH---GVEPI--LDHYTCMIDCLGRAGHFHEAEMLIDEMP--  669 (748)
Q Consensus       597 m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~--  669 (748)
                      +.+.. +.+..+|..++..|.+.|++++|+.+|+++....   +..|+  ..++..++.+|.+.|++++|.+.++++.  
T Consensus       467 ~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  545 (597)
T 2xpi_A          467 SYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLL  545 (597)
T ss_dssp             HHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            98863 5567889999999999999999999999885332   55777  6789999999999999999999998875  


Q ss_pred             CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhh
Q 041741          670 CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS  720 (748)
Q Consensus       670 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  720 (748)
                      .+.++.+|..++..|...|++++|.+.++++++++|+++.++..++.+|..
T Consensus       546 ~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~  596 (597)
T 2xpi_A          546 STNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRALEE  596 (597)
T ss_dssp             SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTC-
T ss_pred             CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHhc
Confidence            445788999999999999999999999999999999999999999988854

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=4.9e-36  Score=327.38  Aligned_cols=499  Identities=12%  Similarity=-0.007  Sum_probs=381.1

Q ss_pred             HHhcCChhhHHHHHhcCCCCCeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhccCCCCCcchhc
Q 041741          165 YAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFA  244 (748)
Q Consensus       165 ~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~~~~~~~  244 (748)
                      +...|....+...+..+..++...|+.++..+.+.|++++|+.+|++|.+.                             
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~-----------------------------  113 (597)
T 2xpi_A           63 TSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI-----------------------------  113 (597)
T ss_dssp             -------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-----------------------------
T ss_pred             ccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh-----------------------------
Confidence            345566667777777777778888999999999999999999999988643                             


Q ss_pred             ccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHHHHHhccCC--CCCcccHHHHHHHHHhcCChhHH
Q 041741          245 QSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLP--ERSVVSWNVMIAGYGQKYQSTKA  322 (748)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a  322 (748)
                                              .|+..++..++.+|.+.|++++|..+|+.+.  .++..+++.++.+|.+.|++++|
T Consensus       114 ------------------------~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  169 (597)
T 2xpi_A          114 ------------------------TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFCLVKLYDWQGA  169 (597)
T ss_dssp             ------------------------HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             ------------------------CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHHHHHHHhhHHHH
Confidence                                    2444556667777788888888888887773  35666777777777777777777


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCC
Q 041741          323 IELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKP  402 (748)
Q Consensus       323 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p  402 (748)
                      +++|+++     .|+...    ..++...++       ++.-...+..+|+.++.+|.+.|++++|+++|++|.+.  .|
T Consensus       170 ~~~~~~~-----~~~~~~----~~~~~~~~~-------~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p  231 (597)
T 2xpi_A          170 LNLLGET-----NPFRKD----EKNANKLLM-------QDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMV--DA  231 (597)
T ss_dssp             HHHHCSS-----CTTC--------------C-------CCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CT
T ss_pred             HHHHhcc-----CCcccc----ccccccccc-------cccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--Cc
Confidence            7777642     121100    001111110       11111245778999999999999999999999999886  34


Q ss_pred             C-HhhHHHHHHHhhccCChHHHH--HH-HHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCC--CCcchHHHH
Q 041741          403 D-RTTLAIILSSCAAMGILESGK--QV-HAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPE--LDIVCWNSM  476 (748)
Q Consensus       403 ~-~~~~~~ll~~~~~~~~~~~a~--~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l  476 (748)
                      + ...+..+...+...+..+...  .+ +..+...+..+...++..++..|.+.|++++|.++|+++.+  +++.+|+.+
T Consensus       232 ~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l  311 (597)
T 2xpi_A          232 KCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCK  311 (597)
T ss_dssp             TCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHH
T ss_pred             hhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHH
Confidence            4 334444443333332222111  11 33344444444556667778889999999999999999987  788899999


Q ss_pred             HHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCH
Q 041741          477 IAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDI  556 (748)
Q Consensus       477 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  556 (748)
                      +..|.+.|++++|..+|+++...+ +.+..++..++.++...|++++|..+++.+.+.. +.+..+++.++.+|.+.|++
T Consensus       312 ~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~  389 (597)
T 2xpi_A          312 ADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKI  389 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccH
Confidence            999999999999999999999765 3467789999999999999999999999998654 56788999999999999999


Q ss_pred             HHHHHHhhhcC---CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhh
Q 041741          557 YGARQFFDMMH---GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQ  633 (748)
Q Consensus       557 ~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  633 (748)
                      ++|.++|+++.   ..+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..+|..++.+|.+.|++++|..+|+++.
T Consensus       390 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  468 (597)
T 2xpi_A          390 SEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSY  468 (597)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99999999875   3578899999999999999999999999999864 5577899999999999999999999999995


Q ss_pred             hhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-------CCCC--HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041741          634 LDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-------CKDD--PVIWEVLLSSCRLHANVRLAKRAAEELFRLD  704 (748)
Q Consensus       634 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  704 (748)
                      ..  .+.+..++..++.+|.+.|++++|.++++++.       ..|+  ...|..++..|...|++++|...++++++.+
T Consensus       469 ~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  546 (597)
T 2xpi_A          469 AL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS  546 (597)
T ss_dssp             HH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             Hh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            33  23457889999999999999999999999883       2566  6789999999999999999999999999999


Q ss_pred             CCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          705 PKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       705 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      |+++.++..++.+|...|++++|.++++++.+..+
T Consensus       547 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p  581 (597)
T 2xpi_A          547 TNDANVHTAIALVYLHKKIPGLAITHLHESLAISP  581 (597)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999887544

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.95  E-value=1.2e-24  Score=223.07  Aligned_cols=373  Identities=13%  Similarity=0.059  Sum_probs=264.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhcCCCCCh-hhHHHHHHHHHhcCCHHHHHHHhccCCC---CCcchHHHHHHHHHccCCH
Q 041741          310 IAGYGQKYQSTKAIELLQRMKSCGFEPDE-VTSINMLVACVRSGDIKTGREMFDSMPS---PSVSSWNAMLSSYSQSENH  385 (748)
Q Consensus       310 ~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~~~~  385 (748)
                      ...+.+.|++++|++.++.+.+.  .|+. ..+..+...+...|+++.|...++....   .+...|..+...+.+.|++
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCH
Confidence            34456677777777777776654  2333 3333444455566666666666655442   3445566666667777777


Q ss_pred             HHHHHHHHHHHHcCCCCC-HhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhh
Q 041741          386 KEAIKLFREMQFRGVKPD-RTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHR  464 (748)
Q Consensus       386 ~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  464 (748)
                      ++|+..|+++.+.  .|+ ...+..+..++...|+++.|...+..+++..+.                            
T Consensus        84 ~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~----------------------------  133 (388)
T 1w3b_A           84 QEAIEHYRHALRL--KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD----------------------------  133 (388)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT----------------------------
T ss_pred             HHHHHHHHHHHHc--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC----------------------------
Confidence            7777777666654  233 334555555555555555555555555443322                            


Q ss_pred             CCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHH
Q 041741          465 IPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGS  544 (748)
Q Consensus       465 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  544 (748)
                          +...+..+...+...|++++|.+.|+++.... +.+..++..+...+...|+++.|...++.+.+.. +.+...+.
T Consensus       134 ----~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~  207 (388)
T 1w3b_A          134 ----LYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYI  207 (388)
T ss_dssp             ----CTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             ----cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHH
Confidence                23345555666666677777777777766542 2345667777777777777777777777777654 33566777


Q ss_pred             HHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCC
Q 041741          545 ALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGL  621 (748)
Q Consensus       545 ~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~  621 (748)
                      .+...+...|++++|...+++..+   .+..++..++.++...|++++|+..++++.+.+ +.+..++..+..++...|+
T Consensus       208 ~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  286 (388)
T 1w3b_A          208 NLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGS  286 (388)
T ss_dssp             HHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCC
Confidence            788888888888888888876542   357788888999999999999999999998853 3356688888999999999


Q ss_pred             hHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHH
Q 041741          622 VDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEE  699 (748)
Q Consensus       622 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  699 (748)
                      +++|+..++++...  .+.+..++..++.++.+.|++++|...++++.  .+.++..+..++..+...|++++|...+++
T Consensus       287 ~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  364 (388)
T 1w3b_A          287 VAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKE  364 (388)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999988533  34557788889999999999999999998875  344577888899999999999999999999


Q ss_pred             HHhcCCCCCcchHHHhHHHhhcCC
Q 041741          700 LFRLDPKNSAPYSLLANIYSSLGR  723 (748)
Q Consensus       700 ~~~~~p~~~~~~~~l~~~~~~~g~  723 (748)
                      +++++|+++.++..++.++...|+
T Consensus       365 a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          365 AIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHhhCCCCHHHHHhHHHHHHHccC
Confidence            999999999999999998887764

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.95  E-value=2.7e-24  Score=220.37  Aligned_cols=353  Identities=15%  Similarity=0.096  Sum_probs=293.0

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCC
Q 041741          376 LSSYSQSENHKEAIKLFREMQFRGVKPD-RTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQR  454 (748)
Q Consensus       376 l~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  454 (748)
                      ...+.+.|++++|.+.+..+.+.  .|+ ...+..+...+...|+++.+...+...++..+ .+...+..+..+|.+.|+
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p-~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNP-LLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CchHHHHHHHHHHHHCCC
Confidence            34556677778887777777665  344 33444455566677777777777777766543 256677778888888888


Q ss_pred             hHHHHHHHhhCCC--C-CcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHH
Q 041741          455 NELAERVFHRIPE--L-DIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQI  531 (748)
Q Consensus       455 ~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  531 (748)
                      +++|...|+++..  | ++..|..+..++...|++++|...|+++.... +.+...+..+...+...|++++|...+..+
T Consensus        83 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  161 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            8888888887753  3 44568889999999999999999999998763 224456677888899999999999999999


Q ss_pred             HHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHH
Q 041741          532 EKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDIT  608 (748)
Q Consensus       532 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  608 (748)
                      .+.. +.+...+..+..++.+.|++++|...|+++.+   .+...|..+...+...|++++|+..++++.+.. +.+..+
T Consensus       162 l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~  239 (388)
T 1w3b_A          162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVV  239 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHH
Confidence            8874 44678899999999999999999999998763   467789999999999999999999999999863 345678


Q ss_pred             HHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHH
Q 041741          609 FVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCR  685 (748)
Q Consensus       609 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  685 (748)
                      +..+..++...|++++|+..++++..   ..|+ ...+..++.++.+.|++++|...++++.  .++++..+..++..+.
T Consensus       240 ~~~l~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  316 (388)
T 1w3b_A          240 HGNLACVYYEQGLIDLAIDTYRRAIE---LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKR  316 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHH
Confidence            99999999999999999999999853   3444 6788999999999999999999999885  5667889999999999


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          686 LHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       686 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      ..|++++|...++++++..|+++.++..++.+|...|++++|...++++.+.
T Consensus       317 ~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          317 EQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             TTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999999999999999999998764

>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=99.94  E-value=5.1e-25  Score=228.24  Aligned_cols=182  Identities=15%  Similarity=0.182  Sum_probs=154.9

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCC---------chhHHHHHHHHHHhCCCCchHH
Q 041741          472 CWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSS---------SFQGRQVHAQIEKDGYVNDIFV  542 (748)
Q Consensus       472 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~---------~~~a~~~~~~~~~~~~~~~~~~  542 (748)
                      .++.+|++|++.|+.++|+++|++|.+.|+.||..||+.||.+|+..+.         .+.|.++|++|.+.|+.||..+
T Consensus        28 ~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~t  107 (501)
T 4g26_A           28 LLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEAT  107 (501)
T ss_dssp             HHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHH
Confidence            4677788888888888888888888888888888888888888876654         4668888888888888888888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHhhhcC----CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC
Q 041741          543 GSALIEMYCKCGDIYGARQFFDMMH----GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSH  618 (748)
Q Consensus       543 ~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~  618 (748)
                      |+.+|.+|++.|++++|.++|++|.    .||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||+.|+.+|++
T Consensus       108 yn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~  187 (501)
T 4g26_A          108 FTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMD  187 (501)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhh
Confidence            8888888888888888888888876    378888888888888888888888888888888888888888888888888


Q ss_pred             CCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHh
Q 041741          619 SGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGR  654 (748)
Q Consensus       619 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  654 (748)
                      .|++++|.+++++| ++.+..|+..||..++..+..
T Consensus       188 ~g~~d~A~~ll~~M-r~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          188 TKNADKVYKTLQRL-RDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             TTCHHHHHHHHHHH-HHHTSSBCHHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHH-HHhCCCcCHHHHHHHHHHHhc
Confidence            88888888888888 677888888888888887765

>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=99.93  E-value=9.9e-26  Score=233.56  Aligned_cols=179  Identities=15%  Similarity=0.150  Sum_probs=160.0

Q ss_pred             hhhHHHHHhhcCCChhHHHHhhccCC----CCCchhHHHHHHHHHhcCC---------hhHHHHHHHHHHhCCCCCCcch
Q 041741           56 SWNAILSAQCKSDDLEFAYKLFDEMP----ERNVVSWNNLISALVRNGL---------EEKALSVYNKMSNEGFVPTHIT  122 (748)
Q Consensus        56 ~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~~~---------~~~a~~~~~~m~~~~~~p~~~~  122 (748)
                      .++.+|.+|++.|++++|.++|++|.    +||..+||+||.+|++.+.         .+.|.++|++|.+.|+.||..|
T Consensus        28 ~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~t  107 (501)
T 4g26_A           28 LLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEAT  107 (501)
T ss_dssp             HHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHH
Confidence            45666677777777777777777665    3677777777777766543         6789999999999999999999


Q ss_pred             HHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCC----CCCeehHHHHHHHHHc
Q 041741          123 LASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMS----EPNEVTFTAMMSGLAK  198 (748)
Q Consensus       123 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~  198 (748)
                      |+++|.+|++.|+++.|.++++.|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.    .||..+|++||.+|++
T Consensus       108 yn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~  187 (501)
T 4g26_A          108 FTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMD  187 (501)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhh
Confidence            999999999999999999999999999999999999999999999999999999999996    4999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhcc
Q 041741          199 TDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCARE  234 (748)
Q Consensus       199 ~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~  234 (748)
                      .|++++|.++|++|++.|+.|+..||+.++..+...
T Consensus       188 ~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          188 TKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             CCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999998765

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.91  E-value=1.6e-22  Score=216.08  Aligned_cols=427  Identities=10%  Similarity=-0.047  Sum_probs=296.5

Q ss_pred             cHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCC---CCcchHHHHHHHHHc
Q 041741          305 SWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPS---PSVSSWNAMLSSYSQ  381 (748)
Q Consensus       305 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~  381 (748)
                      .+......+.+.|++++|+..|+++....  |+..++..+..++...|++++|...|+.+.+   .+...+..+..++.+
T Consensus         8 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~   85 (514)
T 2gw1_A            8 ALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEG   85 (514)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHH
Confidence            34556667777888888888888887764  6777888888888888888888888877653   344677788888889


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHH---HHHHHHHhcCChHHH
Q 041741          382 SENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVAS---GLIGIYSKCQRNELA  458 (748)
Q Consensus       382 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~~~~~~a  458 (748)
                      .|++++|...|+++...+ +++.......+..+........+.+.+..+...+..++.....   ...............
T Consensus        86 ~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (514)
T 2gw1_A           86 LGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSM  164 (514)
T ss_dssp             TTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHH
T ss_pred             HhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHH
Confidence            999999999998888764 3344444444433333222222222221111111000000000   000000011111111


Q ss_pred             HHHHhhCC---------CC-CcchHHHHHHHHHh---CCCchHHHHHHHHHHH-----CCCCC--------CHHHHHHHH
Q 041741          459 ERVFHRIP---------EL-DIVCWNSMIAGLSL---NSLDIEAFMFFKQMRQ-----NEMYP--------TQFSFATVL  512 (748)
Q Consensus       459 ~~~~~~~~---------~~-~~~~~~~li~~~~~---~~~~~~a~~~~~~m~~-----~~~~p--------~~~~~~~l~  512 (748)
                      ...+....         .+ +...+......+..   .|++++|...|+++..     ....|        +..++..+.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTG  244 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHH
Confidence            11111111         11 12233334444443   7889999999999887     32122        345667778


Q ss_pred             HhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhH
Q 041741          513 SSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDE  589 (748)
Q Consensus       513 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~  589 (748)
                      ..+...|+++.|...++.+.+....  ...+..+..++...|++++|...++.+.+   .+...+..++..+...|++++
T Consensus       245 ~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  322 (514)
T 2gw1_A          245 IFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQ  322 (514)
T ss_dssp             HHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHH
Confidence            8888999999999999998887644  78888889999999999999999987654   466788889999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC
Q 041741          590 AVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       590 a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  669 (748)
                      |...++++.+.. +.+...+..+...+...|++++|+..++++...  .+.+...+..++.++.+.|++++|...++++.
T Consensus       323 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  399 (514)
T 2gw1_A          323 AGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKALKQYDLAI  399 (514)
T ss_dssp             HHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999999863 345577888899999999999999999988533  22346778889999999999999999998874


Q ss_pred             ----CCCC----HhHHHHHHHHHHh---cCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          670 ----CKDD----PVIWEVLLSSCRL---HANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       670 ----~~~~----~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                          ..+.    ...+..++..+..   .|++++|...++++++.+|+++.++..++.+|...|++++|..+++++.+..
T Consensus       400 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  479 (514)
T 2gw1_A          400 ELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLA  479 (514)
T ss_dssp             HHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhc
Confidence                1122    3378888888888   8999999999999999999999999999999999999999999999887644


Q ss_pred             C
Q 041741          739 I  739 (748)
Q Consensus       739 ~  739 (748)
                      +
T Consensus       480 ~  480 (514)
T 2gw1_A          480 R  480 (514)
T ss_dssp             S
T ss_pred             c
Confidence            3

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.90  E-value=4.5e-22  Score=212.63  Aligned_cols=438  Identities=11%  Similarity=-0.045  Sum_probs=314.0

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHhccCCC--CCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHh
Q 041741          273 HLSNSLLDMYAKNGDMDSAEVIFSNLPE--RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVR  350 (748)
Q Consensus       273 ~~~~~li~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  350 (748)
                      ..+......+...|++++|...|+.+.+  |+..+|..+..++...|++++|+..++++.+.+ +.+...+..+..++..
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~   85 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEG   85 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHH
Confidence            4556677888999999999999998764  777889999999999999999999999999865 3355788888999999


Q ss_pred             cCCHHHHHHHhccCCC---CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHH
Q 041741          351 SGDIKTGREMFDSMPS---PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVH  427 (748)
Q Consensus       351 ~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  427 (748)
                      .|++++|...|+.+..   ++......++..+........+.+.+..+...+..|+......-...............+.
T Consensus        86 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (514)
T 2gw1_A           86 LGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMA  165 (514)
T ss_dssp             TTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHH
T ss_pred             HhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHH
Confidence            9999999999987754   3334444444444443333333333322222211111111100000000000001111111


Q ss_pred             HHHHhhcC---------CchhHHHHHHHHHHHh---cCChHHHHHHHhhCCC-----C------------CcchHHHHHH
Q 041741          428 AASLKTAS---------HIDNYVASGLIGIYSK---CQRNELAERVFHRIPE-----L------------DIVCWNSMIA  478 (748)
Q Consensus       428 ~~~~~~~~---------~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~------------~~~~~~~li~  478 (748)
                      ..+.....         +.+...+......+..   .|++++|...++++.+     .            +...+..+..
T Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (514)
T 2gw1_A          166 SFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGI  245 (514)
T ss_dssp             HHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHH
Confidence            11100000         1123333334444443   6777777777766543     1            2345777888


Q ss_pred             HHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHH
Q 041741          479 GLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYG  558 (748)
Q Consensus       479 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  558 (748)
                      .+...|++++|...|+++....  |+...+..+...+...|+++.|...++.+.+.. +.+...+..+..++...|++++
T Consensus       246 ~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  322 (514)
T 2gw1_A          246 FKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQ  322 (514)
T ss_dssp             HHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHH
Confidence            8999999999999999998764  337788888999999999999999999988764 3467788899999999999999


Q ss_pred             HHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhh
Q 041741          559 ARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLD  635 (748)
Q Consensus       559 A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  635 (748)
                      |...++.+.+   .+...+..++..+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++...
T Consensus       323 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~  401 (514)
T 2gw1_A          323 AGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIEL  401 (514)
T ss_dssp             HHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9999998752   467788999999999999999999999999863 445678889999999999999999999998644


Q ss_pred             hCCCCC----hhHHHHHHHHHHh---cCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041741          636 HGVEPI----LDHYTCMIDCLGR---AGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK  706 (748)
Q Consensus       636 ~~~~~~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  706 (748)
                      ..-.++    ...+..++.++..   .|++++|...++++.  .+.++..+..++..+...|++++|...++++++++|+
T Consensus       402 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  481 (514)
T 2gw1_A          402 ENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLART  481 (514)
T ss_dssp             HHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS
T ss_pred             hhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccc
Confidence            333333    3478899999999   999999999999885  4456788889999999999999999999999999998


Q ss_pred             CCcchHHHh
Q 041741          707 NSAPYSLLA  715 (748)
Q Consensus       707 ~~~~~~~l~  715 (748)
                      ++..+..+.
T Consensus       482 ~~~~~~~~~  490 (514)
T 2gw1_A          482 MEEKLQAIT  490 (514)
T ss_dssp             HHHHHHHHH
T ss_pred             cHHHHHHHH
Confidence            887776663

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.89  E-value=7e-21  Score=199.51  Aligned_cols=343  Identities=11%  Similarity=0.018  Sum_probs=234.9

Q ss_pred             CcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHH
Q 041741          368 SVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIG  447 (748)
Q Consensus       368 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  447 (748)
                      +...+..+...+.+.|++++|+.+|+++.+. .+.+...+..+..++...|+++.|...+..+++..+. +...+..+..
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~  102 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDG-DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMD-FTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-cHHHHHHHHH
Confidence            3445667777788888888888888887765 2334566666667777777777777777777665533 2344444555


Q ss_pred             HHHhcCChHHHHHHHhhCCCCCc------chHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCc
Q 041741          448 IYSKCQRNELAERVFHRIPELDI------VCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSS  521 (748)
Q Consensus       448 ~~~~~~~~~~a~~~~~~~~~~~~------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~  521 (748)
                      +|...|++++|...|+++.+.++      ..+..++..+..                       ..+..+...+...|++
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----------------------~~~~~~a~~~~~~~~~  159 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEM-----------------------QRLRSQALNAFGSGDY  159 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTCH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHcCCH
Confidence            55555555555555554443222      222222222000                       0111223345666777


Q ss_pred             hhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q 041741          522 FQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMI  598 (748)
Q Consensus       522 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  598 (748)
                      +.|...++.+.+.. +.+...+..+..+|.+.|++++|.+.|+.+.+   .+..+|..++.++...|++++|+..++++.
T Consensus       160 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  238 (450)
T 2y4t_A          160 TAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECL  238 (450)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            77777777776654 34566777778888888888888888877653   467788888888888888888888888888


Q ss_pred             HcCCCCCHHHHHHH------------HHHhcCCCChHHHHHHHHHhhhhhCCCCC-----hhHHHHHHHHHHhcCChHHH
Q 041741          599 ASGVKPDDITFVAI------------LTACSHSGLVDVGVEIFNSMQLDHGVEPI-----LDHYTCMIDCLGRAGHFHEA  661 (748)
Q Consensus       599 ~~~~~p~~~~~~~l------------~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A  661 (748)
                      +.. +.+...+..+            +..|...|++++|+..|+++..   ..|+     ...+..++.++.+.|++++|
T Consensus       239 ~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~---~~p~~~~~~~~~~~~l~~~~~~~g~~~~A  314 (450)
T 2y4t_A          239 KLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMK---TEPSIAEYTVRSKERICHCFSKDEKPVEA  314 (450)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCCSSHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             HhC-CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCcchHHHHHHHHHHHHHHHHCCCHHHH
Confidence            752 2333444444            7788888999999999998853   2344     34677888999999999999


Q ss_pred             HHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHh------------HHHhhcC-----
Q 041741          662 EMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLA------------NIYSSLG-----  722 (748)
Q Consensus       662 ~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~------------~~~~~~g-----  722 (748)
                      ...++++.  .+.++..|..++..+...|++++|...++++++++|+++.++..++            ..|...|     
T Consensus       315 ~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~  394 (450)
T 2y4t_A          315 IRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNA  394 (450)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTC
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCccC
Confidence            99998874  4456888888999999999999999999999999999988888888            5566666     


Q ss_pred             ChHHHHHHHHH-HHhcCCC
Q 041741          723 RWDDLRAVREL-MSENCIV  740 (748)
Q Consensus       723 ~~~~A~~~~~~-~~~~~~~  740 (748)
                      +.+++.+.|++ ..+..+.
T Consensus       395 ~~~~~~~~y~~~~l~~~pd  413 (450)
T 2y4t_A          395 KKQEIIKAYRKLALQWHPD  413 (450)
T ss_dssp             CTTHHHHHHHHHHHHSCGG
T ss_pred             CHHHHHHHHHHHHHHhCCC
Confidence            55677777775 3444443

>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=4.3e-18  Score=186.01  Aligned_cols=668  Identities=11%  Similarity=0.102  Sum_probs=356.7

Q ss_pred             HhCCCCCcchhhHHHHHHHccCCchhhhhhhhcCCC--CchhhhhHHHHHhhcCCChhHHHHhhccCCCC----------
Q 041741           16 RNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPH--KDIYSWNAILSAQCKSDDLEFAYKLFDEMPER----------   83 (748)
Q Consensus        16 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----------   83 (748)
                      +-|+.||   |..|++.+.+. +++.|.++-..+.+  +.....+.++..+...+.+.++..++-+..+.          
T Consensus       507 ~~~~~pD---y~~ll~~~~~~-~P~~~~~fa~~L~~~~~p~~d~~~ivd~f~~~~~iq~~t~fLld~lk~n~~e~~~LQT  582 (1630)
T 1xi4_A          507 KVGYTPD---WIFLLRNVMRI-SPDQGQQFAQMLVQDEEPLADITQIVDVFMEYNLIQQCTAFLLDALKNNRPSEGPLQT  582 (1630)
T ss_pred             ccCCCcc---HHHHHHHHhhc-ChHHHHHHHHHHhcCCCCccCHHHHHHHHHhcCcHHHHHHHHHHHHhCCChhhhhHhH
Confidence            3455444   55677777655 47777776666554  23455667788888888888777766444321          


Q ss_pred             --------------------Cch---hHHHHHHHHHhcCChhHHHHHHHHHHh--CCCCCCcchHHHHHHHhccccCcHH
Q 041741           84 --------------------NVV---SWNNLISALVRNGLEEKALSVYNKMSN--EGFVPTHITLASVFKASTALLDVEH  138 (748)
Q Consensus        84 --------------------~~~---~~~~l~~~~~~~~~~~~a~~~~~~m~~--~~~~p~~~~~~~ll~~~~~~~~~~~  138 (748)
                                          +..   -+..+...|.++|-+.+|++.|..+..  +-+..+...=.-.+..+...-..+.
T Consensus       583 rlle~Nl~~~pqvadail~~~~fthyd~~~IA~LCE~aGl~qrale~y~d~~dikR~~~~~~~~~~~~l~~~fg~l~~~~  662 (1630)
T 1xi4_A          583 RLLEMNLMHAPQVADAILGNQMFTHYDRAHIAQLCEKAGLLQRALEHFTDLYDIKRAVVHTHLLNPEWLVNYFGSLSVED  662 (1630)
T ss_pred             HHHHHhhccchhHHHHHHhcCccccccHHHHHHHHHHcCcHHHHHHhcCCHHHHHHHhhccCcCCHHHHHHHHhcCCHHH
Confidence                                111   256778888999999999998876633  1111110111112233333356788


Q ss_pred             HhHHHHHHHHHCCCCcHhH-------------HHHHHHHHHhcCChhhHHHHHhcCCC--CCeehHHHHHHHHHcCCCHH
Q 041741          139 GRRCHGLVIKIGLDKNIYV-------------ANALLSLYAKCGWTKHAVPVFEEMSE--PNEVTFTAMMSGLAKTDRVV  203 (748)
Q Consensus       139 a~~~~~~~~~~~~~~~~~~-------------~~~li~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~g~~~  203 (748)
                      +.+++..|...+++-+..+             -..+|+.+.+.+.++.-.-.+..+..  .|+......|.+.++.|+..
T Consensus       663 s~~~l~~~l~~n~~qnlq~vvqva~ky~~~lg~~~li~~fe~~~~~egl~y~l~siv~~s~d~~vhfkyi~aa~~~~q~~  742 (1630)
T 1xi4_A          663 SLECLRAMLSANIRQNLQICVQVASKYHEQLSTQSLIELFESFKSFEGLFYFLGSIVNFSQDPDVHFKYIQAACKTGQIK  742 (1630)
T ss_pred             HHHHHHHHHHHhHhhhhhhhhhHHHHHHhhcCHHHHHHHHHHhcchhhHHHHHHhhccccCChHHHHHHHHHHHHhCCch
Confidence            8999999988765433322             23444444444444444444444332  57777888999999999888


Q ss_pred             HHHHHHHH------------HHHcCCCCCcccHHHHHHHHhccCCCCCcchhccccccccc---------ccchhHHHHH
Q 041741          204 EALEMFRL------------MIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSR---------NVHGQQVHCL  262 (748)
Q Consensus       204 ~a~~~~~~------------m~~~g~~~~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~  262 (748)
                      +..++.++            +++.. -||.   ..+|..|-+.+...+...++-..+...-         ..+.-++...
T Consensus       743 everi~res~~y~~e~vk~flk~~k-l~d~---~pli~vCdr~~~v~~l~~yLy~n~~~~~ie~yv~~vnp~~~p~Vvg~  818 (1630)
T 1xi4_A          743 EVERICRESNCYDPERVKNFLKEAK-LTDQ---LPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRLPVVIGG  818 (1630)
T ss_pred             hhhHHhccCCCCCHHHHHHHHhhCC-CCCC---CCceeeccccccHHHHHHHHHhcCchhHHHHHHhccCCcccchhhhh
Confidence            77766544            11111 1222   1222223222211111111111000000         0000000000


Q ss_pred             HHHhcCCCchHHHHHHHH-------------HHHhcCChhHHHHHhccCC---CCCcccHHHHHHHHHhcC-ChhHHHH-
Q 041741          263 TIKLGFEADLHLSNSLLD-------------MYAKNGDMDSAEVIFSNLP---ERSVVSWNVMIAGYGQKY-QSTKAIE-  324 (748)
Q Consensus       263 ~~~~~~~~~~~~~~~li~-------------~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~-~~~~a~~-  324 (748)
                      +.  .+.-+......|+.             ..-+.++..--..+++.-.   ..++.++|++.+.|...+ +++.-+. 
T Consensus       819 ll--d~d~~e~~ik~ll~~v~~~~~~~~lv~~~ekrnrLkll~p~LE~~~~~g~~~~~~hnalakiyid~n~npe~fL~~  896 (1630)
T 1xi4_A          819 LL--DVDCSEDVIKNLILVVRGQFSTDELVAEVEKRNRLKLLLPWLEARIHEGCEEPATHNALAKIYIDSNNNPERFLRE  896 (1630)
T ss_pred             hh--cCCCCHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhccCCCHHHHhhc
Confidence            00  11112222222222             2222222222222222221   146678999999888544 3333221 


Q ss_pred             --------HHHHHHhcCC-------------------CCChhhHHHHHHHHHhcCCHHHHHHHh-----------ccC--
Q 041741          325 --------LLQRMKSCGF-------------------EPDEVTSINMLVACVRSGDIKTGREMF-----------DSM--  364 (748)
Q Consensus       325 --------~~~~m~~~g~-------------------~p~~~~~~~ll~~~~~~~~~~~a~~~~-----------~~~--  364 (748)
                              +=+-..+...                   ......|....+-+.+..+.+-=-.++           +..  
T Consensus       897 n~~yd~~~vgkyce~rDp~la~iay~~g~~d~eli~vt~~n~l~k~~arylv~r~d~~lW~~vl~~~n~~RR~Lidqv~a  976 (1630)
T 1xi4_A          897 NPYYDSRVVGKYCEKRDPHLACVAYERGQCDLELINVCNENSLFKSLSRYLVRRKDPELWGSVLLESNPYRRPLIDQVVQ  976 (1630)
T ss_pred             cCcccHHHHHHHHHhcCcchHHHHhcccCCcHHHHHHHhcchhHHHHHHHHHHhcCHHHHHHHhcCCcHHHHHHHHHHHH
Confidence                    1011111100                   001111222222222222211111111           100  


Q ss_pred             ---C-CCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCC--CCCHhhHHHHHHHh------------------------
Q 041741          365 ---P-SPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGV--KPDRTTLAIILSSC------------------------  414 (748)
Q Consensus       365 ---~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~ll~~~------------------------  414 (748)
                         + ..++.--...+..|...|.+.+|++++++..-.+-  .-+...-+.++.+.                        
T Consensus       977 ~aL~e~~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIkaD~~Rv~eyI~kLd~~d~~eIA 1056 (1630)
T 1xi4_A          977 TALSETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIA 1056 (1630)
T ss_pred             hhcccccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHhChhhHHHHHHHhhhccHHHHH
Confidence               0 13334445667778888888888888888874311  01112222233333                        


Q ss_pred             ---hccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHH
Q 041741          415 ---AAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFM  491 (748)
Q Consensus       415 ---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~  491 (748)
                         ...|.+++|..+++....     ...   ++-..+...+++++|.++.+++.  ++.+|..+..++...|++++|++
T Consensus      1057 ~Iai~lglyEEAf~IYkKa~~-----~~~---A~~VLie~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAId 1126 (1630)
T 1xi4_A         1057 NIAISNELFEEAFAIFRKFDV-----NTS---AVQVLIEHIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAID 1126 (1630)
T ss_pred             HHHHhCCCHHHHHHHHHHcCC-----HHH---HHHHHHHHHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHH
Confidence               333444444444444210     000   01111224455555555555442  34566677777777777777777


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCH
Q 041741          492 FFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNT  571 (748)
Q Consensus       492 ~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  571 (748)
                      .|.+.      -+...|..++.+|.+.|+++.+.+++....+..  +++.+.+.++.+|.+.+++++...+.   ..++.
T Consensus      1127 sYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~~~n~ 1195 (1630)
T 1xi4_A         1127 SYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---NGPNN 1195 (1630)
T ss_pred             HHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---hCCCH
Confidence            77442      355666677777777777777777777666654  22222334777777777777544432   34555


Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHH
Q 041741          572 VTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDC  651 (748)
Q Consensus       572 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  651 (748)
                      ..|..++..|...|++++|..+|...         ..|..+...+.+.|++++|++.+++.       .+..+|..+..+
T Consensus      1196 ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA-------~n~~aWkev~~a 1259 (1630)
T 1xi4_A         1196 AHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCFA 1259 (1630)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh-------CCHHHHHHHHHH
Confidence            66666777777777777777777764         25777777777777777777777655       234667777777


Q ss_pred             HHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhc--CChHHHHH
Q 041741          652 LGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSL--GRWDDLRA  729 (748)
Q Consensus       652 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~--g~~~~A~~  729 (748)
                      |...|++..|......+  ..++..+..++..|...|.+++|+.++++++.++|.+...+..|+.+|.+.  ++..++.+
T Consensus      1260 cve~~Ef~LA~~cgl~I--iv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk 1337 (1630)
T 1xi4_A         1260 CVDGKEFRLAQMCGLHI--VVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLE 1337 (1630)
T ss_pred             HhhhhHHHHHHHHHHhh--hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHH
Confidence            77777777777766542  345666667778888888888888888888888887777777777776554  56666666


Q ss_pred             HHH
Q 041741          730 VRE  732 (748)
Q Consensus       730 ~~~  732 (748)
                      +|.
T Consensus      1338 ~f~ 1340 (1630)
T 1xi4_A         1338 LFW 1340 (1630)
T ss_pred             HHH
Confidence            655

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.88  E-value=1.4e-20  Score=202.17  Aligned_cols=425  Identities=13%  Similarity=0.017  Sum_probs=205.6

Q ss_pred             hHHHHHHHHHHHhcCChhHHHHHhccCCC---CCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 041741          272 LHLSNSLLDMYAKNGDMDSAEVIFSNLPE---RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVAC  348 (748)
Q Consensus       272 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  348 (748)
                      ...+..+...+.+.|++++|...|+.+.+   .++.+|..+..++...|++++|++.++++.+.+ +.+...+..+..++
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~  103 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHH
Confidence            34566667777777777777777776543   344567777777777777777777777776653 22455566666666


Q ss_pred             HhcCCHHHHHHHhccCCCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHc------CCCCCHhhHHHHHHHhhccCChHH
Q 041741          349 VRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFR------GVKPDRTTLAIILSSCAAMGILES  422 (748)
Q Consensus       349 ~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------g~~p~~~~~~~ll~~~~~~~~~~~  422 (748)
                      ...|++++|...|+.+ ..++......+..+...+....|...++++...      ...|+...+..    +....+.+.
T Consensus       104 ~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~----~~~~~~~~~  178 (537)
T 3fp2_A          104 ESLGNFTDAMFDLSVL-SLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLAS----FFGIFDSHL  178 (537)
T ss_dssp             HHHTCHHHHHHHHHHH-C-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHH----HHHTSCHHH
T ss_pred             HHcCCHHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHH----HHHhcChHH
Confidence            7777777777766532 222222222333444444556666666666432      12233322222    222222222


Q ss_pred             HHHHHHHHHhhcCCc-hhHHHHHHHHHHHhc--------CChHHHHHHHhhCCCCCcc----------hHHHHHHHHHhC
Q 041741          423 GKQVHAASLKTASHI-DNYVASGLIGIYSKC--------QRNELAERVFHRIPELDIV----------CWNSMIAGLSLN  483 (748)
Q Consensus       423 a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~----------~~~~li~~~~~~  483 (748)
                      +...+.....  ..+ .......+...+...        +++++|...++++.+.++.          ++..+...+...
T Consensus       179 ~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~  256 (537)
T 3fp2_A          179 EVSSVNTSSN--YDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLK  256 (537)
T ss_dssp             HHHTSCCCCS--SCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHhhccc--cccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhc
Confidence            2211111100  001 111222232222221        2455555555555432221          233444455555


Q ss_pred             CCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHh
Q 041741          484 SLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFF  563 (748)
Q Consensus       484 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  563 (748)
                      |++++|...|++....  .|+...+..+...+...|+++.|...+..+.+.. +.+..++..+..++...|++++|...+
T Consensus       257 ~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  333 (537)
T 3fp2_A          257 NNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDF  333 (537)
T ss_dssp             TCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            5566666666555543  2334555555555555566666655555555543 223445555555555555555555555


Q ss_pred             hhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC
Q 041741          564 DMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP  640 (748)
Q Consensus       564 ~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  640 (748)
                      +++.+   .+...+..+..++...|++++|..+++++.+.. +.+...+..+...+...|++++|...++++.......+
T Consensus       334 ~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~  412 (537)
T 3fp2_A          334 QKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQE  412 (537)
T ss_dssp             HHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCS
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcch
Confidence            54432   234455555555555555555555555555542 22334455555555555555555555555432211111


Q ss_pred             C----hhHHHHHHHHHHhc----------CChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041741          641 I----LDHYTCMIDCLGRA----------GHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLD  704 (748)
Q Consensus       641 ~----~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  704 (748)
                      +    ...+...+.++.+.          |++++|...++++.  .+.++..+..++..+...|++++|...+++++++.
T Consensus       413 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          413 KIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             SCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            1    11223334444444          55555555555543  22334455555555555555555555555555555


Q ss_pred             CCCC
Q 041741          705 PKNS  708 (748)
Q Consensus       705 p~~~  708 (748)
                      |+++
T Consensus       493 ~~~~  496 (537)
T 3fp2_A          493 RTMD  496 (537)
T ss_dssp             --CH
T ss_pred             CCcH
Confidence            5443

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.87  E-value=1.1e-19  Score=195.08  Aligned_cols=428  Identities=9%  Similarity=-0.028  Sum_probs=294.0

Q ss_pred             HhHHHHHHHHHHhcCChhhHHHHHhcCCC---CCeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHH
Q 041741          155 IYVANALLSLYAKCGWTKHAVPVFEEMSE---PNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVC  231 (748)
Q Consensus       155 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~  231 (748)
                      ...+..+...+.+.|++++|.+.|+++.+   .+...|..+...+.+.|++++|+..++++.+.+               
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~---------------   89 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK---------------   89 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---------------
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC---------------
Confidence            34566677777788888888888877653   355677777788888888888888888776531               


Q ss_pred             hccCCCCCcchhcccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHHHHHhccCCCCCcccHHHHHH
Q 041741          232 AREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIA  311 (748)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~  311 (748)
                                                           +.+..++..+...+...|++++|...|+.+ ..+.......+.
T Consensus        90 -------------------------------------p~~~~~~~~la~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~  131 (537)
T 3fp2_A           90 -------------------------------------PDHSKALLRRASANESLGNFTDAMFDLSVL-SLNGDFDGASIE  131 (537)
T ss_dssp             -------------------------------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH-C-----------
T ss_pred             -------------------------------------CchHHHHHHHHHHHHHcCCHHHHHHHHHHH-hcCCCCChHHHH
Confidence                                                 223455666777777888888888887533 222222233344


Q ss_pred             HHHhcCChhHHHHHHHHHHhcC--CCCChhhHHHHHHHHHhcCCHHHHHHHhccCCCCCcc---hHHHHHHHHHcc----
Q 041741          312 GYGQKYQSTKAIELLQRMKSCG--FEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVS---SWNAMLSSYSQS----  382 (748)
Q Consensus       312 ~~~~~~~~~~a~~~~~~m~~~g--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~ll~~~~~~----  382 (748)
                      .+...+...+++..++.+....  ..+........+..+....+.+.+...+......+..   ....+...+...    
T Consensus       132 ~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  211 (537)
T 3fp2_A          132 PMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGY  211 (537)
T ss_dssp             CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhh
Confidence            4555556677888888886531  1111112233444555677778888888777664443   333333333222    


Q ss_pred             ----CCHHHHHHHHHHHHHcCCCCCH-hhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHH
Q 041741          383 ----ENHKEAIKLFREMQFRGVKPDR-TTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNEL  457 (748)
Q Consensus       383 ----~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  457 (748)
                          |++++|..+++++.+.  .|+. ..+..+                            ...+..+...+...|++++
T Consensus       212 ~~a~~~~~~A~~~~~~~l~~--~p~~~~~~~~~----------------------------~~~~~~~g~~~~~~~~~~~  261 (537)
T 3fp2_A          212 LVANDLLTKSTDMYHSLLSA--NTVDDPLRENA----------------------------ALALCYTGIFHFLKNNLLD  261 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHHC----CCCHHHHHHH----------------------------HHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH--CCCcchhhHHH----------------------------HHHHHHHHHHHHhcccHHH
Confidence                3677777777777654  3332 111111                            1123344455666677777


Q ss_pred             HHHHHhhCC--CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhC
Q 041741          458 AERVFHRIP--ELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDG  535 (748)
Q Consensus       458 a~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  535 (748)
                      |...++++.  .|+...+..+...+...|++++|...++++.... +.+..++..+...+...|+++.|...++.+.+..
T Consensus       262 A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  340 (537)
T 3fp2_A          262 AQVLLQESINLHPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN  340 (537)
T ss_dssp             HHHHHHHHHHHCCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhcCCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            777766665  2445567788889999999999999999998764 3467788899999999999999999999999875


Q ss_pred             CCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCC-----CCHH
Q 041741          536 YVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVK-----PDDI  607 (748)
Q Consensus       536 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-----p~~~  607 (748)
                       +.+...+..+..++...|++++|...++.+.+   .+...+..+...+...|++++|...++++.+....     ....
T Consensus       341 -~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  419 (537)
T 3fp2_A          341 -PENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIG  419 (537)
T ss_dssp             -TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTH
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHH
Confidence             33567888999999999999999999998763   46778999999999999999999999998875311     1112


Q ss_pred             HHHHHHHHhcCC----------CChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC
Q 041741          608 TFVAILTACSHS----------GLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       608 ~~~~l~~~~~~~----------~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  669 (748)
                      .+......+...          |++++|+..++++...  .+.+...+..++.+|.+.|++++|...+++..
T Consensus       420 ~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  489 (537)
T 3fp2_A          420 PLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACEL--DPRSEQAKIGLAQLKLQMEKIDEAIELFEDSA  489 (537)
T ss_dssp             HHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            244455667777          9999999999998533  23346778899999999999999999999885

>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=99.87  E-value=5.3e-17  Score=177.56  Aligned_cols=667  Identities=12%  Similarity=0.098  Sum_probs=422.1

Q ss_pred             hhhHHHHHHHHhCCCCCcchhhHHHHHHHccCCchhhhhhhhcCCC-----Cchhhh-hHHHHHhhcCCChhHHHHhhcc
Q 041741            6 AGKLLHAHILRNGLFDDTFLCNRLIELYSKCNNTHSAQHLFDKMPH-----KDIYSW-NAILSAQCKSDDLEFAYKLFDE   79 (748)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~-~~l~~~~~~~~~~~~a~~~~~~   79 (748)
                      .+-|+=+.|+..+.- +.+.+..+...|-+.|-+..|++.|..+..     .+.... ...+-.|.-.=+++.+++.+..
T Consensus       591 ~~pqvadail~~~~f-thyd~~~IA~LCE~aGl~qrale~y~d~~dikR~~~~~~~~~~~~l~~~fg~l~~~~s~~~l~~  669 (1630)
T 1xi4_A          591 HAPQVADAILGNQMF-THYDRAHIAQLCEKAGLLQRALEHFTDLYDIKRAVVHTHLLNPEWLVNYFGSLSVEDSLECLRA  669 (1630)
T ss_pred             cchhHHHHHHhcCcc-ccccHHHHHHHHHHcCcHHHHHHhcCCHHHHHHHhhccCcCCHHHHHHHHhcCCHHHHHHHHHH
Confidence            355667777777765 788889999999999999999999987643     111111 1122222223456777777777


Q ss_pred             CCCCC-----------------chhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHH
Q 041741           80 MPERN-----------------VVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRC  142 (748)
Q Consensus        80 ~~~~~-----------------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  142 (748)
                      |...|                 ...-..+|..+-+.+.++...-++.....  ..-|+....-.+.++++.|++.+.+++
T Consensus       670 ~l~~n~~qnlq~vvqva~ky~~~lg~~~li~~fe~~~~~egl~y~l~siv~--~s~d~~vhfkyi~aa~~~~q~~everi  747 (1630)
T 1xi4_A          670 MLSANIRQNLQICVQVASKYHEQLSTQSLIELFESFKSFEGLFYFLGSIVN--FSQDPDVHFKYIQAACKTGQIKEVERI  747 (1630)
T ss_pred             HHHHhHhhhhhhhhhHHHHHHhhcCHHHHHHHHHHhcchhhHHHHHHhhcc--ccCChHHHHHHHHHHHHhCCchhhhHH
Confidence            66421                 11234566666666666666666555543  456777888889999999998887765


Q ss_pred             HHH------------HHHHCCCCcH----h------HHHHHHHHHHhcCChhhHHHHH-hcCCC---C-----------C
Q 041741          143 HGL------------VIKIGLDKNI----Y------VANALLSLYAKCGWTKHAVPVF-EEMSE---P-----------N  185 (748)
Q Consensus       143 ~~~------------~~~~~~~~~~----~------~~~~li~~~~~~g~~~~a~~~~-~~~~~---~-----------~  185 (748)
                      ..+            +++..+ ||.    .      -...|+.-+.+.+.. +-++++ .++-.   |           +
T Consensus       748 ~res~~y~~e~vk~flk~~kl-~d~~pli~vCdr~~~v~~l~~yLy~n~~~-~~ie~yv~~vnp~~~p~Vvg~lld~d~~  825 (1630)
T 1xi4_A          748 CRESNCYDPERVKNFLKEAKL-TDQLPLIIVCDRFDFVHDLVLYLYRNNLQ-KYIEIYVQKVNPSRLPVVIGGLLDVDCS  825 (1630)
T ss_pred             hccCCCCCHHHHHHHHhhCCC-CCCCCceeeccccccHHHHHHHHHhcCch-hHHHHHHhccCCcccchhhhhhhcCCCC
Confidence            432            222221 111    0      011122211122222 222222 11110   1           1


Q ss_pred             eeh-------------HHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhccCCCCCcchhccccccccc
Q 041741          186 EVT-------------FTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSR  252 (748)
Q Consensus       186 ~~~-------------~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~  252 (748)
                      ...             -..|+...-+.++..--+..++.-...| ..++.+++++...+...+..++  .++....-.+.
T Consensus       826 e~~ik~ll~~v~~~~~~~~lv~~~ekrnrLkll~p~LE~~~~~g-~~~~~~hnalakiyid~n~npe--~fL~~n~~yd~  902 (1630)
T 1xi4_A          826 EDVIKNLILVVRGQFSTDELVAEVEKRNRLKLLLPWLEARIHEG-CEEPATHNALAKIYIDSNNNPE--RFLRENPYYDS  902 (1630)
T ss_pred             HHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHhccCCCHH--HHhhccCcccH
Confidence            111             2222333333333333334444444444 4577889999998887753322  22222111111


Q ss_pred             ccchhHHHHHHHHh-----------cC--------CCchHHHHHHHHHHHhcCChhHHHH-----------Hhcc-----
Q 041741          253 NVHGQQVHCLTIKL-----------GF--------EADLHLSNSLLDMYAKNGDMDSAEV-----------IFSN-----  297 (748)
Q Consensus       253 ~~~~~~~~~~~~~~-----------~~--------~~~~~~~~~li~~~~~~~~~~~a~~-----------~~~~-----  297 (748)
                          .-+-+...+.           |.        ...-..|....+-+.+..+.+-=..           +.++     
T Consensus       903 ----~~vgkyce~rDp~la~iay~~g~~d~eli~vt~~n~l~k~~arylv~r~d~~lW~~vl~~~n~~RR~Lidqv~a~a  978 (1630)
T 1xi4_A          903 ----RVVGKYCEKRDPHLACVAYERGQCDLELINVCNENSLFKSLSRYLVRRKDPELWGSVLLESNPYRRPLIDQVVQTA  978 (1630)
T ss_pred             ----HHHHHHHHhcCcchHHHHhcccCCcHHHHHHHhcchhHHHHHHHHHHhcCHHHHHHHhcCCcHHHHHHHHHHHHhh
Confidence                0011111111           10        0001112222222222222111111           1111     


Q ss_pred             CCC-CCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCC--CCChhhHHHHHHHHHhcCCHHHHHHHhccCCCCCcchHHH
Q 041741          298 LPE-RSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGF--EPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNA  374 (748)
Q Consensus       298 ~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  374 (748)
                      +++ .++.--....++|...|.+.+|++++++..-.+-  .-+...-+.++.+..+. +..+..+....+...+   ...
T Consensus       979 L~e~~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~e 1054 (1630)
T 1xi4_A          979 LSETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APD 1054 (1630)
T ss_pred             cccccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHH
Confidence            000 1333345667788889999999999998884321  11223344455555555 5555555555544222   344


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCC
Q 041741          375 MLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQR  454 (748)
Q Consensus       375 ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  454 (748)
                      +...+...|.+++|..+|++..     -.......++   ...+++++|.++.+..      .++.+|..+..++...|+
T Consensus      1055 IA~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLi---e~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~ 1120 (1630)
T 1xi4_A         1055 IANIAISNELFEEAFAIFRKFD-----VNTSAVQVLI---EHIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGM 1120 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHH---HHHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCC
Confidence            6778888999999999999852     1111122222   2667888888887755      257888899999999999


Q ss_pred             hHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHh
Q 041741          455 NELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKD  534 (748)
Q Consensus       455 ~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  534 (748)
                      +++|...|.+.  .|...|..++.++.+.|++++|++.|...++..  +++...+.++.+|++.++++....+.    + 
T Consensus      1121 ~kEAIdsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~- 1191 (1630)
T 1xi4_A         1121 VKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N- 1191 (1630)
T ss_pred             HHHHHHHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h-
Confidence            99999999775  577788899999999999999999999887764  33333345888999998887544443    1 


Q ss_pred             CCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 041741          535 GYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILT  614 (748)
Q Consensus       535 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~  614 (748)
                        .++...+..+...|...|++++|..+|..+     ..|..++.++.+.|+++.|++.+++.      .+..+|..+..
T Consensus      1192 --~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~ 1258 (1630)
T 1xi4_A         1192 --GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCF 1258 (1630)
T ss_pred             --CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHH
Confidence              345566777999999999999999999985     58999999999999999999999986      45588999999


Q ss_pred             HhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHh--cCCH
Q 041741          615 ACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRL--HANV  690 (748)
Q Consensus       615 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~--~~~~  690 (748)
                      +|...|++..|......      +..+.+.+..++..|.+.|.+++|+.+++... ..+ ....+..+...+.+  .++.
T Consensus      1259 acve~~Ef~LA~~cgl~------Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~pekl 1332 (1630)
T 1xi4_A         1259 ACVDGKEFRLAQMCGLH------IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKM 1332 (1630)
T ss_pred             HHhhhhHHHHHHHHHHh------hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHH
Confidence            99999999999887543      34556678899999999999999999998875 233 34556555555544  4567


Q ss_pred             HHHHHHHHHHHhcCC-----CCCcchHHHhHHHhhcCChHHHHHH
Q 041741          691 RLAKRAAEELFRLDP-----KNSAPYSLLANIYSSLGRWDDLRAV  730 (748)
Q Consensus       691 ~~a~~~~~~~~~~~p-----~~~~~~~~l~~~~~~~g~~~~A~~~  730 (748)
                      .++.+.|..-+.+.|     +++..+..+.-+|.+.|+++.|...
T Consensus      1333 mEhlk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~t 1377 (1630)
T 1xi4_A         1333 REHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT 1377 (1630)
T ss_pred             HHHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            777888887777767     6888899999999999999999854

>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=99.86  E-value=4.3e-19  Score=185.83  Aligned_cols=363  Identities=9%  Similarity=-0.032  Sum_probs=215.9

Q ss_pred             CcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCC---CCcchHHHHHHH
Q 041741          302 SVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPS---PSVSSWNAMLSS  378 (748)
Q Consensus       302 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~  378 (748)
                      +...+..+...+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|...|+.+.+   .+...+..+...
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  103 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHL  103 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHH
Confidence            44578888888899999999999999888753 33566677777777777777777777776653   345566677777


Q ss_pred             HHccCCHHHHHHHHHHHHHcCCCCCHh----hHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCC
Q 041741          379 YSQSENHKEAIKLFREMQFRGVKPDRT----TLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQR  454 (748)
Q Consensus       379 ~~~~~~~~~a~~~~~~m~~~g~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  454 (748)
                      +.+.|++++|...++++.+.  .|+..    .+..+...+..                       ..+..+...+...|+
T Consensus       104 ~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~-----------------------~~~~~~a~~~~~~~~  158 (450)
T 2y4t_A          104 LLKQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEM-----------------------QRLRSQALNAFGSGD  158 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTC
T ss_pred             HHHcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHcCC
Confidence            77777777777777777654  34332    22222221110                       111222333444555


Q ss_pred             hHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHh
Q 041741          455 NELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKD  534 (748)
Q Consensus       455 ~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  534 (748)
                      +++|...|+                               ++.... +.+...+..+...+...|+++.|..+++.+.+.
T Consensus       159 ~~~A~~~~~-------------------------------~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  206 (450)
T 2y4t_A          159 YTAAIAFLD-------------------------------KILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKL  206 (450)
T ss_dssp             HHHHHHHHH-------------------------------HHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHH
T ss_pred             HHHHHHHHH-------------------------------HHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            555555554                               444321 223344444444444455555555555444443


Q ss_pred             CCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--C-CHHHHHHH------------HHHHHHcCChhHHHHHHHHHHH
Q 041741          535 GYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG--K-NTVTWNEM------------IHGYAQNGYGDEAVRLYKDMIA  599 (748)
Q Consensus       535 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l------------~~~~~~~~~~~~a~~~~~~m~~  599 (748)
                      . +.++.++..+..+|...|++++|...|+.+.+  | +...+..+            +..+...|++++|+.+|+++.+
T Consensus       207 ~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~  285 (450)
T 2y4t_A          207 K-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMK  285 (450)
T ss_dssp             H-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            2 22344555555555555555555555554432  2 22233222            6777777888888888888777


Q ss_pred             cCCCCC-----HHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-
Q 041741          600 SGVKPD-----DITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-  672 (748)
Q Consensus       600 ~~~~p~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-  672 (748)
                      .  .|+     ...+..+...+...|++++|+..++++...  .+.+...+..++.+|...|++++|...++++. ..| 
T Consensus       286 ~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~  361 (450)
T 2y4t_A          286 T--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQM--EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNEN  361 (450)
T ss_dssp             H--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS
T ss_pred             c--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcc
Confidence            4  344     235667777778888888888888777422  12246677778888888888888888877764 334 


Q ss_pred             CHhHHHHHHHH------------HHhcC-----CHHHHHHHHHH-HHhcCCCCCc----------chHHHhHHHhhcCCh
Q 041741          673 DPVIWEVLLSS------------CRLHA-----NVRLAKRAAEE-LFRLDPKNSA----------PYSLLANIYSSLGRW  724 (748)
Q Consensus       673 ~~~~~~~l~~~------------~~~~~-----~~~~a~~~~~~-~~~~~p~~~~----------~~~~l~~~~~~~g~~  724 (748)
                      ++..+..+...            +...|     +.+++.+.+++ +++..|++..          .+..++.+|...||.
T Consensus       362 ~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~  441 (450)
T 2y4t_A          362 DQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDP  441 (450)
T ss_dssp             CHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGG
T ss_pred             hHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCH
Confidence            45555555422            33333     56778888886 7888887543          234455555555554


Q ss_pred             HHH
Q 041741          725 DDL  727 (748)
Q Consensus       725 ~~A  727 (748)
                      +++
T Consensus       442 ~~r  444 (450)
T 2y4t_A          442 EMR  444 (450)
T ss_dssp             GGC
T ss_pred             HHH
Confidence            443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.83  E-value=6.1e-18  Score=171.16  Aligned_cols=322  Identities=11%  Similarity=-0.001  Sum_probs=192.6

Q ss_pred             cchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHH
Q 041741          369 VSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGI  448 (748)
Q Consensus       369 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  448 (748)
                      +..+..+...+...|++++|+..++++.+.. +.+...+..+...+...|+++.|...++.+.+..+. +...+..+..+
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~   80 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMD-FTAARLQRGHL   80 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-cchHHHHHHHH
Confidence            3445666777788888888888888877652 234556666666677777777777777776665432 23444455555


Q ss_pred             HHhcCChHHHHHHHhhCCCCCc---ch---HHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCch
Q 041741          449 YSKCQRNELAERVFHRIPELDI---VC---WNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSF  522 (748)
Q Consensus       449 ~~~~~~~~~a~~~~~~~~~~~~---~~---~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  522 (748)
                      +...|++++|...++++.+.++   ..   +..+...+.                       ...+..+...+...|+++
T Consensus        81 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~~  137 (359)
T 3ieg_A           81 LLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADYT  137 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCHH
T ss_pred             HHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCHH
Confidence            5555555555555554443222   11   111100000                       001112234555666666


Q ss_pred             hHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q 041741          523 QGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIA  599 (748)
Q Consensus       523 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  599 (748)
                      .|...++.+.+.. +.+...+..+..++...|++++|...++.+.+   .+...+..+...+...|++++|...++++.+
T Consensus       138 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~  216 (359)
T 3ieg_A          138 AAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLK  216 (359)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            6666666666553 33556666677777777777777777776543   3566777777777777777777777777776


Q ss_pred             cCCCCCHHHHH------------HHHHHhcCCCChHHHHHHHHHhhhhhCCCCCh-----hHHHHHHHHHHhcCChHHHH
Q 041741          600 SGVKPDDITFV------------AILTACSHSGLVDVGVEIFNSMQLDHGVEPIL-----DHYTCMIDCLGRAGHFHEAE  662 (748)
Q Consensus       600 ~~~~p~~~~~~------------~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~  662 (748)
                      .. +.+...+.            .+...+...|++++|...++++...   .|+.     ..+..++.++...|++++|.
T Consensus       217 ~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~la~~~~~~~~~~~A~  292 (359)
T 3ieg_A          217 LD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSVAEYTVRSKERICHCFSKDEKPVEAI  292 (359)
T ss_dssp             HC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCCchHHHHHHHHHHHHHHHHccCHHHHH
Confidence            42 22223222            2244566677777777777766432   2321     22445666777777777777


Q ss_pred             HHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhh
Q 041741          663 MLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS  720 (748)
Q Consensus       663 ~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  720 (748)
                      ..+++..  .+.++..+..++..+...|++++|...++++++++|+++.+...++.++..
T Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~  352 (359)
T 3ieg_A          293 RICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRL  352 (359)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH
Confidence            7776664  333566666777777777777777777777777777776666666655543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.81  E-value=1.1e-17  Score=169.39  Aligned_cols=305  Identities=12%  Similarity=0.011  Sum_probs=221.4

Q ss_pred             HhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCC---CCcchHHHHHHHH
Q 041741          404 RTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPE---LDIVCWNSMIAGL  480 (748)
Q Consensus       404 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~  480 (748)
                      ...+..+...+...|+++.|...+..+++..+. +...+..+..++...|++++|...++++.+   .+...+..+...+
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~   81 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGDPD-NYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            344555666677777777777777777665443 345555666666666666666666665542   2334555566666


Q ss_pred             HhCCCchHHHHHHHHHHHCCCCC---CH-HHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCH
Q 041741          481 SLNSLDIEAFMFFKQMRQNEMYP---TQ-FSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDI  556 (748)
Q Consensus       481 ~~~~~~~~a~~~~~~m~~~~~~p---~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  556 (748)
                      ...|++++|...|++....  .|   +. ..+..+....                       ....+..+...+...|++
T Consensus        82 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~-----------------------~~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKAD-----------------------EMQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHHTTCH
T ss_pred             HHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHH-----------------------HHHHHHHHHHHHHHccCH
Confidence            6666666666666666543  23   11 1111111100                       011123346788899999


Q ss_pred             HHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhh
Q 041741          557 YGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQ  633 (748)
Q Consensus       557 ~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  633 (748)
                      ++|.+.++.+.+   .+...+..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.
T Consensus       137 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  215 (359)
T 3ieg_A          137 TAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECL  215 (359)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999998763   577889999999999999999999999999863 5567889999999999999999999999985


Q ss_pred             hhhCCCCC-hhHHH------------HHHHHHHhcCChHHHHHHHhhCC-CCC-CHh----HHHHHHHHHHhcCCHHHHH
Q 041741          634 LDHGVEPI-LDHYT------------CMIDCLGRAGHFHEAEMLIDEMP-CKD-DPV----IWEVLLSSCRLHANVRLAK  694 (748)
Q Consensus       634 ~~~~~~~~-~~~~~------------~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~----~~~~l~~~~~~~~~~~~a~  694 (748)
                      ..   .|+ ...+.            .++..+.+.|++++|...++++. ..| ++.    .+..+...+...|++++|.
T Consensus       216 ~~---~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  292 (359)
T 3ieg_A          216 KL---DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAI  292 (359)
T ss_dssp             HH---CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hh---CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHH
Confidence            33   344 22222            33778999999999999999875 233 343    3445677899999999999


Q ss_pred             HHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          695 RAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       695 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      ..++++++.+|+++.++..++.+|...|++++|...++++.+..
T Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  336 (359)
T 3ieg_A          293 RICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN  336 (359)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999987654

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.79  E-value=3e-17  Score=163.82  Aligned_cols=250  Identities=10%  Similarity=-0.018  Sum_probs=177.4

Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCC-CchhHHHHHHHHHHhCCCCchHHHHHHHHHHH
Q 041741          473 WNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLS-SSFQGRQVHAQIEKDGYVNDIFVGSALIEMYC  551 (748)
Q Consensus       473 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  551 (748)
                      +..++..+...|++++|...++++.... +.+...+..+...+...| +++.|...++.+.+.. +.+...+..+..++.
T Consensus        59 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~  136 (330)
T 3hym_B           59 LPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFA  136 (330)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            3334444445555555555555554431 223344445555555555 5555555555555433 224556667777788


Q ss_pred             hcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHH
Q 041741          552 KCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEI  628 (748)
Q Consensus       552 ~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~  628 (748)
                      ..|++++|...++++.+   .+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...
T Consensus       137 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  215 (330)
T 3hym_B          137 VESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKW  215 (330)
T ss_dssp             HHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHH
Confidence            88888888888877653   345667778888888899999999998888863 45567788888888889999999998


Q ss_pred             HHHhhhhhC-------CCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHH
Q 041741          629 FNSMQLDHG-------VEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEE  699 (748)
Q Consensus       629 ~~~~~~~~~-------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  699 (748)
                      ++++.....       .+.....+..++.++...|++++|...+++..  .+.++..+..+...+...|++++|...+++
T Consensus       216 ~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  295 (330)
T 3hym_B          216 FLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHT  295 (330)
T ss_dssp             HHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHT
T ss_pred             HHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            888754321       13335678889999999999999999998875  445678888888899999999999999999


Q ss_pred             HHhcCCCCCcchHHHhHHH-hhcCChH
Q 041741          700 LFRLDPKNSAPYSLLANIY-SSLGRWD  725 (748)
Q Consensus       700 ~~~~~p~~~~~~~~l~~~~-~~~g~~~  725 (748)
                      +++++|+++.++..++.++ ...|+.+
T Consensus       296 al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          296 ALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             TTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHccCCCchHHHHHHHHHHHHHhCchh
Confidence            9999999999999999988 5666644

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.78  E-value=1.7e-15  Score=159.76  Aligned_cols=383  Identities=10%  Similarity=0.009  Sum_probs=252.1

Q ss_pred             CcccHHHHHHHHHh----cCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCCCCcchHHHHHH
Q 041741          302 SVVSWNVMIAGYGQ----KYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLS  377 (748)
Q Consensus       302 ~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~  377 (748)
                      ++.++..+...|..    .+++++|+..|++..+.|   +...+..+-..|...                          
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g--------------------------   88 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNG--------------------------   88 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHT--------------------------
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcC--------------------------
Confidence            44555555555555    566666666666665543   233444444444440                          


Q ss_pred             HHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhc----cCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHh--
Q 041741          378 SYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAA----MGILESGKQVHAASLKTASHIDNYVASGLIGIYSK--  451 (748)
Q Consensus       378 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  451 (748)
                       ....+++++|.+++++..+.|   ++..+..+-..+..    .+++++|...++...+.+   +......+..+|..  
T Consensus        89 -~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~  161 (490)
T 2xm6_A           89 -EGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGD  161 (490)
T ss_dssp             -SSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTS
T ss_pred             -CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCC
Confidence             000444444444444444432   22333333333333    344555555555444443   23334444455544  


Q ss_pred             --cCChHHHHHHHhhCCC-CCcchHHHHHHHHHh----CCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcC----CCC
Q 041741          452 --CQRNELAERVFHRIPE-LDIVCWNSMIAGLSL----NSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAK----LSS  520 (748)
Q Consensus       452 --~~~~~~a~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~~~  520 (748)
                        .++.++|...|++..+ .++..+..+...|..    .++.++|+..|++..+.|   +...+..+...+..    .++
T Consensus       162 g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~  238 (490)
T 2xm6_A          162 GVTRDYVMAREWYSKAAEQGNVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQD  238 (490)
T ss_dssp             SSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCC
Confidence              5556666666655443 244556666666666    677888888888877764   34455555555543    678


Q ss_pred             chhHHHHHHHHHHhCCCCchHHHHHHHHHHHh----cCCHHHHHHHhhhcCC-CCHHHHHHHHHHHHHc-----CChhHH
Q 041741          521 SFQGRQVHAQIEKDGYVNDIFVGSALIEMYCK----CGDIYGARQFFDMMHG-KNTVTWNEMIHGYAQN-----GYGDEA  590 (748)
Q Consensus       521 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~~-----~~~~~a  590 (748)
                      +++|..+++...+.+   ++..+..+..+|..    .+++++|.+.|+...+ .++..+..+...|...     +++++|
T Consensus       239 ~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A  315 (490)
T 2xm6_A          239 YTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQA  315 (490)
T ss_dssp             HHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHH
T ss_pred             HHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHH
Confidence            888888888877654   45566667777777    7899999999988764 5677888888888887     899999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHhcCCC---ChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHh----cCChHHHHH
Q 041741          591 VRLYKDMIASGVKPDDITFVAILTACSHSG---LVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGR----AGHFHEAEM  663 (748)
Q Consensus       591 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~  663 (748)
                      +..+++..+.|   +...+..+...|...|   ++++|+..|++.. +.   .+...+..++.+|..    .+++++|..
T Consensus       316 ~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~-~~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~  388 (490)
T 2xm6_A          316 ISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAA-AK---GEKAAQFNLGNALLQGKGVKKDEQQAAI  388 (490)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHH-HT---TCHHHHHHHHHHHHHTSSSCCCHHHHHH
T ss_pred             HHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHH-HC---CCHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            99999999865   3455666776666545   8899999999884 32   456778889999988    899999999


Q ss_pred             HHhhCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCC---CCcchHHHhHHHhhcCChHH--HHHHHHH
Q 041741          664 LIDEMPCKDDPVIWEVLLSSCRL----HANVRLAKRAAEELFRLDPK---NSAPYSLLANIYSSLGRWDD--LRAVREL  733 (748)
Q Consensus       664 ~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~--A~~~~~~  733 (748)
                      .+++.....++..+..+...+..    .+|+++|...++++.+.+|+   ++.+...++.++....+..+  |.+++++
T Consensus       389 ~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~~~~~a~~~a~~~~~~  467 (490)
T 2xm6_A          389 WMRKAAEQGLSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAKQLQQAELLSQQYIEK  467 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHhHHHHHHHHHHHHHHH
Confidence            99988645578888888888887    78999999999999999954   77888888888765433222  4444443

>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=99.78  E-value=6.3e-17  Score=161.54  Aligned_cols=263  Identities=13%  Similarity=0.047  Sum_probs=225.4

Q ss_pred             CCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHH
Q 041741          468 LDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALI  547 (748)
Q Consensus       468 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  547 (748)
                      .++..+..+...+...|++++|+.+|+++.... +.+...+..++..+...|+++.|..++..+.+.. +.+...+..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            356677788888899999999999999998763 3344556667788889999999999999998875 44677888899


Q ss_pred             HHHHhcC-CHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChH
Q 041741          548 EMYCKCG-DIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVD  623 (748)
Q Consensus       548 ~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  623 (748)
                      ..+...| ++++|.+.|+++.+   .+...|..+...+...|++++|+..++++.+.. +.+...+..+...+...|+++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHH
Confidence            9999999 99999999998764   357789999999999999999999999999864 344567777999999999999


Q ss_pred             HHHHHHHHhhhhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHhhCC--C---------CCCHhHHHHHHHHHHhcCCHH
Q 041741          624 VGVEIFNSMQLDHGVEP-ILDHYTCMIDCLGRAGHFHEAEMLIDEMP--C---------KDDPVIWEVLLSSCRLHANVR  691 (748)
Q Consensus       624 ~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~---------~~~~~~~~~l~~~~~~~~~~~  691 (748)
                      +|...++++.   ...| +...+..++.++...|++++|...++++.  .         +..+..+..++..+...|+++
T Consensus       177 ~A~~~~~~al---~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  253 (330)
T 3hym_B          177 LAERFFSQAL---SIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYA  253 (330)
T ss_dssp             HHHHHHHHHH---TTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHH---HhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHH
Confidence            9999999985   3334 46788899999999999999999998773  1         334678889999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          692 LAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       692 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      +|...++++++..|+++.++..++.+|...|++++|.++++++.+
T Consensus       254 ~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  298 (330)
T 3hym_B          254 EALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALG  298 (330)
T ss_dssp             HHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHc
Confidence            999999999999999999999999999999999999999997543

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.77  E-value=9.6e-17  Score=157.55  Aligned_cols=346  Identities=11%  Similarity=0.060  Sum_probs=149.5

Q ss_pred             HccCCchhhhhhhhcCCCCchhhhhHHHHHhhcCCChhHHHHhhccCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 041741           34 SKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSN  113 (748)
Q Consensus        34 ~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  113 (748)
                      -+.|++++|..+++++.+|+  +|..++.++.+.|++++|++.|.+.  +|...|..++.++...|++++|+.+++..++
T Consensus        14 ~~~~~ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark   89 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARK   89 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            37788999999999996654  8999999999999999999999764  5667899999999999999999998877776


Q ss_pred             CCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCCCCeehHHHHH
Q 041741          114 EGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMM  193 (748)
Q Consensus       114 ~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li  193 (748)
                      .  .+++.+.+.++.++.+.|+++++.+++.       .|+..+|..+...|...|++++|...|..+     ..|..++
T Consensus        90 ~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----~n~~~LA  155 (449)
T 1b89_A           90 K--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLA  155 (449)
T ss_dssp             ---------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----TCHHHHH
T ss_pred             h--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----hhHHHHH
Confidence            4  4557888899999999999999888875       366779999999999999999999999977     4799999


Q ss_pred             HHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhccCCCCCcchhcccccccccccchhHHHHHHHHhcCCCchH
Q 041741          194 SGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLH  273 (748)
Q Consensus       194 ~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  273 (748)
                      ..+.+.|++++|++.++.+.                                                         ++.
T Consensus       156 ~~L~~Lg~yq~AVea~~KA~---------------------------------------------------------~~~  178 (449)
T 1b89_A          156 STLVHLGEYQAAVDGARKAN---------------------------------------------------------STR  178 (449)
T ss_dssp             HHHHTTTCHHHHHHHHHHHT---------------------------------------------------------CHH
T ss_pred             HHHHHhccHHHHHHHHHHcC---------------------------------------------------------Cch
Confidence            99999999999999988861                                                         344


Q ss_pred             HHHHHHHHHHhcCChhHHHHHhccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHH--hc
Q 041741          274 LSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACV--RS  351 (748)
Q Consensus       274 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~--~~  351 (748)
                      ++..++.+|...|+++.|......+. ..+.....++..|.+.|++++|+.+++...... +-....|+.+-.+++  +.
T Consensus       179 ~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p  256 (449)
T 1b89_A          179 TWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKP  256 (449)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCH
Confidence            55556666666777777766665543 333344567777888888888888888776543 333445555555554  35


Q ss_pred             CCHHHHHHHhccCCC--------CCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHH
Q 041741          352 GDIKTGREMFDSMPS--------PSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESG  423 (748)
Q Consensus       352 ~~~~~a~~~~~~~~~--------~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a  423 (748)
                      +++.+.++.|..-..        .+...|..+...|...++++.|...   |.+.  +|+...-..+.....+..+.+.-
T Consensus       257 ~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t---m~~h--~~~a~~~~~f~~~~~kv~n~ely  331 (449)
T 1b89_A          257 QKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MMNH--PTDAWKEGQFKDIITKVANVELY  331 (449)
T ss_dssp             HHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH---HHHS--TTTTCCHHHHHHHHHHCSSTHHH
T ss_pred             HHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH---HHhC--ChhhhhhHHHHHHHhchhHHHHH
Confidence            566677777665442        3577899999999999999988874   4443  33433333334444444444444


Q ss_pred             HHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhC
Q 041741          424 KQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRI  465 (748)
Q Consensus       424 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  465 (748)
                      -+...--++.    .+...+.|+.+....=+...+..+|+..
T Consensus       332 Ykai~fyl~~----~p~~l~~ll~~l~~~ld~~r~v~~~~~~  369 (449)
T 1b89_A          332 YRAIQFYLEF----KPLLLNDLLMVLSPRLDHTRAVNYFSKV  369 (449)
T ss_dssp             HHHHHHHHHH----CGGGHHHHHHHHGGGCCHHHHHHHHHHT
T ss_pred             HHHHHHHHhc----CHHHHHHHHHHHHhccCcHHHHHHHHHc
Confidence            3333333322    2223444444444444444444444433

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.75  E-value=1e-14  Score=153.64  Aligned_cols=352  Identities=12%  Similarity=0.010  Sum_probs=288.6

Q ss_pred             CCcchHHHHHHHHHc----cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhc----cCChHHHHHHHHHHHhhcCCch
Q 041741          367 PSVSSWNAMLSSYSQ----SENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAA----MGILESGKQVHAASLKTASHID  438 (748)
Q Consensus       367 ~~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~  438 (748)
                      .++..+..+...|..    .+++++|+..+++..+.|   ++..+..+-..+..    .++.++|...++...+.+   +
T Consensus        37 g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~  110 (490)
T 2xm6_A           37 GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---L  110 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---C
T ss_pred             CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---C
Confidence            344555666666666    789999999999988764   45666677777777    899999999999998876   5


Q ss_pred             hHHHHHHHHHHHh----cCChHHHHHHHhhCCCC-CcchHHHHHHHHHh----CCCchHHHHHHHHHHHCCCCCCHHHHH
Q 041741          439 NYVASGLIGIYSK----CQRNELAERVFHRIPEL-DIVCWNSMIAGLSL----NSLDIEAFMFFKQMRQNEMYPTQFSFA  509 (748)
Q Consensus       439 ~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~  509 (748)
                      ......+..+|..    .+++++|...|++..+. ++..+..+...|..    .++.++|++.|++..+.|   +...+.
T Consensus       111 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~  187 (490)
T 2xm6_A          111 PQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCN  187 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            5666778888888    88999999999987754 56677888888887    789999999999998875   566677


Q ss_pred             HHHHhhcC----CCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHh----cCCHHHHHHHhhhcCC-CCHHHHHHHHHH
Q 041741          510 TVLSSCAK----LSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCK----CGDIYGARQFFDMMHG-KNTVTWNEMIHG  580 (748)
Q Consensus       510 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~l~~~  580 (748)
                      .+...+..    .+++++|..++....+.+   ++..+..+...|..    .+++++|..+|++..+ .+...+..+...
T Consensus       188 ~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~  264 (490)
T 2xm6_A          188 QLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYI  264 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            77777766    899999999999998865   56677778888886    7899999999998764 577788888888


Q ss_pred             HHH----cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCC-----CChHHHHHHHHHhhhhhCCCCChhHHHHHHHH
Q 041741          581 YAQ----NGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHS-----GLVDVGVEIFNSMQLDHGVEPILDHYTCMIDC  651 (748)
Q Consensus       581 ~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~-----~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  651 (748)
                      +..    .+++++|+..|++..+.|   +...+..+...|...     +++++|+..+++.. +.+   +...+..++.+
T Consensus       265 y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~-~~~---~~~a~~~lg~~  337 (490)
T 2xm6_A          265 LEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSA-EQG---DATAQANLGAI  337 (490)
T ss_dssp             HHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHH-HTT---CHHHHHHHHHH
T ss_pred             HHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHH-hcC---CHHHHHHHHHH
Confidence            888    899999999999998865   345566677777665     89999999999984 332   45667788888


Q ss_pred             HHhcC---ChHHHHHHHhhCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhh----
Q 041741          652 LGRAG---HFHEAEMLIDEMPCKDDPVIWEVLLSSCRL----HANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS----  720 (748)
Q Consensus       652 ~~~~g---~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----  720 (748)
                      |...|   ++++|..++++.....++..+..+...+..    .+++++|...++++.+..  ++.++..|+.+|..    
T Consensus       338 y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~g~  415 (490)
T 2xm6_A          338 YFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSAAQVQLGEIYYYGLGV  415 (490)
T ss_dssp             HHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSS
T ss_pred             HHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHcCCCC
Confidence            88766   889999999988645678888899998888    789999999999998864  67899999999998    


Q ss_pred             cCChHHHHHHHHHHHhcCC
Q 041741          721 LGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       721 ~g~~~~A~~~~~~~~~~~~  739 (748)
                      .+|.++|...|++..+.+.
T Consensus       416 ~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          416 ERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             CCCHHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHCCC
Confidence            8999999999999887663

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.74  E-value=9.2e-17  Score=163.08  Aligned_cols=282  Identities=12%  Similarity=-0.059  Sum_probs=223.3

Q ss_pred             HHhcCChHHHHH-HHhhCCCC-------CcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCC
Q 041741          449 YSKCQRNELAER-VFHRIPEL-------DIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSS  520 (748)
Q Consensus       449 ~~~~~~~~~a~~-~~~~~~~~-------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~  520 (748)
                      +...++++.|.. .+++....       +...+..+...+...|++++|+..|+++.+.. +.+..++..+...+...|+
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcC
Confidence            344567777877 77755431       34568888899999999999999999998764 4467788888999999999


Q ss_pred             chhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--C-CHHHHHH---------------HHHHHH
Q 041741          521 SFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG--K-NTVTWNE---------------MIHGYA  582 (748)
Q Consensus       521 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~---------------l~~~~~  582 (748)
                      ++.|...++.+.+.. +.+..++..+..++...|++++|.+.++.+..  | +...+..               .+..+.
T Consensus       114 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (368)
T 1fch_A          114 ELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLL  192 (368)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHH
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHh
Confidence            999999999998876 44778888999999999999999999988653  2 2222211               133334


Q ss_pred             HcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHH
Q 041741          583 QNGYGDEAVRLYKDMIASGVKP-DDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEA  661 (748)
Q Consensus       583 ~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  661 (748)
                      ..|++++|+..++++.+..... +..++..+...+...|++++|+..++++...  .+.+...+..++.++...|++++|
T Consensus       193 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A  270 (368)
T 1fch_A          193 SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEA  270 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCHHHH
Confidence            8899999999999999863211 4788999999999999999999999998533  233467889999999999999999


Q ss_pred             HHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-----------CcchHHHhHHHhhcCChHHHH
Q 041741          662 EMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN-----------SAPYSLLANIYSSLGRWDDLR  728 (748)
Q Consensus       662 ~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~A~  728 (748)
                      ...++++.  .+.++..+..++..+...|++++|...+++++++.|++           +.++..++.+|...|++++|.
T Consensus       271 ~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  350 (368)
T 1fch_A          271 VAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  350 (368)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHH
Confidence            99999885  45568889999999999999999999999999999987           688999999999999999999


Q ss_pred             HHHHHH
Q 041741          729 AVRELM  734 (748)
Q Consensus       729 ~~~~~~  734 (748)
                      .++++.
T Consensus       351 ~~~~~~  356 (368)
T 1fch_A          351 AADARD  356 (368)
T ss_dssp             HHHTTC
T ss_pred             HhHHHH
Confidence            988743

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.74  E-value=6.3e-16  Score=149.54  Aligned_cols=266  Identities=11%  Similarity=-0.046  Sum_probs=194.1

Q ss_pred             cCChHHHHHHHhhCCCCCcc----hHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHH
Q 041741          452 CQRNELAERVFHRIPELDIV----CWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQV  527 (748)
Q Consensus       452 ~~~~~~a~~~~~~~~~~~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  527 (748)
                      .|++..|+..++.....++.    ....+..+|...|+++.|+..++.    .-+|+..++..+...+...++.+.|...
T Consensus        12 ~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~A~~~   87 (291)
T 3mkr_A           12 IGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDAIVAE   87 (291)
T ss_dssp             TTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHHHHHH
Confidence            44455555544444332221    223345566666666666654433    1245556666677777777777777777


Q ss_pred             HHHHHHhCCCC-chHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH
Q 041741          528 HAQIEKDGYVN-DIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD  606 (748)
Q Consensus       528 ~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  606 (748)
                      ++.+...+..| ++..+..+..++...|++++|.+.+++  ..+...+..++..+.+.|++++|.+.++++.+.  .|+.
T Consensus        88 l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~  163 (291)
T 3mkr_A           88 LDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ--DEDA  163 (291)
T ss_dssp             HHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CcCc
Confidence            77777665434 566667778889999999999999998  567889999999999999999999999999986  4554


Q ss_pred             HHH---HHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHH
Q 041741          607 ITF---VAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLL  681 (748)
Q Consensus       607 ~~~---~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~  681 (748)
                      ...   ..++..+...|++++|..+|+++...  .+.+...+..++.++.+.|++++|...+++..  .+.++.++..++
T Consensus       164 ~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~l~  241 (291)
T 3mkr_A          164 TLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLV  241 (291)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            311   12334445669999999999999643  34567888999999999999999999999875  455788999999


Q ss_pred             HHHHhcCCHHH-HHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHH
Q 041741          682 SSCRLHANVRL-AKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVR  731 (748)
Q Consensus       682 ~~~~~~~~~~~-a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  731 (748)
                      ..+...|+.++ +.+.++++++++|+++.+..    ...+.+.++++..-|
T Consensus       242 ~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d----~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          242 VLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKE----YRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHH----HHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCHHHHHHHHHHHHHhCCCChHHHH----HHHHHHHHHHHHHHc
Confidence            99988998865 67899999999998876554    456667777766554

>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=99.73  E-value=2.8e-16  Score=154.29  Aligned_cols=285  Identities=13%  Similarity=0.122  Sum_probs=130.4

Q ss_pred             hcCCHHHHHHHhccCCCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHH
Q 041741          350 RSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAA  429 (748)
Q Consensus       350 ~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  429 (748)
                      +.|++++|.+.++++..|  .+|..|..++.+.|++++|++.|.+      .+|..+|..++.++...|+++++...+..
T Consensus        15 ~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~~   86 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            456677777777777443  4777777888888888888877754      25666777777777778888888887776


Q ss_pred             HHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHH
Q 041741          430 SLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFA  509 (748)
Q Consensus       430 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  509 (748)
                      .++.  .+++.+...++.+|.+.|+++++.++++.   |+..+|+.+...|...|.+++|...|..+         ..|.
T Consensus        87 ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~  152 (449)
T 1b89_A           87 ARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFG  152 (449)
T ss_dssp             ------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCHH
T ss_pred             HHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHH
Confidence            6663  33456677788888888888888877753   66678899999999999999999999866         3688


Q ss_pred             HHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhH
Q 041741          510 TVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDE  589 (748)
Q Consensus       510 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  589 (748)
                      .+..++.+.|+++.|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.....++..|.+.|++++
T Consensus       153 ~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eE  225 (449)
T 1b89_A          153 RLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEE  225 (449)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHH
Confidence            8889999999999998888877      378888999999999999999977776654 444445568888999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHhcCC--CChHHHHHHHHHhhhhhCCCC------ChhHHHHHHHHHHhcCChHHH
Q 041741          590 AVRLYKDMIASGVKPDDITFVAILTACSHS--GLVDVGVEIFNSMQLDHGVEP------ILDHYTCMIDCLGRAGHFHEA  661 (748)
Q Consensus       590 a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~--~~~~~A~~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A  661 (748)
                      |..+++..+... +-....|+-+.-+|++-  +++.+.++.|..-   -.++|      +...|..++..|...++++.|
T Consensus       226 ai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~---ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A  301 (449)
T 1b89_A          226 LITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSR---VNIPKVLRAAEQAHLWAELVFLYDKYEEYDNA  301 (449)
T ss_dssp             HHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTT---SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH---hcCcHHHHHHHHHHHHHHHHHHHHhhchHHHH
Confidence            999999888654 44445666666655543  4555555554422   24444      356688889999999999988


Q ss_pred             HHHHhh
Q 041741          662 EMLIDE  667 (748)
Q Consensus       662 ~~~~~~  667 (748)
                      ....-+
T Consensus       302 ~~tm~~  307 (449)
T 1b89_A          302 IITMMN  307 (449)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            876544

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.73  E-value=1.5e-14  Score=154.02  Aligned_cols=410  Identities=9%  Similarity=0.009  Sum_probs=264.3

Q ss_pred             CcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCC--CCcchHHHHHHHH
Q 041741          302 SVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPS--PSVSSWNAMLSSY  379 (748)
Q Consensus       302 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~ll~~~  379 (748)
                      +...|..++. +.+.|++++|..+|+++.+.- +-+...+...+..+.+.|+++.|..+|++...  |+...|..++...
T Consensus        12 ~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~~~   89 (530)
T 2ooe_A           12 DLDAWSILIR-EAQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYLSYV   89 (530)
T ss_dssp             CHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHHHHH
Confidence            4557777777 467788888888888887652 33455677777777778888888888877765  5555555555322


Q ss_pred             -HccCCHHHHHH----HHHHHHHc-CCCCC-HhhHHHHHHHhhc---------cCChHHHHHHHHHHHhhcCCchhHHHH
Q 041741          380 -SQSENHKEAIK----LFREMQFR-GVKPD-RTTLAIILSSCAA---------MGILESGKQVHAASLKTASHIDNYVAS  443 (748)
Q Consensus       380 -~~~~~~~~a~~----~~~~m~~~-g~~p~-~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~  443 (748)
                       ...|+.+.|.+    +|+..... |..|+ ...+...+.....         .|+++.+..+++.+++.........+.
T Consensus        90 ~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~  169 (530)
T 2ooe_A           90 RETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWR  169 (530)
T ss_dssp             HHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHH
T ss_pred             HHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHH
Confidence             33456555544    55555432 44443 3344444443322         566777777777776621111122222


Q ss_pred             HHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHH------HCC---CCCCH--------H
Q 041741          444 GLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMR------QNE---MYPTQ--------F  506 (748)
Q Consensus       444 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~------~~~---~~p~~--------~  506 (748)
                      .........+. ..+..++.                 ...+++..|..++..+.      +..   ++|+.        .
T Consensus       170 ~~~~~e~~~~~-~~~~~~l~-----------------~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~  231 (530)
T 2ooe_A          170 DYNKYEEGINI-HLAKKMIE-----------------DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVD  231 (530)
T ss_dssp             HHHHHHHHHCH-HHHHHHHH-----------------TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHH
T ss_pred             HHHHHHHhhch-hHHHHHHH-----------------HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHH
Confidence            22211100110 00111110                 01233455555555421      111   23331        2


Q ss_pred             HHHHHHHhhc----CCCCc----hhHHHHHHHHHHhCCCCchHHHHHHHHHHHh-------cCCHH-------HHHHHhh
Q 041741          507 SFATVLSSCA----KLSSS----FQGRQVHAQIEKDGYVNDIFVGSALIEMYCK-------CGDIY-------GARQFFD  564 (748)
Q Consensus       507 ~~~~l~~~~~----~~~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~~-------~A~~~~~  564 (748)
                      .|...+....    ..++.    .++..+++...... +.++.+|..++..+.+       .|+++       +|..+|+
T Consensus       232 ~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~  310 (530)
T 2ooe_A          232 MWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYE  310 (530)
T ss_dssp             HHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHH
Confidence            3333332221    12233    35667788777753 4467888888887775       68887       8999999


Q ss_pred             hcCC---C-CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH--HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCC
Q 041741          565 MMHG---K-NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD--ITFVAILTACSHSGLVDVGVEIFNSMQLDHGV  638 (748)
Q Consensus       565 ~~~~---~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  638 (748)
                      +..+   | +...|..++..+.+.|++++|..+|+++++.  .|+.  ..|..++..+.+.|++++|..+|++...   .
T Consensus       311 ~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~---~  385 (530)
T 2ooe_A          311 RAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARE---D  385 (530)
T ss_dssp             HHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT---C
T ss_pred             HHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHh---c
Confidence            8763   4 5778999999999999999999999999984  5643  4788888888889999999999998853   2


Q ss_pred             CCC-hhHHHHHHHH-HHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc----c
Q 041741          639 EPI-LDHYTCMIDC-LGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSA----P  710 (748)
Q Consensus       639 ~~~-~~~~~~l~~~-~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~----~  710 (748)
                      .|. ...+...+.. +...|++++|..+|++..  .+.++..|..++..+...|+.++|..++++++...|.+|.    .
T Consensus       386 ~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~l  465 (530)
T 2ooe_A          386 ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEI  465 (530)
T ss_dssp             TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHH
T ss_pred             cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHH
Confidence            333 3334333333 336899999999999874  3446889999999999999999999999999998876665    5


Q ss_pred             hHHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          711 YSLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       711 ~~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      +...+......|+.+.+..+++++.+.
T Consensus       466 w~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          466 WARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             HHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            666677888889999999999988764

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.71  E-value=2.1e-16  Score=152.91  Aligned_cols=248  Identities=9%  Similarity=-0.002  Sum_probs=203.3

Q ss_pred             HHHHHhCCCchHHHHHHHHHHHCCCCCCH--HHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcC
Q 041741          477 IAGLSLNSLDIEAFMFFKQMRQNEMYPTQ--FSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCG  554 (748)
Q Consensus       477 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  554 (748)
                      ++-....|++..|+..++.....  .|+.  .....+..++...|+++.|...++.    .-+|+...+..+...+...|
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCC
Confidence            44566789999999988876533  4443  3556678899999999999876644    24567788888999999999


Q ss_pred             CHHHHHHHhhhcC----CC-CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHH
Q 041741          555 DIYGARQFFDMMH----GK-NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIF  629 (748)
Q Consensus       555 ~~~~A~~~~~~~~----~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~  629 (748)
                      +.++|.+.++++.    .| +...+..+...+...|++++|++.+++      +.+...+..++..+...|++++|...+
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999864    24 566778888999999999999999987      567788999999999999999999999


Q ss_pred             HHhhhhhCCCCChhH---HHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041741          630 NSMQLDHGVEPILDH---YTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLD  704 (748)
Q Consensus       630 ~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  704 (748)
                      +++...   .|+...   ...++..+...|++++|..+++++.  .++++..+..++..+...|++++|+..++++++.+
T Consensus       154 ~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          154 KKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999533   365321   1233455556699999999999985  56688999999999999999999999999999999


Q ss_pred             CCCCcchHHHhHHHhhcCChHH-HHHHHHHHHhcCC
Q 041741          705 PKNSAPYSLLANIYSSLGRWDD-LRAVRELMSENCI  739 (748)
Q Consensus       705 p~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~~  739 (748)
                      |+++.++..++.++...|+.++ +.++++++.+..+
T Consensus       231 p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P  266 (291)
T 3mkr_A          231 SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHR  266 (291)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT
T ss_pred             CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence            9999999999999999999987 5688888776544

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.71  E-value=2.5e-15  Score=158.20  Aligned_cols=216  Identities=11%  Similarity=-0.083  Sum_probs=120.7

Q ss_pred             CCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHH-----------
Q 041741          518 LSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQ-----------  583 (748)
Q Consensus       518 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~-----------  583 (748)
                      .++.+.|..+++...... +.+..++..+...|...|++++|...+++..+   .+..++..+..+|..           
T Consensus       226 ~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~~~  304 (472)
T 4g1t_A          226 GEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLREN  304 (472)
T ss_dssp             ----CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             hhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHHHH
Confidence            344455555555544433 22344445555555555555555555554432   233344444433321           


Q ss_pred             --------cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChh----HHHHHHHH
Q 041741          584 --------NGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILD----HYTCMIDC  651 (748)
Q Consensus       584 --------~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~----~~~~l~~~  651 (748)
                              .+.++.|...+++..+.. +.+..++..+...+...|++++|+..|++.. .  ..|+..    .+..++..
T Consensus       305 ~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL-~--~~~~~~~~~~~~~~~~~~  380 (472)
T 4g1t_A          305 GMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEF-S--KELTPVAKQLLHLRYGNF  380 (472)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHH-H--SCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHH-h--cCCCChHHHHHHHHHHHH
Confidence                    223567888888888753 3344578888899999999999999999884 2  233322    22333332


Q ss_pred             -HHhcCChHHHHHHHhhCC-CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHH
Q 041741          652 -LGRAGHFHEAEMLIDEMP-CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRA  729 (748)
Q Consensus       652 -~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  729 (748)
                       +...|++++|+..+++.. ..|+.....         +....+...++++++.+|+++.++..||.+|...|++++|++
T Consensus       381 ~~~~~~~~~~Ai~~y~kal~i~~~~~~~~---------~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~  451 (472)
T 4g1t_A          381 QLYQMKCEDKAIHHFIEGVKINQKSREKE---------KMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADE  451 (472)
T ss_dssp             HHHTSSCHHHHHHHHHHHHHSCCCCHHHH---------HHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC----
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCcccHHHH---------HHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence             356789999999988774 555543322         223455677888899999999999999999999999999999


Q ss_pred             HHHHHHhcCCCCCCCCCC
Q 041741          730 VRELMSENCIVKDPAYSL  747 (748)
Q Consensus       730 ~~~~~~~~~~~~~~~~~~  747 (748)
                      +|+++.+.+...-...+|
T Consensus       452 ~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          452 DSERGLESGSLIPSASSW  469 (472)
T ss_dssp             ------------------
T ss_pred             HHHHHHhcCCCCCcHhhc
Confidence            999988766543334444

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.70  E-value=2.9e-16  Score=159.12  Aligned_cols=260  Identities=11%  Similarity=-0.070  Sum_probs=209.8

Q ss_pred             CcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHH
Q 041741          469 DIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIE  548 (748)
Q Consensus       469 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  548 (748)
                      +...+..+...+...|++++|+..|+++.... +.+..++..+...+...|+++.|...++.+.+.. +.+...+..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            44557888888888899999999999888753 4467788888888899999999999999888775 346778888999


Q ss_pred             HHHhcCCHHHHHHHhhhcCC--CC-----------HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC--CHHHHHHHH
Q 041741          549 MYCKCGDIYGARQFFDMMHG--KN-----------TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKP--DDITFVAIL  613 (748)
Q Consensus       549 ~~~~~g~~~~A~~~~~~~~~--~~-----------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~l~  613 (748)
                      +|...|++++|...|+++.+  |+           ...+..+...+...|++++|+.+++++.+.. +.  +..++..+.
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l~  220 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHHH
Confidence            99999999999999988764  21           2233445788899999999999999999964 22  578899999


Q ss_pred             HHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHH
Q 041741          614 TACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVR  691 (748)
Q Consensus       614 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~  691 (748)
                      ..+...|++++|+..++++...  .+.+...+..++.+|...|++++|...++++.  .+.++..+..++..+...|+++
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHH
Confidence            9999999999999999998533  23347789999999999999999999999885  4456888999999999999999


Q ss_pred             HHHHHHHHHHhcCCC------------CCcchHHHhHHHhhcCChHHHHHHHHH
Q 041741          692 LAKRAAEELFRLDPK------------NSAPYSLLANIYSSLGRWDDLRAVREL  733 (748)
Q Consensus       692 ~a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~  733 (748)
                      +|...+++++++.|+            +..++..++.++...|+.+.|....++
T Consensus       299 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          299 EAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            999999999999887            367799999999999999999888764

>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=99.70  E-value=2.1e-16  Score=160.43  Aligned_cols=275  Identities=11%  Similarity=-0.041  Sum_probs=202.6

Q ss_pred             CChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHH-HHHHHHHCCC-CC--CHHHHHHHHHhhcCCCCchhHHHHH
Q 041741          453 QRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFM-FFKQMRQNEM-YP--TQFSFATVLSSCAKLSSSFQGRQVH  528 (748)
Q Consensus       453 ~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~-~~~~m~~~~~-~p--~~~~~~~l~~~~~~~~~~~~a~~~~  528 (748)
                      +.++.+...++.+...++.       ++...|++++|+. .+++...... .|  +...+..+...+...|+++.|...+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~   87 (368)
T 1fch_A           15 DFWDKLQAELEEMAKRDAE-------AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLF   87 (368)
T ss_dssp             --------------------------------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHcCCch-------hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3444444445444433322       3445678888888 7776554321 11  3456778888999999999999999


Q ss_pred             HHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcC---CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC
Q 041741          529 AQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMH---GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPD  605 (748)
Q Consensus       529 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  605 (748)
                      +.+.+.. +.+...+..+..++...|++++|.+.|+++.   ..+..++..++.++...|++++|+..++++.+..  |+
T Consensus        88 ~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~  164 (368)
T 1fch_A           88 EAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYT--PA  164 (368)
T ss_dssp             HHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TT
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cC
Confidence            9999875 4577888999999999999999999999875   3578899999999999999999999999999863  43


Q ss_pred             HH-HHHH---------------HHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC
Q 041741          606 DI-TFVA---------------ILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       606 ~~-~~~~---------------l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  669 (748)
                      .. .+..               .+..+...|++++|+..++++.......++...+..++.++.+.|++++|...++++.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  244 (368)
T 1fch_A          165 YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAAL  244 (368)
T ss_dssp             TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            32 2211               1333348899999999999996443332357888999999999999999999999885


Q ss_pred             --CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          670 --CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       670 --~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                        .+.++..+..++..+...|++++|...++++++.+|+++.++..++.+|...|++++|..+++++.+.
T Consensus       245 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          245 SVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence              44568899999999999999999999999999999999999999999999999999999999998763

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.70  E-value=4.2e-16  Score=157.91  Aligned_cols=231  Identities=12%  Similarity=-0.041  Sum_probs=195.5

Q ss_pred             CHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHH
Q 041741          504 TQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHG  580 (748)
Q Consensus       504 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~  580 (748)
                      +...+..+...+...|+++.|..+++.+.+.. +.+...+..+..+|.+.|++++|...|+++.+   .+..+|..++.+
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            34457778888999999999999999999875 45788899999999999999999999998763   468899999999


Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCCHH-----------HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHH
Q 041741          581 YAQNGYGDEAVRLYKDMIASGVKPDDI-----------TFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMI  649 (748)
Q Consensus       581 ~~~~~~~~~a~~~~~~m~~~~~~p~~~-----------~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  649 (748)
                      |...|++++|+..++++.+.  .|+..           .+..+...+...|++++|+.+++++.......++...+..++
T Consensus       143 ~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQ--NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHh--CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            99999999999999999985  34432           233457788999999999999999964433333678899999


Q ss_pred             HHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHH
Q 041741          650 DCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDL  727 (748)
Q Consensus       650 ~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  727 (748)
                      .+|...|++++|...++++.  .+.++..|..++..+...|++++|...++++++.+|+++.++..++.+|...|++++|
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHH
Confidence            99999999999999999885  4557889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhc
Q 041741          728 RAVRELMSEN  737 (748)
Q Consensus       728 ~~~~~~~~~~  737 (748)
                      ..+++++.+.
T Consensus       301 ~~~~~~al~~  310 (365)
T 4eqf_A          301 VSNFLTALSL  310 (365)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998763

>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=99.69  E-value=1.1e-15  Score=152.30  Aligned_cols=260  Identities=10%  Similarity=-0.096  Sum_probs=205.9

Q ss_pred             cchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHH
Q 041741          470 IVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEM  549 (748)
Q Consensus       470 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  549 (748)
                      ...+..+...+...|++++|...|+++.+.. +.+...+..+...+...|+++.|...++.+.+.. +.+...+..+...
T Consensus        21 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   98 (327)
T 3cv0_A           21 HENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVS   98 (327)
T ss_dssp             SSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHH
Confidence            3445666777777888888888888877653 3356677777777888888888888888877764 3456777788888


Q ss_pred             HHhcCCHHHHHHHhhhcCC--C-CHHHHHHH--------------HH-HHHHcCChhHHHHHHHHHHHcCCCCCHHHHHH
Q 041741          550 YCKCGDIYGARQFFDMMHG--K-NTVTWNEM--------------IH-GYAQNGYGDEAVRLYKDMIASGVKPDDITFVA  611 (748)
Q Consensus       550 ~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  611 (748)
                      +...|++++|.+.++.+.+  | +...+..+              .. .+...|++++|..+++++.+.. +.+...+..
T Consensus        99 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  177 (327)
T 3cv0_A           99 HTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHAS  177 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHH
Confidence            8888888888888887653  2 22223222              22 3677889999999999999864 456788999


Q ss_pred             HHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCC
Q 041741          612 ILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHAN  689 (748)
Q Consensus       612 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~  689 (748)
                      +...+...|++++|...++++...  .+.+...+..++.++...|++++|...++++.  .+.++..+..++..+...|+
T Consensus       178 la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~  255 (327)
T 3cv0_A          178 LGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQ  255 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcc
Confidence            999999999999999999998532  23346778899999999999999999999875  44568889999999999999


Q ss_pred             HHHHHHHHHHHHhcCCC------------CCcchHHHhHHHhhcCChHHHHHHHHHH
Q 041741          690 VRLAKRAAEELFRLDPK------------NSAPYSLLANIYSSLGRWDDLRAVRELM  734 (748)
Q Consensus       690 ~~~a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~  734 (748)
                      +++|...++++++..|+            ++.++..++.++...|++++|..++++.
T Consensus       256 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          256 YDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            99999999999999998            6789999999999999999999998754

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.67  E-value=1.9e-13  Score=145.54  Aligned_cols=406  Identities=12%  Similarity=0.062  Sum_probs=277.4

Q ss_pred             CCchHHHHHHHHHHHhcCChhHHHHHhccCCCC---CcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHH
Q 041741          269 EADLHLSNSLLDMYAKNGDMDSAEVIFSNLPER---SVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINML  345 (748)
Q Consensus       269 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  345 (748)
                      +-+...+..++. +...|+++.|..+|+.+.+.   +...|...+..+.+.|++++|..+|+++....  |+...+...+
T Consensus        10 P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~   86 (530)
T 2ooe_A           10 PYDLDAWSILIR-EAQNQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYL   86 (530)
T ss_dssp             TTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHH
T ss_pred             CCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHH
Confidence            446778888888 47899999999999998763   44578899999999999999999999998764  6777766666


Q ss_pred             HHH-HhcCCHHHHHH----HhccCC------CCCcchHHHHHHHHHc---------cCCHHHHHHHHHHHHHcCCCCCH-
Q 041741          346 VAC-VRSGDIKTGRE----MFDSMP------SPSVSSWNAMLSSYSQ---------SENHKEAIKLFREMQFRGVKPDR-  404 (748)
Q Consensus       346 ~~~-~~~~~~~~a~~----~~~~~~------~~~~~~~~~ll~~~~~---------~~~~~~a~~~~~~m~~~g~~p~~-  404 (748)
                      ... ...|+.+.|.+    +|+...      .++...|...+....+         .|+++.|..+|++..+.   |.. 
T Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~---P~~~  163 (530)
T 2ooe_A           87 SYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN---PMIN  163 (530)
T ss_dssp             HHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS---CCTT
T ss_pred             HHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc---hhhh
Confidence            533 35677776654    555432      1345667777766554         68899999999999873   432 


Q ss_pred             --hhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHh----------hCC---CCC
Q 041741          405 --TTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFH----------RIP---ELD  469 (748)
Q Consensus       405 --~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~----------~~~---~~~  469 (748)
                        ..+..........|. ..+..++.                     ...+++..|..++.          ...   .|+
T Consensus       164 ~~~~~~~~~~~e~~~~~-~~~~~~l~---------------------~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~  221 (530)
T 2ooe_A          164 IEQLWRDYNKYEEGINI-HLAKKMIE---------------------DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQ  221 (530)
T ss_dssp             HHHHHHHHHHHHHHHCH-HHHHHHHH---------------------TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC
T ss_pred             HHHHHHHHHHHHHhhch-hHHHHHHH---------------------HhhHHHHHHHHHHHHHHHHHHHhccccccCCCC
Confidence              222222111100110 01111110                     01122233332222          111   111


Q ss_pred             --------cchHHHHHHHHHhC----CCc----hHHHHHHHHHHHCCCCCCHHHHHHHHHhhcC-------CCCch----
Q 041741          470 --------IVCWNSMIAGLSLN----SLD----IEAFMFFKQMRQNEMYPTQFSFATVLSSCAK-------LSSSF----  522 (748)
Q Consensus       470 --------~~~~~~li~~~~~~----~~~----~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~-------~~~~~----  522 (748)
                              ...|...+......    ++.    ..+..+|++..... +-+...|......+..       .|+++    
T Consensus       222 ~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~  300 (530)
T 2ooe_A          222 NTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKL  300 (530)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHH
T ss_pred             CChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhh
Confidence                    12344444332221    222    36778888887752 3456667666666654       78887    


Q ss_pred             ---hHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--C-CH-HHHHHHHHHHHHcCChhHHHHHHH
Q 041741          523 ---QGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG--K-NT-VTWNEMIHGYAQNGYGDEAVRLYK  595 (748)
Q Consensus       523 ---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~-~~~~~l~~~~~~~~~~~~a~~~~~  595 (748)
                         .|..+++...+.-.+.+...+..++..+.+.|++++|..+|+++.+  | +. ..|..++..+.+.|++++|..+|+
T Consensus       301 ~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~  380 (530)
T 2ooe_A          301 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  380 (530)
T ss_dssp             HHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHH
Confidence               8888888887633345788999999999999999999999998763  4 33 578899999999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHH-hcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-
Q 041741          596 DMIASGVKPDDITFVAILTA-CSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-  672 (748)
Q Consensus       596 ~m~~~~~~p~~~~~~~l~~~-~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-  672 (748)
                      +..+.. +.+...+...... +...|+.++|..+|++.....  +.+...+..++..+.+.|+.++|..+|++.. ..| 
T Consensus       381 ~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~  457 (530)
T 2ooe_A          381 KAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  457 (530)
T ss_dssp             HHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCS
T ss_pred             HHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCC
Confidence            999852 2223333322222 335899999999999886443  2346788899999999999999999999885 222 


Q ss_pred             C----HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041741          673 D----PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK  706 (748)
Q Consensus       673 ~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  706 (748)
                      +    ...|...+......|+.+.+..+.+++.+..|+
T Consensus       458 ~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p~  495 (530)
T 2ooe_A          458 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFRE  495 (530)
T ss_dssp             CGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCch
Confidence            2    347888888888899999999999999999885

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.66  E-value=1.8e-15  Score=139.71  Aligned_cols=194  Identities=13%  Similarity=0.028  Sum_probs=158.1

Q ss_pred             CCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 041741          537 VNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAIL  613 (748)
Q Consensus       537 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~  613 (748)
                      ++++..+..+...+.+.|++++|...|++..+   .+...+..+..++...|++++|+..+++..+.. +.+...+..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            45677788888999999999999999998764   467889999999999999999999999999963 44567888899


Q ss_pred             HHhcCC-----------CChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHH
Q 041741          614 TACSHS-----------GLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEV  679 (748)
Q Consensus       614 ~~~~~~-----------~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~  679 (748)
                      .++...           |++++|+..+++...   ..|+ ...+..++.+|...|++++|...+++..  . .++..+..
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~  156 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAER---VNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE-DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc-cchHHHHH
Confidence            999999           999999999999853   3454 6778899999999999999999999885  5 78899999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHH
Q 041741          680 LLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       680 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      +...+...|++++|...++++++.+|+++.++..++.++...|++++|...+++..
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999998754

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.63  E-value=8.5e-14  Score=146.45  Aligned_cols=379  Identities=11%  Similarity=-0.041  Sum_probs=195.4

Q ss_pred             cHHHHHHHHHhcCChhHHHHHHHHHHhc-------CCCC-ChhhHHHHHHHHHhcCCHHHHHHHhccCCC----------
Q 041741          305 SWNVMIAGYGQKYQSTKAIELLQRMKSC-------GFEP-DEVTSINMLVACVRSGDIKTGREMFDSMPS----------  366 (748)
Q Consensus       305 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~-------g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----------  366 (748)
                      .||.+...+...|+.++|++.|++..+.       ...| ...+|..+..+|...|++++|...+++...          
T Consensus        53 ~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~  132 (472)
T 4g1t_A           53 MCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYR  132 (472)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccc
Confidence            4555555555555555555555554321       1122 234566666666667777666666554421          


Q ss_pred             -CCcchHHHHHHHHH--ccCCHHHHHHHHHHHHHcCCCCCH-hhHHHHHHH---hhccCChHHHHHHHHHHHhhcCCchh
Q 041741          367 -PSVSSWNAMLSSYS--QSENHKEAIKLFREMQFRGVKPDR-TTLAIILSS---CAAMGILESGKQVHAASLKTASHIDN  439 (748)
Q Consensus       367 -~~~~~~~~ll~~~~--~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~---~~~~~~~~~a~~~~~~~~~~~~~~~~  439 (748)
                       ....++..+..++.  ..+++++|++.|++..+.  .|+. ..+..+..+   +...++.+.+.+.+..+++..+. +.
T Consensus       133 ~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~-~~  209 (472)
T 4g1t_A          133 IESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD-NQ  209 (472)
T ss_dssp             CCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS-CH
T ss_pred             hhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc-ch
Confidence             12234444443443  345688888888887765  4543 233332222   33456667777777777765543 23


Q ss_pred             HHHHHHHHHHH----hcCChHHHHHHHhhCCC---CCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHH
Q 041741          440 YVASGLIGIYS----KCQRNELAERVFHRIPE---LDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVL  512 (748)
Q Consensus       440 ~~~~~l~~~~~----~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~  512 (748)
                      ..+..+...+.    ..++.++|.+.+++...   .+...+..+...|...|++++|+..+++..+.. +.+..++..+.
T Consensus       210 ~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg  288 (472)
T 4g1t_A          210 YLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIG  288 (472)
T ss_dssp             HHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHH
Confidence            33333333332    34556666666665542   234456666677777777777777777766542 22333444433


Q ss_pred             HhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcC---CCCHHHHHHHHHHHHHcCChhH
Q 041741          513 SSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMH---GKNTVTWNEMIHGYAQNGYGDE  589 (748)
Q Consensus       513 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~  589 (748)
                      ..+...+.         ...... .      ..........+.++.|...++...   ..+...+..+...+...|++++
T Consensus       289 ~~y~~~~~---------~~~~~~-~------~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~  352 (472)
T 4g1t_A          289 CCYRAKVF---------QVMNLR-E------NGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEE  352 (472)
T ss_dssp             HHHHHHHH---------HHHHC-------------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHH---------HhhhHH-H------HHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHH
Confidence            33321100         000000 0      000001111234567777777654   2456678889999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHH--HHHHHHH-HhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHh
Q 041741          590 AVRLYKDMIASGVKPDDI--TFVAILT-ACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLID  666 (748)
Q Consensus       590 a~~~~~~m~~~~~~p~~~--~~~~l~~-~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  666 (748)
                      |+..|++.++....|...  .+..+.. .....|++++|+..|++..   .+.|+........         ..+..+++
T Consensus       353 A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal---~i~~~~~~~~~~~---------~~l~~~~~  420 (472)
T 4g1t_A          353 AEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGV---KINQKSREKEKMK---------DKLQKIAK  420 (472)
T ss_dssp             HHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHH---HSCCCCHHHHHHH---------HHHHHHHH
T ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH---hcCcccHHHHHHH---------HHHHHHHH
Confidence            999999999864333221  2233332 3357899999999999875   4566643322222         23333443


Q ss_pred             hCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHh
Q 041741          667 EMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLA  715 (748)
Q Consensus       667 ~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  715 (748)
                      +..  .+.++..+..++..+...|++++|.+.++++++++|.+|.+...+|
T Consensus       421 ~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          421 MRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             HHHHHCC-CTTHHHHHHHHHHHHHHCC------------------------
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence            332  4557889999999999999999999999999999999988876665

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.62  E-value=1.8e-14  Score=137.76  Aligned_cols=217  Identities=9%  Similarity=-0.013  Sum_probs=165.4

Q ss_pred             HHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--C----C----HHHHHH
Q 041741          507 SFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG--K----N----TVTWNE  576 (748)
Q Consensus       507 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~----~----~~~~~~  576 (748)
                      .+..+...+...|+++.|..+++.+.+..  .+...+..+..++...|++++|.+.++...+  |    +    ...+..
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            44445555556666666666666666555  5566666677777777777777777776553  1    1    467788


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhc
Q 041741          577 MIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRA  655 (748)
Q Consensus       577 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~  655 (748)
                      +..++...|++++|+..++++.+.  .|+..       .+...|++++|...++++..   ..|+ ...+..++.++...
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~-------~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTE--HRTAD-------ILTKLRNAEKELKKAEAEAY---VNPEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CCCHH-------HHHHHHHHHHHHHHHHHHHH---CCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhc--CchhH-------HHHHHhHHHHHHHHHHHHHH---cCcchHHHHHHHHHHHHHh
Confidence            888888889999999999888884  46543       34455778888888888742   2333 56677888889999


Q ss_pred             CChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHH
Q 041741          656 GHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVREL  733 (748)
Q Consensus       656 g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  733 (748)
                      |++++|...++++.  .+.++..+..++..+...|++++|...++++++.+|+++.++..++.+|...|++++|...+++
T Consensus       153 ~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  232 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDA  232 (258)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            99999999988875  4456788888888899999999999999999999999999999999999999999999999998


Q ss_pred             HHhc
Q 041741          734 MSEN  737 (748)
Q Consensus       734 ~~~~  737 (748)
                      +.+.
T Consensus       233 a~~~  236 (258)
T 3uq3_A          233 ARTK  236 (258)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            7653

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.60  E-value=3.9e-16  Score=165.61  Aligned_cols=158  Identities=18%  Similarity=0.138  Sum_probs=128.7

Q ss_pred             hhhhHHHHHhhcCCChhHHHHhhccCC-------CCCchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHH
Q 041741           55 YSWNAILSAQCKSDDLEFAYKLFDEMP-------ERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVF  127 (748)
Q Consensus        55 ~~~~~l~~~~~~~~~~~~a~~~~~~~~-------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  127 (748)
                      .+|+++|.+||+.|++++|..+|++|.       .||+++||+||.+|++.|+.++|.++|++|.+.|+.||..||+++|
T Consensus       128 ~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI  207 (1134)
T 3spa_A          128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL  207 (1134)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            489999999999999999999997753       4899999999999999999999999999999999999999999999


Q ss_pred             HHhccccCc-HHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCC-----CCeehHHHHHHHHHcCCC
Q 041741          128 KASTALLDV-EHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSE-----PNEVTFTAMMSGLAKTDR  201 (748)
Q Consensus       128 ~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~li~~~~~~g~  201 (748)
                      .++++.|+. +.|.+++++|.+.|+.||..+|++++....+.+-++.+.++...+.-     +...+...|...+.+.+.
T Consensus       208 ~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~d~~  287 (1134)
T 3spa_A          208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGR  287 (1134)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCCCSC
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHccCCC
Confidence            999999985 78999999999999999999999999888775444444444333321     124455566666666552


Q ss_pred             ---------HHHHHHHHHHH
Q 041741          202 ---------VVEALEMFRLM  212 (748)
Q Consensus       202 ---------~~~a~~~~~~m  212 (748)
                               .++-.+.|++=
T Consensus       288 ~s~pk~~~~~~~L~~~~~~Q  307 (1134)
T 3spa_A          288 VSYPKLHLPLKTLQCLFEKQ  307 (1134)
T ss_dssp             CCCCCCSSCHHHHHHHHHHH
T ss_pred             CcCccccCCHHHHHHHHHHH
Confidence                     35555555543

>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=99.60  E-value=1.6e-13  Score=136.46  Aligned_cols=264  Identities=10%  Similarity=-0.038  Sum_probs=137.1

Q ss_pred             CcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHH
Q 041741          368 SVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIG  447 (748)
Q Consensus       368 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  447 (748)
                      +...+..+...+...|++++|..+++++.+.. +.+...+..+..++...|+++.|...++.+.+..+.           
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-----------   87 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-----------   87 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-----------
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcC-----------
Confidence            33456667777788888888888888877652 234455555556666666666666666666554322           


Q ss_pred             HHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCH-HHHHH-------------H-H
Q 041741          448 IYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQ-FSFAT-------------V-L  512 (748)
Q Consensus       448 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~-------------l-~  512 (748)
                                           +...+..+...+...|++++|...++++....  |+. ..+..             + .
T Consensus        88 ---------------------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~  144 (327)
T 3cv0_A           88 ---------------------DIAVHAALAVSHTNEHNANAALASLRAWLLSQ--PQYEQLGSVNLQADVDIDDLNVQSE  144 (327)
T ss_dssp             ---------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTTTC-------------------
T ss_pred             ---------------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHhHHHHHHHHHHHHHH
Confidence                                 22334444445555555555555555555432  111 11111             1 1


Q ss_pred             H-hhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChh
Q 041741          513 S-SCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGD  588 (748)
Q Consensus       513 ~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~  588 (748)
                      . .+...|+++.|...++.+.+.. +.+...+..+...+...|++++|.+.++++.+   .+...+..++..+...|+++
T Consensus       145 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  223 (327)
T 3cv0_A          145 DFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQ  223 (327)
T ss_dssp             -CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             hHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHH
Confidence            1 2455556666666666655543 22445555555555555555555555554431   23445555555555555555


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC----------ChhHHHHHHHHHHhcCCh
Q 041741          589 EAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP----------ILDHYTCMIDCLGRAGHF  658 (748)
Q Consensus       589 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~----------~~~~~~~l~~~~~~~g~~  658 (748)
                      +|...++++.+.. +.+...+..+...+...|++++|...++++.....-..          +...+..++.++.+.|++
T Consensus       224 ~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  302 (327)
T 3cv0_A          224 EALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRP  302 (327)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCH
Confidence            5555555555532 23344555555555555555555555555432111000          133444455555555555


Q ss_pred             HHHHHHHhhC
Q 041741          659 HEAEMLIDEM  668 (748)
Q Consensus       659 ~~A~~~~~~~  668 (748)
                      ++|...+++.
T Consensus       303 ~~A~~~~~~~  312 (327)
T 3cv0_A          303 DLVELTYAQN  312 (327)
T ss_dssp             HHHHHHTTCC
T ss_pred             HHHHHHHHHH
Confidence            5555554443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.59  E-value=2.7e-13  Score=140.23  Aligned_cols=376  Identities=9%  Similarity=0.006  Sum_probs=194.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH---HHHHHHhccCCCCCcchHHHHHHHHHccC--
Q 041741          309 MIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDI---KTGREMFDSMPSPSVSSWNAMLSSYSQSE--  383 (748)
Q Consensus       309 l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~ll~~~~~~~--  383 (748)
                      +...+.+.|++++|+++|++..+.|.   ...+..+-..+...|+.   ++|...|+...+.++..+..+...+...+  
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g~---~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~   85 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELGY---SEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGA   85 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTC---CTGGGTCC----------------------------CHHHHHHHHHTC--C
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCC
Confidence            45566777888888888888877762   23333444455556776   88888888887767777777777555554  


Q ss_pred             ---CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCCh---HHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCC---
Q 041741          384 ---NHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGIL---ESGKQVHAASLKTASHIDNYVASGLIGIYSKCQR---  454 (748)
Q Consensus       384 ---~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  454 (748)
                         ++++|+..+++..+.|...   .+..+...+...+..   ..+.+.+......+   +......+..+|...+.   
T Consensus        86 ~~~~~~~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~  159 (452)
T 3e4b_A           86 TEAEHHEAESLLKKAFANGEGN---TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQ  159 (452)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCSS---CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGG
T ss_pred             CCcCHHHHHHHHHHHHHCCCHH---HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCccc
Confidence               7889999999988876433   444444455444432   33344444444444   23444555566666553   


Q ss_pred             -hHHHHHHHhhCCCCCcchHHHHHHHHHhCC---CchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHH
Q 041741          455 -NELAERVFHRIPELDIVCWNSMIAGLSLNS---LDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQ  530 (748)
Q Consensus       455 -~~~a~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  530 (748)
                       .+.+..+++.....++..+..+...|...|   +.++|+..|++..+.| +++...+..+...|...            
T Consensus       160 ~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g------------  226 (452)
T 3e4b_A          160 HLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDA------------  226 (452)
T ss_dssp             GHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCG------------
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCC------------
Confidence             344444555555555556666666666666   6666666666666655 22222222233333222            


Q ss_pred             HHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHH-H--HHcCChhHHHHHHHHHHHcCCCCCHH
Q 041741          531 IEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHG-Y--AQNGYGDEAVRLYKDMIASGVKPDDI  607 (748)
Q Consensus       531 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~m~~~~~~p~~~  607 (748)
                                         ....+++++|.+.|+.....++..+..|... +  ...+++++|+..|++..+.|   +..
T Consensus       227 -------------------~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~  284 (452)
T 3e4b_A          227 -------------------TLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPR  284 (452)
T ss_dssp             -------------------GGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHH
T ss_pred             -------------------CCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHH
Confidence                               0001455555555555442244455555554 2  34566677777777766654   344


Q ss_pred             HHHHHHHHhcCCC-----ChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHh----cCChHHHHHHHhhCCCCCCHhHHH
Q 041741          608 TFVAILTACSHSG-----LVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGR----AGHFHEAEMLIDEMPCKDDPVIWE  678 (748)
Q Consensus       608 ~~~~l~~~~~~~~-----~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~  678 (748)
                      .+..+...|. .|     ++++|+..|++..     .-+......++.+|..    ..++++|..++++.....++....
T Consensus       285 A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~  358 (452)
T 3e4b_A          285 AELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADF  358 (452)
T ss_dssp             HHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHH
T ss_pred             HHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHH
Confidence            4444544444 33     6777777776652     3345555666666655    336777777776665334455555


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCcchHHHhHHH--hhcCChHHHHHHHHHHHh
Q 041741          679 VLLSSCRL----HANVRLAKRAAEELFRLDPKNSAPYSLLANIY--SSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       679 ~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~A~~~~~~~~~  736 (748)
                      .+...|..    ..|+++|...++++.+..+.+  +...+..+.  ...++.++|....++.++
T Consensus       359 ~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~~--a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          359 AIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTPE--ANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCHH--HHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCHH--HHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            55555542    346777777777776655432  333333332  333455566666665544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.55  E-value=5.8e-14  Score=134.22  Aligned_cols=234  Identities=8%  Similarity=-0.087  Sum_probs=184.8

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCC--Cc----hHHHHH
Q 041741          472 CWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYV--ND----IFVGSA  545 (748)
Q Consensus       472 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~~  545 (748)
                      .+..+...+...|++++|+..|++..+..  .+...+..+...+...|+++.|...+..+.+....  ++    ...+..
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            45566777777888888888888877765  66677777888888888888888888877765321  12    577888


Q ss_pred             HHHHHHhcCCHHHHHHHhhhcCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChH
Q 041741          546 LIEMYCKCGDIYGARQFFDMMHG--KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVD  623 (748)
Q Consensus       546 l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  623 (748)
                      +..++...|++++|...|+.+.+  |+.       ..+...|++++|...++++.... +.+...+..+...+...|+++
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  156 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTEHRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWP  156 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHH
Confidence            88899999999999999988764  442       34666788899999999999852 233457888888999999999


Q ss_pred             HHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 041741          624 VGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELF  701 (748)
Q Consensus       624 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  701 (748)
                      +|+..++++....  +.+...+..++.++...|++++|...+++..  .+.++..+..+...+...|++++|...+++++
T Consensus       157 ~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  234 (258)
T 3uq3_A          157 NAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAAR  234 (258)
T ss_dssp             HHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC--cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            9999999985332  3346778899999999999999999998885  44568888899999999999999999999999


Q ss_pred             hcC------CCCCcchHHHhHH
Q 041741          702 RLD------PKNSAPYSLLANI  717 (748)
Q Consensus       702 ~~~------p~~~~~~~~l~~~  717 (748)
                      ++.      |++..+...+..+
T Consensus       235 ~~~~~~~~~p~~~~~~~~l~~~  256 (258)
T 3uq3_A          235 TKDAEVNNGSSAREIDQLYYKA  256 (258)
T ss_dssp             HHHHHHHTTTTHHHHHHHHHHT
T ss_pred             HhChhhcCCCchHHHHHHHHHh
Confidence            998      8777776666554

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.54  E-value=2.7e-13  Score=128.96  Aligned_cols=197  Identities=8%  Similarity=-0.075  Sum_probs=140.4

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHh
Q 041741          540 IFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTAC  616 (748)
Q Consensus       540 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  616 (748)
                      +..+..+...+...|++++|.+.|+++.+   .+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            34455556666666666666666665542   355667777777777777788888777777753 34556677777777


Q ss_pred             cCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHH
Q 041741          617 SHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLA  693 (748)
Q Consensus       617 ~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a  693 (748)
                      ...|++++|..+++++.. .+..|+ ...+..++.++...|++++|...++++.  .+.++..+..++..+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            778888888888877743 223443 4566677777888888888888877764  334567777777778888888888


Q ss_pred             HHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          694 KRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       694 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      ...++++++..|+++..+..++.++...|++++|.++++++.+..
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            888888888888777788888888888888888888888776644

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.54  E-value=5.2e-13  Score=124.48  Aligned_cols=198  Identities=13%  Similarity=0.025  Sum_probs=160.3

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 041741          539 DIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTA  615 (748)
Q Consensus       539 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  615 (748)
                      ++..+..+...+...|++++|.+.++.+.+   .+...+..++..+...|++++|..+++++.+.. +.+..++..+...
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            456667777888888888888888887652   457788888888889999999999999988863 4466778888888


Q ss_pred             hcCC-CChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHH
Q 041741          616 CSHS-GLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVR  691 (748)
Q Consensus       616 ~~~~-~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~  691 (748)
                      +... |++++|...++++.. .+..|+ ...+..++.++...|++++|...++++.  .+.++..+..++..+...|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHH
Confidence            8899 999999999988853 223343 5667788889999999999999988774  3445778888888888999999


Q ss_pred             HHHHHHHHHHhcCC-CCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          692 LAKRAAEELFRLDP-KNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       692 ~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      +|...++++++..| +++..+..++.++...|+.++|..+++.+.+..
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            99999999999999 888888888888899999999999998876543

>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=99.54  E-value=1.2e-12  Score=126.23  Aligned_cols=223  Identities=9%  Similarity=-0.106  Sum_probs=111.1

Q ss_pred             CcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcC----CCCchhHHHHHHHHHHhCCCCchHHHH
Q 041741          469 DIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAK----LSSSFQGRQVHAQIEKDGYVNDIFVGS  544 (748)
Q Consensus       469 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  544 (748)
                      ++.++..+...+...|++++|+..|++..+.   .+...+..+...+..    .+++++|..+++...+.+         
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---------   72 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---------   72 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---------
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---------
Confidence            3445555556666666666666666666552   123344444444444    555555555555544443         


Q ss_pred             HHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHH----cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC--
Q 041741          545 ALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQ----NGYGDEAVRLYKDMIASGVKPDDITFVAILTACSH--  618 (748)
Q Consensus       545 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~--  618 (748)
                                               ++..+..+...|..    .+++++|+..|++..+.+   +...+..+...|..  
T Consensus        73 -------------------------~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~  124 (273)
T 1ouv_A           73 -------------------------YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGK  124 (273)
T ss_dssp             -------------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCS
T ss_pred             -------------------------CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCC
Confidence                                     34444444444444    555555555555555432   33444444444444  


Q ss_pred             --CCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHh----cCChHHHHHHHhhCCCCCCHhHHHHHHHHHHh----cC
Q 041741          619 --SGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGR----AGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRL----HA  688 (748)
Q Consensus       619 --~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~  688 (748)
                        .+++++|+..+++.. ..+   +...+..++.+|..    .+++++|...+++.....++..+..+...+..    .+
T Consensus       125 ~~~~~~~~A~~~~~~a~-~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~  200 (273)
T 1ouv_A          125 VVTRDFKKAVEYFTKAC-DLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATK  200 (273)
T ss_dssp             SSCCCHHHHHHHHHHHH-HTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCC
T ss_pred             CcccCHHHHHHHHHHHH-hcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCc
Confidence              555555555555542 211   23334444555544    55555555555544322334444445555555    55


Q ss_pred             CHHHHHHHHHHHHhcCCCCCcchHHHhHHHhh----cCChHHHHHHHHHHHhc
Q 041741          689 NVRLAKRAAEELFRLDPKNSAPYSLLANIYSS----LGRWDDLRAVRELMSEN  737 (748)
Q Consensus       689 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~  737 (748)
                      ++++|...++++++.+|  +.++..++.+|..    .|++++|.+++++..+.
T Consensus       201 ~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~  251 (273)
T 1ouv_A          201 NFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKL  251 (273)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHc
Confidence            55555555555555543  4455555555555    55555555555554443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.54  E-value=1.9e-13  Score=132.01  Aligned_cols=241  Identities=8%  Similarity=-0.151  Sum_probs=189.4

Q ss_pred             hCCCchHHHHHHHHHHHCCCC---CCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHH
Q 041741          482 LNSLDIEAFMFFKQMRQNEMY---PTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYG  558 (748)
Q Consensus       482 ~~~~~~~a~~~~~~m~~~~~~---p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  558 (748)
                      ..|++++|+..|+++.+....   .+..++..+...+...|+++.|...++.+.+.. +.+...+..+..+|...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHH
Confidence            457788999999998876321   135577788888899999999999999988875 3467888899999999999999


Q ss_pred             HHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhh
Q 041741          559 ARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLD  635 (748)
Q Consensus       559 A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  635 (748)
                      |...|+++.+   .+...+..++.++...|++++|...++++.+.  .|+.......+..+...|++++|...+++....
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            9999998763   46788999999999999999999999999985  455544444555556779999999999877433


Q ss_pred             hCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCC-----HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 041741          636 HGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDD-----PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSA  709 (748)
Q Consensus       636 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  709 (748)
                        .+++... ..++..+...++.++|...+++.. ..|.     +..+..++..+...|++++|...++++++.+|++..
T Consensus       174 --~~~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  250 (275)
T 1xnf_A          174 --SDKEQWG-WNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFV  250 (275)
T ss_dssp             --SCCCSTH-HHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCH
T ss_pred             --CCcchHH-HHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHH
Confidence              2333333 347777888889999999998875 2221     567888888999999999999999999999997744


Q ss_pred             chHHHhHHHhhcCChHHHHHHH
Q 041741          710 PYSLLANIYSSLGRWDDLRAVR  731 (748)
Q Consensus       710 ~~~~l~~~~~~~g~~~~A~~~~  731 (748)
                         ..+.++...|++++|++.+
T Consensus       251 ---~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          251 ---EHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             ---HHHHHHHHHHHHHHC----
T ss_pred             ---HHHHHHHHHHHHHhhHHHH
Confidence               4477889999999999887

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.53  E-value=2e-13  Score=131.68  Aligned_cols=244  Identities=12%  Similarity=-0.005  Sum_probs=140.2

Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCC--chHHHHHHHHHHHh
Q 041741          475 SMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVN--DIFVGSALIEMYCK  552 (748)
Q Consensus       475 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~  552 (748)
                      .....+...|++++|+..|++..+.. +.+...+..+...+...|+++.|...++.+.+.+..+  ....+..+..++..
T Consensus         8 ~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~   86 (272)
T 3u4t_A            8 RYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMK   86 (272)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHH
Confidence            33444455555555555555555432 1122244444445555555555555555554422111  12235556666666


Q ss_pred             cCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHH
Q 041741          553 CGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIF  629 (748)
Q Consensus       553 ~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~  629 (748)
                      .|++++|.+.|++..+   .+...|..+...+...|++++|+..+++..+.. +.+...+..+...+...+++++|+..+
T Consensus        87 ~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  165 (272)
T 3u4t_A           87 KGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSF  165 (272)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666665542   345566667777777777777777777766642 333445555552333344777777777


Q ss_pred             HHhhhhhCCCCC-hhHHHHHHHHHHhcCC---hHHHHHHHhhCC----CCCCH------hHHHHHHHHHHhcCCHHHHHH
Q 041741          630 NSMQLDHGVEPI-LDHYTCMIDCLGRAGH---FHEAEMLIDEMP----CKDDP------VIWEVLLSSCRLHANVRLAKR  695 (748)
Q Consensus       630 ~~~~~~~~~~~~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~----~~~~~------~~~~~l~~~~~~~~~~~~a~~  695 (748)
                      +++...   .|+ ...+..++.++...|+   +++|...+++..    ..|++      ..+..+...+...|++++|..
T Consensus       166 ~~a~~~---~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  242 (272)
T 3u4t_A          166 VKVLEL---KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADA  242 (272)
T ss_dssp             HHHHHH---STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHh---CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            766422   233 4555666666666666   666666665553    12331      456667778888999999999


Q ss_pred             HHHHHHhcCCCCCcchHHHhHHHhhcCC
Q 041741          696 AAEELFRLDPKNSAPYSLLANIYSSLGR  723 (748)
Q Consensus       696 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~  723 (748)
                      .++++++++|+++.+...+..+....+.
T Consensus       243 ~~~~al~~~p~~~~a~~~l~~~~~~~~~  270 (272)
T 3u4t_A          243 AWKNILALDPTNKKAIDGLKMKLEHHHH  270 (272)
T ss_dssp             HHHHHHHHCTTCHHHHHHHC--------
T ss_pred             HHHHHHhcCccHHHHHHHhhhhhccccc
Confidence            9999999999998888888777665543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.52  E-value=4.8e-13  Score=138.42  Aligned_cols=344  Identities=9%  Similarity=-0.045  Sum_probs=230.4

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCCh---HHHHHHHHHHHhhcCCchhHHHHHHHHHHH
Q 041741          374 AMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGIL---ESGKQVHAASLKTASHIDNYVASGLIGIYS  450 (748)
Q Consensus       374 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  450 (748)
                      .+...+.+.|++++|+++|++..+.|.   ...+..+-..+...|+.   ++|...++...+.    ++..+..+..++.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g~---~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELGY---SEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTC---CTGGGTCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            356677889999999999999988763   23333444455567777   8888888888765    3444555556454


Q ss_pred             hcC-----ChHHHHHHHhhCCCC-CcchHHHHHHHHHhCCCc---hHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCc
Q 041741          451 KCQ-----RNELAERVFHRIPEL-DIVCWNSMIAGLSLNSLD---IEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSS  521 (748)
Q Consensus       451 ~~~-----~~~~a~~~~~~~~~~-~~~~~~~li~~~~~~~~~---~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~  521 (748)
                      ..+     +.++|...|++..++ ++..+..+...|...+..   .++.+.+......|.   ......+...+...+.+
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~Lg~~y~~~~~~  157 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY---PEAGLAQVLLYRTQGTY  157 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC---TTHHHHHHHHHHHHTCG
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCc
Confidence            444     678899988887654 555788888888776654   345556665555543   33455566666677767


Q ss_pred             hhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcC---CHHHHHHHhhhcCC---CCHHHHHHHHHHHHHc----CChhHHH
Q 041741          522 FQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCG---DIYGARQFFDMMHG---KNTVTWNEMIHGYAQN----GYGDEAV  591 (748)
Q Consensus       522 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~----~~~~~a~  591 (748)
                      +.+......+.+.-...++..+..+..+|.+.|   +.++|.+.|+...+   ++...+..+...|...    +++++|+
T Consensus       158 ~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~  237 (452)
T 3e4b_A          158 DQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQ  237 (452)
T ss_dssp             GGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHH
Confidence            776666555555433445557888888999999   89999999987653   3444446677777554    6899999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-h--cCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcC-----ChHHHHH
Q 041741          592 RLYKDMIASGVKPDDITFVAILTA-C--SHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAG-----HFHEAEM  663 (748)
Q Consensus       592 ~~~~~m~~~~~~p~~~~~~~l~~~-~--~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~A~~  663 (748)
                      ..|++.. .|   +...+..+... +  ...+++++|+..|++.. +.|   +...+..++.+|. .|     ++++|..
T Consensus       238 ~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa-~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~  308 (452)
T 3e4b_A          238 ALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGR-AAD---QPRAELLLGKLYY-EGKWVPADAKAAEA  308 (452)
T ss_dssp             HHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHH-HTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHH
T ss_pred             HHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-HCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHH
Confidence            9999987 43   33445555554 3  45889999999999884 434   5667778888887 55     9999999


Q ss_pred             HHhhCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhh----cCChHHHHHHHHHHH
Q 041741          664 LIDEMPCKDDPVIWEVLLSSCRL----HANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS----LGRWDDLRAVRELMS  735 (748)
Q Consensus       664 ~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~  735 (748)
                      +|++.. +.++.....+...|..    ..|+++|...++++.+  +.++.+...|+.+|..    ..|.++|..+|+...
T Consensus       309 ~~~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~--~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~  385 (452)
T 3e4b_A          309 HFEKAV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAAR--NGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAK  385 (452)
T ss_dssp             HHHTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHT--TTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHH
T ss_pred             HHHHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHh--hChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH
Confidence            999998 7778888888877765    3499999999999875  5578899999999975    568999999999987


Q ss_pred             hcCC
Q 041741          736 ENCI  739 (748)
Q Consensus       736 ~~~~  739 (748)
                      +.|.
T Consensus       386 ~~g~  389 (452)
T 3e4b_A          386 AQDT  389 (452)
T ss_dssp             TTCC
T ss_pred             HCCC
Confidence            7664

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.51  E-value=1.4e-14  Score=153.97  Aligned_cols=115  Identities=16%  Similarity=0.130  Sum_probs=65.3

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHhhhcC-------CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 041741          540 IFVGSALIEMYCKCGDIYGARQFFDMMH-------GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAI  612 (748)
Q Consensus       540 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  612 (748)
                      ..+|+++|.+|++.|++++|.++|+.|.       .||+.+||+||.+|++.|++++|.++|++|.+.|+.||..||+++
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            3455555555555555555555554432       355666666666666666666666666666666666666666666


Q ss_pred             HHHhcCCCCh-HHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhc
Q 041741          613 LTACSHSGLV-DVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRA  655 (748)
Q Consensus       613 ~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  655 (748)
                      |.++++.|+. ++|.++|++| ...|+.||..+|+.++....+.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM-~~kG~~PD~vtY~~ll~~~eR~  249 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQM-SQEGLKLQALFTAVLLSEEDRA  249 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHH-HHHTCCSHHHHHHSCCCHHHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHH-HHcCCCCChhhcccccChhhHH
Confidence            6666665553 4555666666 4456666665555555444443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.51  E-value=2.7e-13  Score=128.16  Aligned_cols=209  Identities=9%  Similarity=0.055  Sum_probs=94.7

Q ss_pred             HHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHH
Q 041741          506 FSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYA  582 (748)
Q Consensus       506 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~  582 (748)
                      .++..+...+...|+++.|...++.+.+.. +.+...+..+...+...|++++|...++++.+   .+...+..+...+.
T Consensus        24 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~  102 (243)
T 2q7f_A           24 MTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYV  102 (243)
T ss_dssp             ------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHH
Confidence            344445555555566666666555555432 22344555555555555555555555554431   24445555555555


Q ss_pred             HcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHH
Q 041741          583 QNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAE  662 (748)
Q Consensus       583 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  662 (748)
                      ..|++++|...++++.+.. +.+...+..+...+...|++++|...++++...  .+.+...+..++.++...|++++|.
T Consensus       103 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~  179 (243)
T 2q7f_A          103 VKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEAL  179 (243)
T ss_dssp             HTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHH
Confidence            5555555555555555542 233444555555555555555555555554321  1122344445555555555555555


Q ss_pred             HHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHH
Q 041741          663 MLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIY  718 (748)
Q Consensus       663 ~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  718 (748)
                      ..++++.  .+.++..+..++..+...|++++|...++++++.+|+++.++..++.+.
T Consensus       180 ~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~  237 (243)
T 2q7f_A          180 SQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHAKKLLG  237 (243)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHHHTC--
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHHHHHHH
Confidence            5555442  2233444555555555555555555555555555555555544444443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.50  E-value=5.3e-13  Score=119.86  Aligned_cols=166  Identities=14%  Similarity=0.054  Sum_probs=138.6

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHH
Q 041741          570 NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMI  649 (748)
Q Consensus       570 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  649 (748)
                      ++..|..++..+...|++++|++.|++.++.. +-+...+..+..++...|++++|+..++.....  .+.+...+..++
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHHH
Confidence            56678888899999999999999999988863 345567888888899999999999998887422  223356677788


Q ss_pred             HHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHH
Q 041741          650 DCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDL  727 (748)
Q Consensus       650 ~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  727 (748)
                      ..+...+++++|...+++..  .+.++..+..++..+...|++++|++.++++++.+|+++.++..+|.+|...|++++|
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            88889999999999888775  4456788888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcC
Q 041741          728 RAVRELMSENC  738 (748)
Q Consensus       728 ~~~~~~~~~~~  738 (748)
                      ++.|+++.+..
T Consensus       161 ~~~~~~al~~~  171 (184)
T 3vtx_A          161 VKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHhCC
Confidence            99999876643

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.50  E-value=4.8e-13  Score=126.45  Aligned_cols=199  Identities=8%  Similarity=0.008  Sum_probs=155.5

Q ss_pred             CchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 041741          538 NDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILT  614 (748)
Q Consensus       538 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~  614 (748)
                      .....+..+...+...|++++|...|+++.+   .+...+..++..+...|++++|+..++++.+.. +.+...+..+..
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             ---------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            3566677788889999999999999998754   467888899999999999999999999999863 456778889999


Q ss_pred             HhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHH
Q 041741          615 ACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRL  692 (748)
Q Consensus       615 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~  692 (748)
                      .+...|++++|...++++....  +.+...+..++.++...|++++|...++++.  .+.++..+..++..+...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG--MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT--CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999985332  3356778889999999999999999999875  45568888889999999999999


Q ss_pred             HHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          693 AKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       693 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      |...++++++..|+++.++..++.+|...|++++|..+++++.+..+
T Consensus       178 A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p  224 (243)
T 2q7f_A          178 ALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQP  224 (243)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCc
Confidence            99999999999999999999999999999999999999999876543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.50  E-value=8.9e-13  Score=127.08  Aligned_cols=228  Identities=9%  Similarity=-0.023  Sum_probs=186.2

Q ss_pred             HHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--CC----HHHHHHHHHH
Q 041741          507 SFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG--KN----TVTWNEMIHG  580 (748)
Q Consensus       507 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~l~~~  580 (748)
                      .+......+...|+++.|...++.+.+.. +.+...+..+..+|...|++++|...++...+  ++    ...|..+...
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            34456677889999999999999998865 33556788888999999999999999998764  22    3348899999


Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChH
Q 041741          581 YAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFH  659 (748)
Q Consensus       581 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~  659 (748)
                      +...|++++|+..+++..+.. +.+...+..+...+...|++++|+..+++..   ...|+ ...+..++..+...++++
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al---~~~~~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQI---RPTTTDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGC---CSSCCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHh---hcCCCcHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999963 4455789999999999999999999999885   33454 666777883444556999


Q ss_pred             HHHHHHhhCC--CCCCHhHHHHHHHHHHhcCC---HHHHHHHHHHHHhcC---CCC-----CcchHHHhHHHhhcCChHH
Q 041741          660 EAEMLIDEMP--CKDDPVIWEVLLSSCRLHAN---VRLAKRAAEELFRLD---PKN-----SAPYSLLANIYSSLGRWDD  726 (748)
Q Consensus       660 ~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~---p~~-----~~~~~~l~~~~~~~g~~~~  726 (748)
                      +|...++++.  .+.++..+..+...+...|+   +++|...++++++..   |+.     ..++..++.+|...|++++
T Consensus       160 ~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  239 (272)
T 3u4t_A          160 KADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVK  239 (272)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHH
Confidence            9999999885  34457778888888888888   888999999999986   432     1578889999999999999


Q ss_pred             HHHHHHHHHhcCC
Q 041741          727 LRAVRELMSENCI  739 (748)
Q Consensus       727 A~~~~~~~~~~~~  739 (748)
                      |.++++++.+..+
T Consensus       240 A~~~~~~al~~~p  252 (272)
T 3u4t_A          240 ADAAWKNILALDP  252 (272)
T ss_dssp             HHHHHHHHHHHCT
T ss_pred             HHHHHHHHHhcCc
Confidence            9999999876543

>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=99.49  E-value=7.5e-13  Score=132.23  Aligned_cols=221  Identities=9%  Similarity=0.021  Sum_probs=152.7

Q ss_pred             HHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCC-HHHHHHHhhhcCC---CCHHHHHHHHHHHHH
Q 041741          508 FATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGD-IYGARQFFDMMHG---KNTVTWNEMIHGYAQ  583 (748)
Q Consensus       508 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~---~~~~~~~~l~~~~~~  583 (748)
                      +..+...+...|++++|...++.+.+.. +-+...|+.+..++...|+ +++|...|+++.+   .+...|..+..++..
T Consensus       100 ~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~  178 (382)
T 2h6f_A          100 YDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEW  178 (382)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence            3344444445555555555555555443 2345566667777777775 7777777776653   466777778888888


Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHh-cCChHHH
Q 041741          584 NGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGR-AGHFHEA  661 (748)
Q Consensus       584 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~-~g~~~~A  661 (748)
                      .|++++|+..|+++++.. +-+...|..+..++...|++++|+..++++..   +.|+ ...|..++.++.+ .|..++|
T Consensus       179 ~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~---l~P~~~~a~~~lg~~l~~l~~~~~eA  254 (382)
T 2h6f_A          179 LRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLK---EDVRNNSVWNQRYFVISNTTGYNDRA  254 (382)
T ss_dssp             HTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             ccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHhcCcchHH
Confidence            888888888888888753 34556777888888888888888888887752   2343 5667777777777 5555776


Q ss_pred             -----HHHHhhCC--CCCCHhHHHHHHHHHHhcC--CHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcC--------C-
Q 041741          662 -----EMLIDEMP--CKDDPVIWEVLLSSCRLHA--NVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLG--------R-  723 (748)
Q Consensus       662 -----~~~~~~~~--~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g--------~-  723 (748)
                           +..+++..  .+.+...|..+...+...|  ++++|.+.++++ +.+|+++.++..++.+|.+.|        + 
T Consensus       255 ~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~~~  333 (382)
T 2h6f_A          255 VLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKEDI  333 (382)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccchHHH
Confidence                 35666553  3345677777777777766  578888888887 778888888888888888774        2 


Q ss_pred             hHHHHHHHHHH
Q 041741          724 WDDLRAVRELM  734 (748)
Q Consensus       724 ~~~A~~~~~~~  734 (748)
                      .++|+++|+++
T Consensus       334 ~~~A~~~~~~l  344 (382)
T 2h6f_A          334 LNKALELCEIL  344 (382)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            47888888876

>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=99.48  E-value=9.5e-12  Score=119.78  Aligned_cols=226  Identities=10%  Similarity=-0.081  Sum_probs=164.5

Q ss_pred             hhHHHHHHHHHHHhcCChHHHHHHHhhCCCC-CcchHHHHHHHHHh----CCCchHHHHHHHHHHHCCCCCCHHHHHHHH
Q 041741          438 DNYVASGLIGIYSKCQRNELAERVFHRIPEL-DIVCWNSMIAGLSL----NSLDIEAFMFFKQMRQNEMYPTQFSFATVL  512 (748)
Q Consensus       438 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~  512 (748)
                      +...+..+...|...|++++|...|++..++ ++..+..+...|..    .+++++|+..|++..+.+   +...+..+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg   81 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLG   81 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHH
Confidence            5567778889999999999999999988765 45678888889999    999999999999998875   555666565


Q ss_pred             HhhcC----CCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHH----c
Q 041741          513 SSCAK----LSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQ----N  584 (748)
Q Consensus       513 ~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~----~  584 (748)
                      ..+..    .+++++|...++...+.+                                  +...+..+...|..    .
T Consensus        82 ~~~~~g~~~~~~~~~A~~~~~~a~~~~----------------------------------~~~a~~~lg~~~~~~~~~~  127 (273)
T 1ouv_A           82 NLYYSGQGVSQNTNKALQYYSKACDLK----------------------------------YAEGCASLGGIYHDGKVVT  127 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT----------------------------------CHHHHHHHHHHHHHCSSSC
T ss_pred             HHHhCCCCcccCHHHHHHHHHHHHHcC----------------------------------CccHHHHHHHHHHcCCCcc
Confidence            55555    556666655555554432                                  44455556666666    6


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC----CCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHh----cC
Q 041741          585 GYGDEAVRLYKDMIASGVKPDDITFVAILTACSH----SGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGR----AG  656 (748)
Q Consensus       585 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g  656 (748)
                      +++++|+..+++..+.+   +...+..+...+..    .+++++|+..+++.. +.   .+...+..++.+|..    .+
T Consensus       128 ~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~-~~---~~~~a~~~lg~~~~~g~~~~~  200 (273)
T 1ouv_A          128 RDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKAC-DL---KDSPGCFNAGNMYHHGEGATK  200 (273)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH-HT---TCHHHHHHHHHHHHHTCSSCC
T ss_pred             cCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-HC---CCHHHHHHHHHHHHcCCCCCc
Confidence            77777777777777754   34455566666655    778888888887773 22   234566777888887    88


Q ss_pred             ChHHHHHHHhhCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCC
Q 041741          657 HFHEAEMLIDEMPCKDDPVIWEVLLSSCRL----HANVRLAKRAAEELFRLDPKN  707 (748)
Q Consensus       657 ~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~  707 (748)
                      ++++|...+++.....++..+..+...+..    .+++++|...++++++.+|++
T Consensus       201 ~~~~A~~~~~~a~~~~~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~  255 (273)
T 1ouv_A          201 NFKEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKG  255 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             cHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHH
Confidence            888888888776523336677777777777    888999999999999988843

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.47  E-value=2.1e-12  Score=129.00  Aligned_cols=244  Identities=11%  Similarity=0.060  Sum_probs=195.1

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCC-chhHHHHHHHHHHhCCCCchHHHHHHHHHH
Q 041741          472 CWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSS-SFQGRQVHAQIEKDGYVNDIFVGSALIEMY  550 (748)
Q Consensus       472 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  550 (748)
                      .|..+...+...|++++|+..+++.+... +-+...|..+...+...|+ +++|...++.+.+.. +-+...|..+..++
T Consensus        99 a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~  176 (382)
T 2h6f_A           99 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
Confidence            46667777788888888888888888653 3356677778888888886 888888888888875 34677888889999


Q ss_pred             HhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcC-CCChHHH-
Q 041741          551 CKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSH-SGLVDVG-  625 (748)
Q Consensus       551 ~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~-~~~~~~A-  625 (748)
                      ...|++++|...|+++.+   .+...|..+..++...|++++|+..++++++.. +-+...|+.+..++.. .|..++| 
T Consensus       177 ~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~eA~  255 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAV  255 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             HHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchHHH
Confidence            999999999999998763   578899999999999999999999999999964 4456788889888888 6665777 


Q ss_pred             ----HHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcC--ChHHHHHHHhhCCC-CCCHhHHHHHHHHHHhcC--------C
Q 041741          626 ----VEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAG--HFHEAEMLIDEMPC-KDDPVIWEVLLSSCRLHA--------N  689 (748)
Q Consensus       626 ----~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~  689 (748)
                          +..+++..   .+.|+ ...|..++.++...|  ++++|.+.++++.. +.++..+..++..+...|        +
T Consensus       256 ~~~el~~~~~Al---~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~~~~  332 (382)
T 2h6f_A          256 LEREVQYTLEMI---KLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKED  332 (382)
T ss_dssp             HHHHHHHHHHHH---HHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             HHHHHHHHHHHH---HHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccchHH
Confidence                47777774   33455 667888888898888  68999999888753 345777888888887764        2


Q ss_pred             -HHHHHHHHHHH-HhcCCCCCcchHHHhHHHhhc
Q 041741          690 -VRLAKRAAEEL-FRLDPKNSAPYSLLANIYSSL  721 (748)
Q Consensus       690 -~~~a~~~~~~~-~~~~p~~~~~~~~l~~~~~~~  721 (748)
                       .++|..+++++ ++++|.....|..++..+...
T Consensus       333 ~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          333 ILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence             58999999999 999999888888888877554

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.46  E-value=3.9e-13  Score=138.51  Aligned_cols=261  Identities=11%  Similarity=-0.023  Sum_probs=180.2

Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHCCCCCCH----HHHHHHHHhhcCCCCchhHHHHHHHHHHh----CC-CCchHHHHH
Q 041741          475 SMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQ----FSFATVLSSCAKLSSSFQGRQVHAQIEKD----GY-VNDIFVGSA  545 (748)
Q Consensus       475 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~  545 (748)
                      .+...+...|++++|+..|++..+... .+.    ..+..+...+...|+++.|...++...+.    +. +.....+..
T Consensus        53 ~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  131 (411)
T 4a1s_A           53 LEGERLCNAGDCRAGVAFFQAAIQAGT-EDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGN  131 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHhcc-cChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHH
Confidence            344556666777777777776665421 122    34556666666777777777777665543    11 223456667


Q ss_pred             HHHHHHhcCCHHHHHHHhhhcCC---------CCHHHHHHHHHHHHHcCC-----------------hhHHHHHHHHHHH
Q 041741          546 LIEMYCKCGDIYGARQFFDMMHG---------KNTVTWNEMIHGYAQNGY-----------------GDEAVRLYKDMIA  599 (748)
Q Consensus       546 l~~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~m~~  599 (748)
                      +...|...|++++|...+++..+         ....++..+...+...|+                 +++|+..+++..+
T Consensus       132 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~  211 (411)
T 4a1s_A          132 LGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLK  211 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHH
Confidence            77778888888888887776542         123467777888888888                 8888888877654


Q ss_pred             c----CCCCC-HHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHhhCC-
Q 041741          600 S----GVKPD-DITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI----LDHYTCMIDCLGRAGHFHEAEMLIDEMP-  669 (748)
Q Consensus       600 ~----~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-  669 (748)
                      .    +-.+. ..++..+...+...|++++|+..+++......-.++    ...+..++.+|...|++++|...+++.. 
T Consensus       212 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  291 (411)
T 4a1s_A          212 LMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLA  291 (411)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            2    11121 236777888888889999999888887533221222    2367788888999999999998887763 


Q ss_pred             ----CCC---CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC------cchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          670 ----CKD---DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS------APYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       670 ----~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                          ...   ....+..+...+...|++++|...++++++..++..      .++..++.+|...|++++|.+++++..+
T Consensus       292 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          292 LAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence                111   145667778888889999999999999998765433      3788899999999999999999987755

>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=99.46  E-value=6e-12  Score=119.62  Aligned_cols=205  Identities=11%  Similarity=-0.020  Sum_probs=153.2

Q ss_pred             HHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHH
Q 041741          507 SFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQ  583 (748)
Q Consensus       507 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~  583 (748)
                      .+..+...+...|+++.|...++.+.+.. +.+...+..+..++...|++++|.+.++++.+   .+...+..+...+..
T Consensus        39 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~  117 (252)
T 2ho1_A           39 AYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYE  117 (252)
T ss_dssp             HHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHH
Confidence            34444555555566666666666555543 33456666777777778888888888776542   366778888888888


Q ss_pred             cCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHH
Q 041741          584 NGYGDEAVRLYKDMIASGVKPD-DITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAE  662 (748)
Q Consensus       584 ~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  662 (748)
                      .|++++|.++++++.+.+..|+ ...+..+...+...|++++|...++++....  +.+...+..++.++...|++++|.
T Consensus       118 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A~  195 (252)
T 2ho1_A          118 QKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN--RNQPSVALEMADLLYKEREYVPAR  195 (252)
T ss_dssp             TTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999998887334454 4577788888889999999999999885322  234677888999999999999999


Q ss_pred             HHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHH
Q 041741          663 MLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLL  714 (748)
Q Consensus       663 ~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  714 (748)
                      ..++++.  .+.++..+..+...+...|++++|...++++++..|+++.....+
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  249 (252)
T 2ho1_A          196 QYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSLEYQEFQ  249 (252)
T ss_dssp             HHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSHHHHHHH
T ss_pred             HHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCHHHHHHH
Confidence            9998874  345677788888889999999999999999999999877655443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.46  E-value=1.6e-12  Score=119.92  Aligned_cols=195  Identities=12%  Similarity=-0.026  Sum_probs=98.8

Q ss_pred             CcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHH
Q 041741          469 DIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIE  548 (748)
Q Consensus       469 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  548 (748)
                      ++..+..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...++...+.. +.          
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~----------   71 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PR----------   71 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT----------
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CC----------
Confidence            44455566666666666666666666666442 2234444444444555555555555555444443 22          


Q ss_pred             HHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHc-----------CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhc
Q 041741          549 MYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQN-----------GYGDEAVRLYKDMIASGVKPDDITFVAILTACS  617 (748)
Q Consensus       549 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~  617 (748)
                                           +...+..+..++...           |++++|+..+++..+.. +-+...+..+..++.
T Consensus        72 ---------------------~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~  129 (217)
T 2pl2_A           72 ---------------------YLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYA  129 (217)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             ---------------------cHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence                                 334444444444444           66666666666666542 223445556666666


Q ss_pred             CCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHH
Q 041741          618 HSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKR  695 (748)
Q Consensus       618 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~  695 (748)
                      ..|++++|+..|++.. ...  .+...+..++.+|...|++++|...+++..  .+.++..+..+...+...|++++|..
T Consensus       130 ~~g~~~~A~~~~~~al-~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~  206 (217)
T 2pl2_A          130 LLGERDKAEASLKQAL-ALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAAR  206 (217)
T ss_dssp             HTTCHHHHHHHHHHHH-HHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------
T ss_pred             HcCChHHHHHHHHHHH-hcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHH
Confidence            6666666666666653 222  445555666666666666666666666553  23345555566666666666666666


Q ss_pred             HHHHH
Q 041741          696 AAEEL  700 (748)
Q Consensus       696 ~~~~~  700 (748)
                      .++++
T Consensus       207 ~~~~~  211 (217)
T 2pl2_A          207 AAALE  211 (217)
T ss_dssp             -----
T ss_pred             HHHHH
Confidence            65543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.45  E-value=8.2e-13  Score=135.86  Aligned_cols=288  Identities=10%  Similarity=-0.064  Sum_probs=137.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHhhCCC--C-C----cchHHHHHHHHHhCCCchHHHHHHHHHHHC----CCCC-CHHH
Q 041741          440 YVASGLIGIYSKCQRNELAERVFHRIPE--L-D----IVCWNSMIAGLSLNSLDIEAFMFFKQMRQN----EMYP-TQFS  507 (748)
Q Consensus       440 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~  507 (748)
                      ..+......+...|++++|...|+++.+  + +    ...+..+...+...|++++|...+++....    +..| ...+
T Consensus        10 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   89 (406)
T 3sf4_A           10 LELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   89 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHH
Confidence            3344555566666666666666665542  1 1    123455555666666666666666654331    1111 1234


Q ss_pred             HHHHHHhhcCCCCchhHHHHHHHHHHh----CCCC-chHHHHHHHHHHHhcCC--------------------HHHHHHH
Q 041741          508 FATVLSSCAKLSSSFQGRQVHAQIEKD----GYVN-DIFVGSALIEMYCKCGD--------------------IYGARQF  562 (748)
Q Consensus       508 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~--------------------~~~A~~~  562 (748)
                      +..+...+...|+++.|...+....+.    +.++ ...++..+...|...|+                    +++|.+.
T Consensus        90 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~  169 (406)
T 3sf4_A           90 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDF  169 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            444555555566666666555554432    1000 12344555555555555                    5555555


Q ss_pred             hhhcCC-----C----CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCC-CCCH----HHHHHHHHHhcCCCChHHHHHH
Q 041741          563 FDMMHG-----K----NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGV-KPDD----ITFVAILTACSHSGLVDVGVEI  628 (748)
Q Consensus       563 ~~~~~~-----~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~----~~~~~l~~~~~~~~~~~~A~~~  628 (748)
                      +++..+     +    ...++..+...+...|++++|...+++..+... .++.    .++..+...+...|++++|...
T Consensus       170 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  249 (406)
T 3sf4_A          170 YEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEY  249 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHH
Confidence            544321     1    122444555555555555555555555543210 0111    1444555555555555555555


Q ss_pred             HHHhhhhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHhhCC----CCCC----HhHHHHHHHHHHhcCCHHHHHHH
Q 041741          629 FNSMQLDHGVEPI----LDHYTCMIDCLGRAGHFHEAEMLIDEMP----CKDD----PVIWEVLLSSCRLHANVRLAKRA  696 (748)
Q Consensus       629 ~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~~~~~~a~~~  696 (748)
                      +++......-.++    ..++..++.+|...|++++|...+++..    ..++    ...+..+...+...|++++|...
T Consensus       250 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  329 (406)
T 3sf4_A          250 YKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHF  329 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            5554321111111    2334455555555555555555555442    0011    23444444555555555555555


Q ss_pred             HHHHHhcCCCCCc------chHHHhHHHhhcCChHHH
Q 041741          697 AEELFRLDPKNSA------PYSLLANIYSSLGRWDDL  727 (748)
Q Consensus       697 ~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~~A  727 (748)
                      +++++++.+....      ++..++.++...|+...+
T Consensus       330 ~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~  366 (406)
T 3sf4_A          330 AEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYST  366 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSCC
T ss_pred             HHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHHH
Confidence            5555555554421      344445555555544433

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.44  E-value=1.3e-12  Score=130.38  Aligned_cols=262  Identities=14%  Similarity=0.019  Sum_probs=188.6

Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHCCCCCC----HHHHHHHHHhhcCCCCchhHHHHHHHHHHh----CCCC-chHHHHH
Q 041741          475 SMIAGLSLNSLDIEAFMFFKQMRQNEMYPT----QFSFATVLSSCAKLSSSFQGRQVHAQIEKD----GYVN-DIFVGSA  545 (748)
Q Consensus       475 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~  545 (748)
                      .....+...|++++|...|++..+.. +.+    ...+..+...+...|+++.|...+....+.    +..+ ...++..
T Consensus        10 ~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   88 (338)
T 3ro2_A           10 LEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGN   88 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHH
Confidence            34455666777777777777776642 112    245556666777777777777777665433    2222 3556777


Q ss_pred             HHHHHHhcCCHHHHHHHhhhcCC-----CC----HHHHHHHHHHHHHcCC--------------------hhHHHHHHHH
Q 041741          546 LIEMYCKCGDIYGARQFFDMMHG-----KN----TVTWNEMIHGYAQNGY--------------------GDEAVRLYKD  596 (748)
Q Consensus       546 l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~  596 (748)
                      +...+...|++++|...+++..+     ++    ..++..+...+...|+                    +++|...+++
T Consensus        89 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~  168 (338)
T 3ro2_A           89 LGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEE  168 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHH
Confidence            78888888888888888877542     22    3367778888888888                    8888888887


Q ss_pred             HHHc----CCCCC-HHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHhh
Q 041741          597 MIAS----GVKPD-DITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI----LDHYTCMIDCLGRAGHFHEAEMLIDE  667 (748)
Q Consensus       597 m~~~----~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~  667 (748)
                      ....    +..|. ..++..+...+...|++++|...+++......-.++    ...+..++.++...|++++|...+++
T Consensus       169 a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  248 (338)
T 3ro2_A          169 NLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKK  248 (338)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6542    11121 246778888889999999999999887533222222    33677889999999999999999887


Q ss_pred             CC----CCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC------CcchHHHhHHHhhcCChHHHHHHHHH
Q 041741          668 MP----CKDD----PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN------SAPYSLLANIYSSLGRWDDLRAVREL  733 (748)
Q Consensus       668 ~~----~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~  733 (748)
                      ..    ..++    ...+..+...+...|++++|...++++++..|..      ..++..++.+|...|++++|..++++
T Consensus       249 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  328 (338)
T 3ro2_A          249 TLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEK  328 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            63    1112    4566777888999999999999999999986643      33788999999999999999999999


Q ss_pred             HHhc
Q 041741          734 MSEN  737 (748)
Q Consensus       734 ~~~~  737 (748)
                      +.+.
T Consensus       329 a~~~  332 (338)
T 3ro2_A          329 HLEI  332 (338)
T ss_dssp             HHHC
T ss_pred             HHHH
Confidence            8763

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.44  E-value=5.7e-12  Score=117.35  Aligned_cols=206  Identities=10%  Similarity=-0.011  Sum_probs=155.9

Q ss_pred             HHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHH
Q 041741          506 FSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYA  582 (748)
Q Consensus       506 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~  582 (748)
                      ..+..+...+...|+++.|...++.+.+.. +.+...+..+..++...|++++|.+.++++.+   .+...+..++..+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~   87 (225)
T 2vq2_A            9 NIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLC   87 (225)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence            344455555556666666666666655543 23455667777778888888888888876652   46677888888999


Q ss_pred             Hc-CChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHH
Q 041741          583 QN-GYGDEAVRLYKDMIASGVKPD-DITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHE  660 (748)
Q Consensus       583 ~~-~~~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  660 (748)
                      .. |++++|...++++.+.+..|+ ...+..+...+...|++++|+..++++....  +.+...+..++.++...|++++
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~  165 (225)
T 2vq2_A           88 GRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ--PQFPPAFKELARTKMLAGQLGD  165 (225)
T ss_dssp             TTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCchHHHHHHHHHHHcCCHHH
Confidence            99 999999999999888433444 4678888889999999999999999885321  2336778889999999999999


Q ss_pred             HHHHHhhCC--CC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHH
Q 041741          661 AEMLIDEMP--CK-DDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLL  714 (748)
Q Consensus       661 A~~~~~~~~--~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  714 (748)
                      |...++++.  .+ .++..+..+...+...|+.+.|...++.+.+..|+++.....+
T Consensus       166 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          166 ADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPYSEELQTVL  222 (225)
T ss_dssp             HHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHh
Confidence            999998875  34 5677777777778899999999999999999999887766554

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.44  E-value=1.1e-12  Score=126.76  Aligned_cols=219  Identities=12%  Similarity=-0.027  Sum_probs=180.3

Q ss_pred             hcCCCCchhHHHHHHHHHHhCC---CCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChh
Q 041741          515 CAKLSSSFQGRQVHAQIEKDGY---VNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGD  588 (748)
Q Consensus       515 ~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~  588 (748)
                      ....|++++|...++.+.+...   +.+..++..+...+...|++++|...|+++.+   .+...|..++.++...|+++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHH
Confidence            4456889999999999988632   12567888999999999999999999998763   46889999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhC
Q 041741          589 EAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEM  668 (748)
Q Consensus       589 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  668 (748)
                      +|+..++++.+.. +.+...+..+...+...|++++|...++++..   ..|+..........+...|++++|...+++.
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ---DDPNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            9999999999963 44567899999999999999999999999853   3465554555555667789999999999766


Q ss_pred             C--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC----CCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          669 P--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK----NSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       669 ~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      .  .+++...+ .++..+...++.++|...++++++..|+    ++.++..++.+|...|++++|..+++++.+..
T Consensus       171 ~~~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          171 FEKSDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHHSCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HhcCCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            4  33444443 4677778888999999999999988774    36889999999999999999999999987654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.43  E-value=6e-13  Score=138.63  Aligned_cols=191  Identities=10%  Similarity=0.006  Sum_probs=160.9

Q ss_pred             chHHHHHHHHHHHhcCCH-HHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 041741          539 DIFVGSALIEMYCKCGDI-YGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILT  614 (748)
Q Consensus       539 ~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~  614 (748)
                      +...+..+..++...|++ ++|.+.|++..+   .+...|..+..+|...|++++|...|++..+.  .|+...+..+..
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~  178 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSM  178 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHH
Confidence            556666666777777777 777777776542   35778888999999999999999999999985  577788889999


Q ss_pred             HhcCC---------CChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhc--------CChHHHHHHHhhCC-CCC---
Q 041741          615 ACSHS---------GLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRA--------GHFHEAEMLIDEMP-CKD---  672 (748)
Q Consensus       615 ~~~~~---------~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~--------g~~~~A~~~~~~~~-~~~---  672 (748)
                      .+...         |++++|+..++++...   .|+ ...+..++.+|...        |++++|...+++.. ..|   
T Consensus       179 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~  255 (474)
T 4abn_A          179 VLRQLQTDSGDEHSRHVMDSVRQAKLAVQM---DVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKAS  255 (474)
T ss_dssp             HHTTCCCSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGG
T ss_pred             HHHHhccCChhhhhhhHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcc
Confidence            99999         9999999999988532   344 67788899999988        99999999999885 334   


Q ss_pred             -CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHH
Q 041741          673 -DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELM  734 (748)
Q Consensus       673 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  734 (748)
                       ++..|..+...+...|++++|...++++++++|+++.++..++.++...|++++|.+.++++
T Consensus       256 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          256 SNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence             78899999999999999999999999999999999999999999999999999999766543

>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=99.37  E-value=5e-12  Score=136.69  Aligned_cols=163  Identities=16%  Similarity=0.164  Sum_probs=140.1

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHH
Q 041741          570 NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCM  648 (748)
Q Consensus       570 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l  648 (748)
                      +..+|+.|...+...|++++|+..|++.++.. +-+...+..+..+|...|++++|+..|++..   .+.|+ ...+..+
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al---~l~P~~~~a~~nL   83 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAI---RISPTFADAYSNM   83 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH---HHCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH---HhCCCCHHHHHHH
Confidence            35678888888999999999999999988852 3345688888999999999999999999885   33455 6778899


Q ss_pred             HHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHH
Q 041741          649 IDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDD  726 (748)
Q Consensus       649 ~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  726 (748)
                      +.+|...|++++|.+.+++..  .+.+...+..++..+...|++++|+..++++++++|+++.++..|+.+|...|++++
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHH
Confidence            999999999999999998875  344678899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 041741          727 LRAVRELMSE  736 (748)
Q Consensus       727 A~~~~~~~~~  736 (748)
                      |.+.++++.+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.37  E-value=5.8e-12  Score=129.48  Aligned_cols=293  Identities=8%  Similarity=-0.080  Sum_probs=196.6

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCH-----hhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHH
Q 041741          371 SWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDR-----TTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGL  445 (748)
Q Consensus       371 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  445 (748)
                      .+......+...|++++|+..+++..+.  .|+.     ..+..+...+...|+++.|...+..+.......        
T Consensus        11 ~l~~~g~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~--------   80 (406)
T 3sf4_A           11 ELALEGERLCKSGDCRAGVSFFEAAVQV--GTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTI--------   80 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT--------
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhc--------
Confidence            3445556667777777777777777665  2221     233334444444555555554444443221100        


Q ss_pred             HHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCC-CCC----HHHHHHHHHhhcCCCC
Q 041741          446 IGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEM-YPT----QFSFATVLSSCAKLSS  520 (748)
Q Consensus       446 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~~~~  520 (748)
                             ++.           ......+..+...+...|++++|...+++...... .++    ..++..+...+...|+
T Consensus        81 -------~~~-----------~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~  142 (406)
T 3sf4_A           81 -------GDQ-----------LGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGK  142 (406)
T ss_dssp             -------TCH-----------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             -------ccc-----------HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCC
Confidence                   000           00133567788889999999999999988765311 112    3467788888999999


Q ss_pred             --------------------chhHHHHHHHHHHh----CCCC-chHHHHHHHHHHHhcCCHHHHHHHhhhcCC-----CC
Q 041741          521 --------------------SFQGRQVHAQIEKD----GYVN-DIFVGSALIEMYCKCGDIYGARQFFDMMHG-----KN  570 (748)
Q Consensus       521 --------------------~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~  570 (748)
                                          ++.|...+....+.    +..+ ...++..+...|...|++++|...+++..+     ++
T Consensus       143 ~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  222 (406)
T 3sf4_A          143 SFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGD  222 (406)
T ss_dssp             TCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCC
Confidence                                99999998876653    2122 345778888999999999999999988763     22


Q ss_pred             ----HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCC-CCC----HHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC
Q 041741          571 ----TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGV-KPD----DITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI  641 (748)
Q Consensus       571 ----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  641 (748)
                          ..++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...+++......-.++
T Consensus       223 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~  302 (406)
T 3sf4_A          223 KAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELND  302 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCC
Confidence                23788899999999999999999999876311 111    357788899999999999999999988543222222


Q ss_pred             ----hhHHHHHHHHHHhcCChHHHHHHHhhCC-----CC--C-CHhHHHHHHHHHHhcCCHH
Q 041741          642 ----LDHYTCMIDCLGRAGHFHEAEMLIDEMP-----CK--D-DPVIWEVLLSSCRLHANVR  691 (748)
Q Consensus       642 ----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~--~-~~~~~~~l~~~~~~~~~~~  691 (748)
                          ...+..++.+|...|++++|...+++..     ..  + ...++..+...+...|+..
T Consensus       303 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          303 RIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             cHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhH
Confidence                4567789999999999999999998763     11  1 1334455555566666544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.37  E-value=1e-11  Score=111.36  Aligned_cols=167  Identities=10%  Similarity=0.020  Sum_probs=143.3

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 041741          539 DIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTA  615 (748)
Q Consensus       539 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  615 (748)
                      ++.+|..+...|.+.|++++|.+.|++..+   .++..+..+..++...|++++|+..+++..... +.+...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            566788899999999999999999998763   477889999999999999999999999998863 4456677888888


Q ss_pred             hcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHH
Q 041741          616 CSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLA  693 (748)
Q Consensus       616 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a  693 (748)
                      +...++++.|...+++....  .+.+...+..++.+|.+.|++++|.+.+++..  .+.++..+..++..+...|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            89999999999999988532  23346778899999999999999999999885  455788899999999999999999


Q ss_pred             HHHHHHHHhcCCCCC
Q 041741          694 KRAAEELFRLDPKNS  708 (748)
Q Consensus       694 ~~~~~~~~~~~p~~~  708 (748)
                      ...++++++++|+++
T Consensus       161 ~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          161 VKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHhCCccCH
Confidence            999999999999763

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.32  E-value=2.2e-12  Score=127.17  Aligned_cols=196  Identities=15%  Similarity=0.139  Sum_probs=111.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHhhhcCC-----------CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHc------CCC
Q 041741          541 FVGSALIEMYCKCGDIYGARQFFDMMHG-----------KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS------GVK  603 (748)
Q Consensus       541 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----------~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------~~~  603 (748)
                      ..+..+...|...|++++|...+++...           .....+..+...+...|++++|...++++.+.      +-.
T Consensus        70 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  149 (311)
T 3nf1_A           70 TMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDH  149 (311)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCC
Confidence            3344445555555555555555544321           12345566666677777777777777766653      112


Q ss_pred             CC-HHHHHHHHHHhcCCCChHHHHHHHHHhhhhh-----CCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-------
Q 041741          604 PD-DITFVAILTACSHSGLVDVGVEIFNSMQLDH-----GVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-------  669 (748)
Q Consensus       604 p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-----~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------  669 (748)
                      |+ ...+..+...+...|++++|+.+++++....     +..|. ...+..++.+|...|++++|...++++.       
T Consensus       150 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  229 (311)
T 3nf1_A          150 PDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHERE  229 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhc
Confidence            22 2456677777777788888887777764321     11222 3456677777888888888887776653       


Q ss_pred             ---CCC-CHh------HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          670 ---CKD-DPV------IWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       670 ---~~~-~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                         ..+ ...      .+......+...+.+.++...++.+....|.++.++..++.+|...|++++|.+++++..+
T Consensus       230 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          230 FGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             HC------CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence               011 111      1222222344455666777788888888888888899999999999999999999988765

>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=99.32  E-value=2.7e-11  Score=112.95  Aligned_cols=165  Identities=8%  Similarity=-0.043  Sum_probs=79.1

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHH
Q 041741          572 VTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMID  650 (748)
Q Consensus       572 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~  650 (748)
                      ..+......+...|++++|+..|++..+...+++...+..+..++...|++++|+..+++..   ...|+ ...+..++.
T Consensus         8 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al---~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            8 NQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAI---KKNYNLANAYIGKSA   84 (228)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH---HTTCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHH---HhCcchHHHHHHHHH
Confidence            33444444444444444444444444443211333344344444444444444444444442   12222 333444444


Q ss_pred             HHHhcCChHHHHHHHhhCC--CCCCH-------hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CCcchHHHhHHHh
Q 041741          651 CLGRAGHFHEAEMLIDEMP--CKDDP-------VIWEVLLSSCRLHANVRLAKRAAEELFRLDPK--NSAPYSLLANIYS  719 (748)
Q Consensus       651 ~~~~~g~~~~A~~~~~~~~--~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~  719 (748)
                      +|...|++++|...+++..  .+.++       ..+..+...+...|++++|...++++++.+|+  ++.++..++.+|.
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~  164 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVLFY  164 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHH
Confidence            4444444444444444442  11222       22334444444455555555555555555554  4455555555555


Q ss_pred             hcCCh---------------------------HHHHHHHHHHHhcCC
Q 041741          720 SLGRW---------------------------DDLRAVRELMSENCI  739 (748)
Q Consensus       720 ~~g~~---------------------------~~A~~~~~~~~~~~~  739 (748)
                      ..|+.                           ++|+.++++..+..+
T Consensus       165 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l~p  211 (228)
T 4i17_A          165 NNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVTLSP  211 (228)
T ss_dssp             HHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Confidence            55544                           999999998876543

>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=2e-11  Score=109.58  Aligned_cols=158  Identities=16%  Similarity=0.055  Sum_probs=86.8

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcC
Q 041741          577 MIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAG  656 (748)
Q Consensus       577 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  656 (748)
                      ++..+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++...  .+.+...+..++.++...|
T Consensus        14 ~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~   90 (186)
T 3as5_A           14 KGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYVQVQ   90 (186)
T ss_dssp             HHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhc
Confidence            3334444444444444444443321 223334444444444444444444444444211  1122344445555555555


Q ss_pred             ChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHH
Q 041741          657 HFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELM  734 (748)
Q Consensus       657 ~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  734 (748)
                      ++++|...++++.  .+.++..+..++..+...|++++|...++++++..|+++.++..++.+|...|++++|..+++++
T Consensus        91 ~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~  170 (186)
T 3as5_A           91 KYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHFKKA  170 (186)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5555555555543  23445566666666777777777777777777777777777777777777777777777777766


Q ss_pred             Hhc
Q 041741          735 SEN  737 (748)
Q Consensus       735 ~~~  737 (748)
                      .+.
T Consensus       171 ~~~  173 (186)
T 3as5_A          171 NEL  173 (186)
T ss_dssp             HHH
T ss_pred             HHc
Confidence            553

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.31  E-value=9.9e-11  Score=118.94  Aligned_cols=234  Identities=10%  Similarity=-0.043  Sum_probs=109.5

Q ss_pred             HHHHHHhCCCchHHHHHHHHHHHCCC-CCC----HHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCC-CchHHHHHHHHH
Q 041741          476 MIAGLSLNSLDIEAFMFFKQMRQNEM-YPT----QFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYV-NDIFVGSALIEM  549 (748)
Q Consensus       476 li~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~  549 (748)
                      ....+...|++++|+..|++....-. .++    ..++..+...+...|+++.|...+....+.... ++..        
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~--------  180 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYN--------  180 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTH--------
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccch--------
Confidence            34455667777777777777664310 111    223444444555555555555554444332000 0000        


Q ss_pred             HHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCC-CCCH----HHHHHHHHHhcCCCChHH
Q 041741          550 YCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGV-KPDD----ITFVAILTACSHSGLVDV  624 (748)
Q Consensus       550 ~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~----~~~~~l~~~~~~~~~~~~  624 (748)
                                        .....+++.+..+|...|++++|+..+++..+... .++.    .++..+...|...|++++
T Consensus       181 ------------------~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~  242 (383)
T 3ulq_A          181 ------------------IRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYED  242 (383)
T ss_dssp             ------------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             ------------------HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHH
Confidence                              00112344444455555555555555544443200 0111    244455555555555555


Q ss_pred             HHHHHHHhhhhh---CCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC------CCCC-HhHHHHHHHHHHhcCC---H
Q 041741          625 GVEIFNSMQLDH---GVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP------CKDD-PVIWEVLLSSCRLHAN---V  690 (748)
Q Consensus       625 A~~~~~~~~~~~---~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~------~~~~-~~~~~~l~~~~~~~~~---~  690 (748)
                      |+..+++.....   +..|. ..++..++.++.+.|++++|...+++..      ..|. ...+..+...+...|+   .
T Consensus       243 A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  322 (383)
T 3ulq_A          243 AIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAI  322 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHH
T ss_pred             HHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHH
Confidence            555555543210   12122 3445555556666666666665555442      0111 1123334445555555   5


Q ss_pred             HHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          691 RLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       691 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      ++|...+++. ...|....++..++.+|...|++++|..++++..+
T Consensus       323 ~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          323 QGFFDFLESK-MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHC-cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            5555555543 22233344566666777777777777776666654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.31  E-value=1.2e-11  Score=127.24  Aligned_cols=270  Identities=10%  Similarity=-0.045  Sum_probs=171.7

Q ss_pred             HHHHHhhccCChHHHHHHHHHHHhhcCCchh---HHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCC
Q 041741          409 IILSSCAAMGILESGKQVHAASLKTASHIDN---YVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSL  485 (748)
Q Consensus       409 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~  485 (748)
                      .+...+...|+++.|...++.+++.......   .++..+..+|...|++++|...+++..+.                 
T Consensus        53 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-----------------  115 (411)
T 4a1s_A           53 LEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTL-----------------  115 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-----------------
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-----------------
Confidence            3345566667777777777776665433211   23444555555555555555554433210                 


Q ss_pred             chHHHHHHHHHHHCCCCC-CHHHHHHHHHhhcCCCCchhHHHHHHHHHHh----CC-CCchHHHHHHHHHHHhcCC----
Q 041741          486 DIEAFMFFKQMRQNEMYP-TQFSFATVLSSCAKLSSSFQGRQVHAQIEKD----GY-VNDIFVGSALIEMYCKCGD----  555 (748)
Q Consensus       486 ~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~----  555 (748)
                             .   ...+..| ....+..+...+...|+++.|...+....+.    +- +....++..+...|...|+    
T Consensus       116 -------~---~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~  185 (411)
T 4a1s_A          116 -------A---KSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQ  185 (411)
T ss_dssp             -------H---HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -------H---HHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCccccc
Confidence                   0   0001111 2234444555555556666665555554433    11 1134456667777777788    


Q ss_pred             -------------HHHHHHHhhhcCC-----C----CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCC-CCC----HHH
Q 041741          556 -------------IYGARQFFDMMHG-----K----NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGV-KPD----DIT  608 (748)
Q Consensus       556 -------------~~~A~~~~~~~~~-----~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~  608 (748)
                                   +++|.+.+++..+     .    ....+..+...+...|++++|+..+++..+... .++    ..+
T Consensus       186 ~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  265 (411)
T 4a1s_A          186 RNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRA  265 (411)
T ss_dssp             HSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             ccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHH
Confidence                         7777777766532     1    234677788889999999999999988876311 012    126


Q ss_pred             HHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHhhCC-C---CC----CHhH
Q 041741          609 FVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI----LDHYTCMIDCLGRAGHFHEAEMLIDEMP-C---KD----DPVI  676 (748)
Q Consensus       609 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~---~~----~~~~  676 (748)
                      +..+...+...|++++|...+++......-..+    ...+..++.++...|++++|...+++.. .   .+    ....
T Consensus       266 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  345 (411)
T 4a1s_A          266 NSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARA  345 (411)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHH
Confidence            778888999999999999999887533221122    4567788999999999999999998774 1   11    1346


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          677 WEVLLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       677 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      +..+...+...|++++|...+++++++.+
T Consensus       346 ~~~la~~~~~~g~~~~A~~~~~~al~~~~  374 (411)
T 4a1s_A          346 CWSLGNAHSAIGGHERALKYAEQHLQLAX  374 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHHHh
Confidence            77788889999999999999999999877

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.29  E-value=2.4e-11  Score=126.49  Aligned_cols=180  Identities=10%  Similarity=-0.091  Sum_probs=157.6

Q ss_pred             CHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCCh-hHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHH
Q 041741          555 DIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYG-DEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFN  630 (748)
Q Consensus       555 ~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~-~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~  630 (748)
                      .++++...++....   .+...+..+...+...|++ ++|+..|++..+.. +.+...|..+..+|...|++++|+..|+
T Consensus        83 ~~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            35566666665442   4778899999999999999 99999999999963 4456789999999999999999999999


Q ss_pred             HhhhhhCCCCChhHHHHHHHHHHhc---------CChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhc--------CCHH
Q 041741          631 SMQLDHGVEPILDHYTCMIDCLGRA---------GHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLH--------ANVR  691 (748)
Q Consensus       631 ~~~~~~~~~~~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~--------~~~~  691 (748)
                      +..   ...|+...+..++.+|...         |++++|...+++..  .+.++..|..+...+...        |+++
T Consensus       162 ~al---~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GAL---THCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHH---TTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHH---hhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            985   4568888899999999999         99999999999885  455688999999999888        9999


Q ss_pred             HHHHHHHHHHhcCC---CCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          692 LAKRAAEELFRLDP---KNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       692 ~a~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      +|...++++++++|   +++.++..++.+|...|++++|.+.|+++.+..
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~  288 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD  288 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999   999999999999999999999999999987644

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.29  E-value=8e-11  Score=119.64  Aligned_cols=189  Identities=9%  Similarity=-0.036  Sum_probs=143.5

Q ss_pred             HHHHHHhcCCHHHHHHHhhhcCC-----C----CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCC-CCC-----HHHHH
Q 041741          546 LIEMYCKCGDIYGARQFFDMMHG-----K----NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGV-KPD-----DITFV  610 (748)
Q Consensus       546 l~~~~~~~g~~~~A~~~~~~~~~-----~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~-----~~~~~  610 (748)
                      ....+...|++++|...+++..+     +    ...++..+...+...|+++.|+..+++..+... .++     ..++.
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            44556677888888877776543     2    235678888899999999999999988776311 111     24788


Q ss_pred             HHHHHhcCCCChHHHHHHHHHhhhhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHhhCC------CC-C-CHhHHH
Q 041741          611 AILTACSHSGLVDVGVEIFNSMQLDHGVEPI----LDHYTCMIDCLGRAGHFHEAEMLIDEMP------CK-D-DPVIWE  678 (748)
Q Consensus       611 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~------~~-~-~~~~~~  678 (748)
                      .+...|...|++++|+..+++......-.++    ..++..++.+|...|++++|...+++..      .. | .+.++.
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            8999999999999999999988543222222    2468889999999999999999988774      12 3 356678


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCC-----CCCcchHHHhHHHhhcCC---hHHHHHHHHHH
Q 041741          679 VLLSSCRLHANVRLAKRAAEELFRLDP-----KNSAPYSLLANIYSSLGR---WDDLRAVRELM  734 (748)
Q Consensus       679 ~l~~~~~~~~~~~~a~~~~~~~~~~~p-----~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~  734 (748)
                      .++..+...|++++|...+++++++.+     .....+..++.+|...|+   .++|..++++.
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~  332 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK  332 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC
Confidence            888899999999999999999999843     233346789999999999   77888877754

>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=99.28  E-value=8e-11  Score=109.72  Aligned_cols=206  Identities=10%  Similarity=0.018  Sum_probs=154.2

Q ss_pred             CCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHH
Q 041741          503 PTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIH  579 (748)
Q Consensus       503 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~  579 (748)
                      .++..+......+...|++++|...++...+...+++...+..+..++...|++++|.+.|++..+   .+...|..+..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSA   84 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHH
Confidence            456777788888889999999999999988887556777777788889999999999999987653   35667888889


Q ss_pred             HHHHcCChhHHHHHHHHHHHcCCCCCH-------HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC---hhHHHHHH
Q 041741          580 GYAQNGYGDEAVRLYKDMIASGVKPDD-------ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI---LDHYTCMI  649 (748)
Q Consensus       580 ~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~~~l~  649 (748)
                      ++...|++++|+..+++..+.. +.+.       ..|..+...+...|++++|+..++++.   ...|+   ...+..++
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al---~~~p~~~~~~~~~~l~  160 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHAT---DVTSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSSCHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHH---hcCCCcccHHHHHHHH
Confidence            9999999999999999988853 3334       347777788888899999999998885   34554   45677788


Q ss_pred             HHHHhcCCh--HHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHh
Q 041741          650 DCLGRAGHF--HEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYS  719 (748)
Q Consensus       650 ~~~~~~g~~--~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  719 (748)
                      .+|...|+.  ++|..+.     ..++..+....  ....+.+++|...++++++++|+++.+...++.+..
T Consensus       161 ~~~~~~~~~~~~~a~~~~-----~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~~  225 (228)
T 4i17_A          161 VLFYNNGADVLRKATPLA-----SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVKA  225 (228)
T ss_dssp             HHHHHHHHHHHHHHGGGT-----TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHhcc-----cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            888766543  2222211     22233333222  344567899999999999999999888888877654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.28  E-value=2.4e-10  Score=111.85  Aligned_cols=220  Identities=8%  Similarity=0.003  Sum_probs=162.1

Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHhhc-------CCCCc-------hhHHHHHHHHHHhCCCCchHHHHHHHHHHHh
Q 041741          487 IEAFMFFKQMRQNEMYPTQFSFATVLSSCA-------KLSSS-------FQGRQVHAQIEKDGYVNDIFVGSALIEMYCK  552 (748)
Q Consensus       487 ~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~-------~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  552 (748)
                      ++|...|++..... +.+...|..+...+.       ..|++       ++|..+++...+.-.+-+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            67888898888752 345566666666654       35776       7888888888774223466788888888888


Q ss_pred             cCCHHHHHHHhhhcCC--C-CHH-HHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHh-cCCCChHHHHH
Q 041741          553 CGDIYGARQFFDMMHG--K-NTV-TWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTAC-SHSGLVDVGVE  627 (748)
Q Consensus       553 ~g~~~~A~~~~~~~~~--~-~~~-~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~-~~~~~~~~A~~  627 (748)
                      .|++++|.++|+++.+  | +.. .|..++..+.+.|++++|..+|++.++.+ +++...|....... ...|++++|..
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999988764  3 343 78888888888899999999999988853 33444444333332 23688999999


Q ss_pred             HHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC----CC--CHhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 041741          628 IFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPC----KD--DPVIWEVLLSSCRLHANVRLAKRAAEELF  701 (748)
Q Consensus       628 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  701 (748)
                      +|++.....  +-+...+..++..+.+.|++++|..+|++...    +|  ....|..++......|+.+.|..++++++
T Consensus       191 ~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          191 IFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            998885443  22467788888888888999999999888752    33  35678888888888899999999999999


Q ss_pred             hcCCCCCcc
Q 041741          702 RLDPKNSAP  710 (748)
Q Consensus       702 ~~~p~~~~~  710 (748)
                      +..|+++..
T Consensus       269 ~~~p~~~~~  277 (308)
T 2ond_A          269 TAFREEYEG  277 (308)
T ss_dssp             HHTTTTTSS
T ss_pred             HHccccccc
Confidence            998876544

>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=99.26  E-value=3.4e-08  Score=105.44  Aligned_cols=414  Identities=10%  Similarity=0.022  Sum_probs=252.4

Q ss_pred             CCchHHHHHHHHHHHhcCChhHHHHHhccCCC--C-CcccHHHHHHHHHhcCC---hhHHHHHHHHHHhcC-CCCChhhH
Q 041741          269 EADLHLSNSLLDMYAKNGDMDSAEVIFSNLPE--R-SVVSWNVMIAGYGQKYQ---STKAIELLQRMKSCG-FEPDEVTS  341 (748)
Q Consensus       269 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~---~~~a~~~~~~m~~~g-~~p~~~~~  341 (748)
                      +.|...+..++..+...+.++.+..+|+.+..  | ....|...+..-.+.++   ++.+.++|++..... ..|+...|
T Consensus        63 p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW  142 (679)
T 4e6h_A           63 PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLW  142 (679)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHH
T ss_pred             cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHH
Confidence            46788888888888888888888888887765  2 33456677777777777   888888888887754 23677777


Q ss_pred             HHHHHHHHhcCCH--------HHHHHHhccCC------C-CCcchHHHHHHHHHc---------cCCHHHHHHHHHHHHH
Q 041741          342 INMLVACVRSGDI--------KTGREMFDSMP------S-PSVSSWNAMLSSYSQ---------SENHKEAIKLFREMQF  397 (748)
Q Consensus       342 ~~ll~~~~~~~~~--------~~a~~~~~~~~------~-~~~~~~~~ll~~~~~---------~~~~~~a~~~~~~m~~  397 (748)
                      ...+....+.++.        +...++|+...      . .+...|...+.....         +++++.+..+|+....
T Consensus       143 ~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~  222 (679)
T 4e6h_A          143 LSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLC  222 (679)
T ss_dssp             HHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHh
Confidence            7666655554443        22334554322      1 223456665554332         2345667777777664


Q ss_pred             cCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHh-------hCCC---
Q 041741          398 RGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFH-------RIPE---  467 (748)
Q Consensus       398 ~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-------~~~~---  467 (748)
                      .....-..+|..... +.+.-+...+..++....                     .+++.|...+.       .+..   
T Consensus       223 iP~~~~~~~w~~Y~~-fe~~~~~~~a~~~~~e~~---------------------~~y~~Ar~~~~e~~~~~~~l~r~~p  280 (679)
T 4e6h_A          223 QPMDCLESMWQRYTQ-WEQDVNQLTARRHIGELS---------------------AQYMNARSLYQDWLNITKGLKRNLP  280 (679)
T ss_dssp             SCCSSHHHHHHHHHH-HHHHHCTTTHHHHHHHHH---------------------HHHHHHHHHHHHHHHHTTTCCCCCC
T ss_pred             CccHHHHHHHHHHHH-HHHhcCcchHHHHHHHhh---------------------HHHHHHHHHHHHHHHHHHhHhhccc
Confidence            211111122211111 111001111111111100                     01111111111       1110   


Q ss_pred             -----------C--C------cchHHHHHHHHHhCCC-------chHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCc
Q 041741          468 -----------L--D------IVCWNSMIAGLSLNSL-------DIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSS  521 (748)
Q Consensus       468 -----------~--~------~~~~~~li~~~~~~~~-------~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~  521 (748)
                                 |  +      ...|...+.---..+.       .+.+..+|++.... ++-....|.....-+...|+.
T Consensus       281 ~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~  359 (679)
T 4e6h_A          281 ITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTD  359 (679)
T ss_dssp             SSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCC
T ss_pred             cccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcH
Confidence                       0  0      0124444433222221       12345667777664 233556666666666677888


Q ss_pred             hhHH-HHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC-------------CC------------HHHHH
Q 041741          522 FQGR-QVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG-------------KN------------TVTWN  575 (748)
Q Consensus       522 ~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------------~~------------~~~~~  575 (748)
                      +.|. .+++..... .+.+...+-..+....+.|++++|.++|+.+..             |+            ...|.
T Consensus       360 ~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi  438 (679)
T 4e6h_A          360 STVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYC  438 (679)
T ss_dssp             TTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHH
Confidence            8886 999988764 355677777888888899999999999987753             21            23577


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHc-CCCCCHHHHHHHHHHhcC-CCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHH
Q 041741          576 EMIHGYAQNGYGDEAVRLYKDMIAS-GVKPDDITFVAILTACSH-SGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLG  653 (748)
Q Consensus       576 ~l~~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~l~~~~~~-~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  653 (748)
                      ..+....+.|+.+.|..+|.++++. + .+....|...+..-.+ .++.+.|..+|+...+..+  -+...+...++...
T Consensus       439 ~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p--~~~~~w~~y~~fe~  515 (679)
T 4e6h_A          439 VYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFA--TDGEYINKYLDFLI  515 (679)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHT--TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCC--CchHHHHHHHHHHH
Confidence            7788888889999999999999885 2 1222333322222223 3568999999999865543  34455668888888


Q ss_pred             hcCChHHHHHHHhhCC-CCC----CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 041741          654 RAGHFHEAEMLIDEMP-CKD----DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSA  709 (748)
Q Consensus       654 ~~g~~~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  709 (748)
                      ..|+.+.|..+|++.. ..|    ....|..++..-...|+.+.+..+.+++.+..|+++.
T Consensus       516 ~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~~  576 (679)
T 4e6h_A          516 YVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVNK  576 (679)
T ss_dssp             HHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCCH
T ss_pred             hCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCcH
Confidence            8999999999999876 223    3467888888888899999999999999999997654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.25  E-value=2.9e-10  Score=113.24  Aligned_cols=151  Identities=11%  Similarity=-0.029  Sum_probs=104.7

Q ss_pred             HHHHHHHhhhcCC-----C----CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCC-CCC----HHHHHHHHHHhcCCCC
Q 041741          556 IYGARQFFDMMHG-----K----NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGV-KPD----DITFVAILTACSHSGL  621 (748)
Q Consensus       556 ~~~A~~~~~~~~~-----~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~~~~  621 (748)
                      +++|.+.+++...     +    ....+..+...+...|++++|...+++..+... .++    ..++..+...+...|+
T Consensus       159 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  238 (338)
T 3ro2_A          159 LQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  238 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCC
Confidence            6666666654431     1    234567777888888888888888888765310 011    1367777888888899


Q ss_pred             hHHHHHHHHHhhhhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHhhCC----CCCC----HhHHHHHHHHHHhcCC
Q 041741          622 VDVGVEIFNSMQLDHGVEPI----LDHYTCMIDCLGRAGHFHEAEMLIDEMP----CKDD----PVIWEVLLSSCRLHAN  689 (748)
Q Consensus       622 ~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~~~  689 (748)
                      +++|...+++......-.++    ...+..++.++...|++++|...+++..    ..++    ...+..+...+...|+
T Consensus       239 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  318 (338)
T 3ro2_A          239 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGN  318 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            99999988877433221222    4567788899999999999999888763    1111    3466778888999999


Q ss_pred             HHHHHHHHHHHHhcCCC
Q 041741          690 VRLAKRAAEELFRLDPK  706 (748)
Q Consensus       690 ~~~a~~~~~~~~~~~p~  706 (748)
                      +++|...+++++++.++
T Consensus       319 ~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          319 HDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             HHHHHHHHHHHHHC---
T ss_pred             hHHHHHHHHHHHHHHHh
Confidence            99999999999998774

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.25  E-value=1.9e-09  Score=109.08  Aligned_cols=192  Identities=14%  Similarity=0.012  Sum_probs=90.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHhhhcCC----------C-CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCC--C--CHHH
Q 041741          544 SALIEMYCKCGDIYGARQFFDMMHG----------K-NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVK--P--DDIT  608 (748)
Q Consensus       544 ~~l~~~~~~~g~~~~A~~~~~~~~~----------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~--p--~~~~  608 (748)
                      ..+...+...|++++|...+++...          | ....+..+...+...|++++|...+++..+....  +  ...+
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            3444455555555555555554321          1 1123344555555566666666666555543111  0  1234


Q ss_pred             HHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHH-----HHHHHHHhcCChHHHHHHHhhCC-CCCC-----HhHH
Q 041741          609 FVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYT-----CMIDCLGRAGHFHEAEMLIDEMP-CKDD-----PVIW  677 (748)
Q Consensus       609 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~~-~~~~-----~~~~  677 (748)
                      +..+...+...|++++|...+++.............+.     ..+..+...|++++|...+++.. ..|.     ...+
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHH
Confidence            44555555556666666666655532211111111111     12233455666666666665553 1111     1123


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC------cchHHHhHHHhhcCChHHHHHHHHHHH
Q 041741          678 EVLLSSCRLHANVRLAKRAAEELFRLDPKNS------APYSLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       678 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      ..+...+...|++++|...+++++...+...      .++..++.++...|+.++|...+++..
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al  320 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDAL  320 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            3444555556666666666666555433211      244555666666666666666655543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.25  E-value=1.8e-09  Score=105.56  Aligned_cols=213  Identities=10%  Similarity=0.001  Sum_probs=127.3

Q ss_pred             hhHHHHHHHHHHhCCCCchHHHHHHHHHHHh-------cCCH-------HHHHHHhhhcCC---C-CHHHHHHHHHHHHH
Q 041741          522 FQGRQVHAQIEKDGYVNDIFVGSALIEMYCK-------CGDI-------YGARQFFDMMHG---K-NTVTWNEMIHGYAQ  583 (748)
Q Consensus       522 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~-------~~A~~~~~~~~~---~-~~~~~~~l~~~~~~  583 (748)
                      ++|...|+.+.... +.++..|..++..+..       .|++       ++|..+|++..+   | +...|..++..+..
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            35555666655542 3355556555555542       3664       677777765443   2 44566677777777


Q ss_pred             cCChhHHHHHHHHHHHcCCCCCH-H-HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHH-hcCChHH
Q 041741          584 NGYGDEAVRLYKDMIASGVKPDD-I-TFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLG-RAGHFHE  660 (748)
Q Consensus       584 ~~~~~~a~~~~~~m~~~~~~p~~-~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~  660 (748)
                      .|++++|..+|+++++.  .|+. . .|..++..+.+.|++++|..+|++.....  +++...|...+.... ..|++++
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA--RTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST--TCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHcCCHHH
Confidence            77777777777777763  4432 2 56666666666777777777777664211  122334433333322 2577777


Q ss_pred             HHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhc---CCC-CCcchHHHhHHHhhcCChHHHHHHHHHH
Q 041741          661 AEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRL---DPK-NSAPYSLLANIYSSLGRWDDLRAVRELM  734 (748)
Q Consensus       661 A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  734 (748)
                      |..+|++..  .+.++..|..++..+...|++++|..+++++++.   .|+ ....+..++..+...|+.++|..+++++
T Consensus       188 A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          188 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            777776663  3335666666666666777777777777777774   342 3445666677777777777777777766


Q ss_pred             HhcCC
Q 041741          735 SENCI  739 (748)
Q Consensus       735 ~~~~~  739 (748)
                      .+..+
T Consensus       268 ~~~~p  272 (308)
T 2ond_A          268 FTAFR  272 (308)
T ss_dssp             HHHTT
T ss_pred             HHHcc
Confidence            65443

>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=99.24  E-value=5e-10  Score=100.32  Aligned_cols=170  Identities=12%  Similarity=-0.004  Sum_probs=145.4

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHh
Q 041741          540 IFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTAC  616 (748)
Q Consensus       540 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  616 (748)
                      ...+..+...+...|++++|...++.+.+   .+...+..++..+...|++++|...++++.+.. +.+...+..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            34566778888999999999999998875   467788999999999999999999999999863 45677888899999


Q ss_pred             cCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHH
Q 041741          617 SHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAK  694 (748)
Q Consensus       617 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~  694 (748)
                      ...|++++|...++++...  .+.+...+..++.++...|++++|...++++.  .+.++..+..++..+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999998533  23456778889999999999999999999875  4456788889999999999999999


Q ss_pred             HHHHHHHhcCCCCCcchH
Q 041741          695 RAAEELFRLDPKNSAPYS  712 (748)
Q Consensus       695 ~~~~~~~~~~p~~~~~~~  712 (748)
                      ..++++++..|+++....
T Consensus       165 ~~~~~~~~~~~~~~~~~~  182 (186)
T 3as5_A          165 PHFKKANELDEGASVELA  182 (186)
T ss_dssp             HHHHHHHHHHHCCCGGGG
T ss_pred             HHHHHHHHcCCCchhhHh
Confidence            999999999998765543

>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=99.23  E-value=9.9e-09  Score=109.58  Aligned_cols=418  Identities=9%  Similarity=-0.018  Sum_probs=251.4

Q ss_pred             CcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC---HHHHHHHhccCCC-----CCcchHH
Q 041741          302 SVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGD---IKTGREMFDSMPS-----PSVSSWN  373 (748)
Q Consensus       302 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~-----~~~~~~~  373 (748)
                      |..+|..++..+.+.+.++.+..+|+++... .+.....|...+..-.+.++   .+.+..+|+....     |++..|.
T Consensus        65 d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW~  143 (679)
T 4e6h_A           65 DIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLWL  143 (679)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHHH
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            5567777888777777888888888887765 33445556666666666666   7777777766653     4555555


Q ss_pred             HHHHHHHccCCH--------HHHHHHHHHHHH-cCC-CCC-HhhHHHHHHHhh---------ccCChHHHHHHHHHHHhh
Q 041741          374 AMLSSYSQSENH--------KEAIKLFREMQF-RGV-KPD-RTTLAIILSSCA---------AMGILESGKQVHAASLKT  433 (748)
Q Consensus       374 ~ll~~~~~~~~~--------~~a~~~~~~m~~-~g~-~p~-~~~~~~ll~~~~---------~~~~~~~a~~~~~~~~~~  433 (748)
                      ..+....+.++.        +.+.++|+.... .|. .|+ ...+...+.-..         ..++++.+..++..++..
T Consensus       144 ~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~i  223 (679)
T 4e6h_A          144 SYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQ  223 (679)
T ss_dssp             HHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHhC
Confidence            555544443332        223355554433 344 443 234444333221         122345555666666543


Q ss_pred             cCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHH--CCC----C-----
Q 041741          434 ASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQ--NEM----Y-----  502 (748)
Q Consensus       434 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~----~-----  502 (748)
                      .......++......-...+. ..+.+++.+                 ...+++.|...+.++..  .++    +     
T Consensus       224 P~~~~~~~w~~Y~~fe~~~~~-~~a~~~~~e-----------------~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~  285 (679)
T 4e6h_A          224 PMDCLESMWQRYTQWEQDVNQ-LTARRHIGE-----------------LSAQYMNARSLYQDWLNITKGLKRNLPITLNQ  285 (679)
T ss_dssp             CCSSHHHHHHHHHHHHHHHCT-TTHHHHHHH-----------------HHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTT
T ss_pred             ccHHHHHHHHHHHHHHHhcCc-chHHHHHHH-----------------hhHHHHHHHHHHHHHHHHHHhHhhcccccccc
Confidence            222222222221111000000 001111100                 00122233344433321  111    0     


Q ss_pred             ------C-----C---HHHHHHHHHhhcCCC-------CchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHH-
Q 041741          503 ------P-----T---QFSFATVLSSCAKLS-------SSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGAR-  560 (748)
Q Consensus       503 ------p-----~---~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~-  560 (748)
                            |     +   ...|...+.---..+       ...++..+|++.... .+....+|...+..+...|+.++|. 
T Consensus       286 ~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r  364 (679)
T 4e6h_A          286 ATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVIT  364 (679)
T ss_dssp             CCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHH
T ss_pred             chhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHH
Confidence                  1     0   012222222211111       123355667777665 3447788888888888899999996 


Q ss_pred             HHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCC---------CCC------------HHHHHHHHHHh
Q 041741          561 QFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGV---------KPD------------DITFVAILTAC  616 (748)
Q Consensus       561 ~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~---------~p~------------~~~~~~l~~~~  616 (748)
                      .+|++...   ++...|-..+....+.|++++|..+|+++++...         .|+            ...|...+...
T Consensus       365 ~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~e  444 (679)
T 4e6h_A          365 KYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTM  444 (679)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHH
Confidence            99987764   3566677888888999999999999999987410         142            23577777777


Q ss_pred             cCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhc-CChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHH
Q 041741          617 SHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRA-GHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLA  693 (748)
Q Consensus       617 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a  693 (748)
                      .+.|..+.|..+|.++....+ .+....|...+..-.+. ++.+.|.++|+...  .+.++..|..++......|+.+.|
T Consensus       445 rR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~A  523 (679)
T 4e6h_A          445 KRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQV  523 (679)
T ss_dssp             HHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHH
Confidence            788999999999999854311 12334455444444454 45899999999885  556788888888888889999999


Q ss_pred             HHHHHHHHhcCCC---CCcchHHHhHHHhhcCChHHHHHHHHHHHhcCCC
Q 041741          694 KRAAEELFRLDPK---NSAPYSLLANIYSSLGRWDDLRAVRELMSENCIV  740 (748)
Q Consensus       694 ~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  740 (748)
                      ..+|++++...|+   ....+......-...|+.+.+..+.+++.+.-+.
T Consensus       524 R~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~  573 (679)
T 4e6h_A          524 KSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPE  573 (679)
T ss_dssp             HHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            9999999998883   3456777777888889999999999999876653

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.22  E-value=3.5e-11  Score=118.45  Aligned_cols=235  Identities=10%  Similarity=-0.013  Sum_probs=142.9

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHHHHC-------CCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHh------CC-C
Q 041741          472 CWNSMIAGLSLNSLDIEAFMFFKQMRQN-------EMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKD------GY-V  537 (748)
Q Consensus       472 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-------~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~  537 (748)
                      ++..+...+...|++++|...++++...       ..+.....+..+...+...|+++.|...+....+.      +. +
T Consensus        29 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  108 (311)
T 3nf1_A           29 TLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHP  108 (311)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCCh
Confidence            3445555555666666666666655542       11223345556666666677777777766666543      21 2


Q ss_pred             CchHHHHHHHHHHHhcCCHHHHHHHhhhcCC----------C-CHHHHHHHHHHHHHcCChhHHHHHHHHHHHc------
Q 041741          538 NDIFVGSALIEMYCKCGDIYGARQFFDMMHG----------K-NTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS------  600 (748)
Q Consensus       538 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------  600 (748)
                      .....+..+...|...|++++|...++++.+          + ....+..+...+...|++++|+.+++++.+.      
T Consensus       109 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~  188 (311)
T 3nf1_A          109 AVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLG  188 (311)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhC
Confidence            2355666777777778888888777776542          1 2345777788888888888888888888764      


Q ss_pred             CCCCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhh------CCCCC-hh------HHHHHHHHHHhcCChHHHHHHHh
Q 041741          601 GVKPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDH------GVEPI-LD------HYTCMIDCLGRAGHFHEAEMLID  666 (748)
Q Consensus       601 ~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~-~~------~~~~l~~~~~~~g~~~~A~~~~~  666 (748)
                      +..|+. .++..+...+...|++++|...++++....      ...+. ..      .+..+...+...+.+.+|...++
T Consensus       189 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  268 (311)
T 3nf1_A          189 PDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYK  268 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC----
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHh
Confidence            223333 467788888888999999999988875321      11121 11      12223333445555666666666


Q ss_pred             hCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041741          667 EMP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK  706 (748)
Q Consensus       667 ~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  706 (748)
                      ... ..| ....+..++..+...|++++|...+++++++.|+
T Consensus       269 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          269 ACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             hcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            664 223 4567888888999999999999999999998874

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.19  E-value=2.8e-09  Score=107.90  Aligned_cols=162  Identities=14%  Similarity=0.059  Sum_probs=76.5

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHc----CCCC-CHHHHHHHHHHhcCCCChHHHHHHHHHhhhhh---CCCCChhH
Q 041741          573 TWNEMIHGYAQNGYGDEAVRLYKDMIAS----GVKP-DDITFVAILTACSHSGLVDVGVEIFNSMQLDH---GVEPILDH  644 (748)
Q Consensus       573 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~  644 (748)
                      +++.+..+|...|++++|.+.+++..+.    +-.+ ...++..+...|...|++++|+..+++.....   +.+....+
T Consensus       184 ~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  263 (378)
T 3q15_A          184 SLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKV  263 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHH
Confidence            3444444555555555555555444431    1000 01244455555555555555555555543210   11111344


Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCC----C--CCC-HhHHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCCcchHHH
Q 041741          645 YTCMIDCLGRAGHFHEAEMLIDEMP----C--KDD-PVIWEVLLSSCRLHAN---VRLAKRAAEELFRLDPKNSAPYSLL  714 (748)
Q Consensus       645 ~~~l~~~~~~~g~~~~A~~~~~~~~----~--~~~-~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l  714 (748)
                      +..++.++.+.|++++|...+++..    .  .|. ...+..+...+...++   ..+|...+++ ....|.....+..+
T Consensus       264 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~-~~~~~~~~~~~~~l  342 (378)
T 3q15_A          264 LFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK-KNLHAYIEACARSA  342 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh-CCChhHHHHHHHHH
Confidence            5555666666666666665555442    0  111 1223333334444555   4455555444 11222233455666


Q ss_pred             hHHHhhcCChHHHHHHHHHHH
Q 041741          715 ANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       715 ~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      +.+|...|++++|..++++..
T Consensus       343 a~~y~~~g~~~~A~~~~~~al  363 (378)
T 3q15_A          343 AAVFESSCHFEQAAAFYRKVL  363 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHH
Confidence            677777777777776666554

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.18  E-value=3.3e-10  Score=114.71  Aligned_cols=304  Identities=7%  Similarity=-0.045  Sum_probs=211.5

Q ss_pred             CCCHhhHHHHHHHh--hccCChHHHHHHHHHHHhhcCC--ch--hHHHHHHHHHH--HhcCChHHHH---------HHHh
Q 041741          401 KPDRTTLAIILSSC--AAMGILESGKQVHAASLKTASH--ID--NYVASGLIGIY--SKCQRNELAE---------RVFH  463 (748)
Q Consensus       401 ~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~--~~--~~~~~~l~~~~--~~~~~~~~a~---------~~~~  463 (748)
                      .|...+-..+-.-+  ...++++.|..+.+.+.+....  .+  ...+-.++..-  ...+....+.         ..++
T Consensus         7 ~~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~   86 (378)
T 3q15_A            7 IPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLE   86 (378)
T ss_dssp             BCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHH
Confidence            44444444444444  7899999999999987664322  23  33334443321  1112222222         3333


Q ss_pred             hCC---CCCcc-----hHHHHHHHHHhCCCchHHHHHHHHHHHCCC-CCC----HHHHHHHHHhhcCCCCchhHHHHHHH
Q 041741          464 RIP---ELDIV-----CWNSMIAGLSLNSLDIEAFMFFKQMRQNEM-YPT----QFSFATVLSSCAKLSSSFQGRQVHAQ  530 (748)
Q Consensus       464 ~~~---~~~~~-----~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~  530 (748)
                      .+.   .+...     .+......+...|++++|+..|++...... .++    ..++..+...+...|+++.|...+..
T Consensus        87 ~i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~  166 (378)
T 3q15_A           87 TIETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQ  166 (378)
T ss_dssp             HHHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHH
Confidence            332   21111     122334556789999999999999886421 122    34677888899999999999999998


Q ss_pred             HHHh--CC---CC-chHHHHHHHHHHHhcCCHHHHHHHhhhcCC-----CC----HHHHHHHHHHHHHcCChhHHHHHHH
Q 041741          531 IEKD--GY---VN-DIFVGSALIEMYCKCGDIYGARQFFDMMHG-----KN----TVTWNEMIHGYAQNGYGDEAVRLYK  595 (748)
Q Consensus       531 ~~~~--~~---~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~  595 (748)
                      ..+.  ..   .+ ...+++.+..+|...|++++|.+.|++..+     ++    ..++..+..+|...|++++|+..++
T Consensus       167 al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~  246 (378)
T 3q15_A          167 ALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQ  246 (378)
T ss_dssp             HHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            8764  11   11 255778899999999999999999987653     22    3467889999999999999999999


Q ss_pred             HHHH-----cCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC---hhHHHHHHHHHHhcCC---hHHHHHH
Q 041741          596 DMIA-----SGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI---LDHYTCMIDCLGRAGH---FHEAEML  664 (748)
Q Consensus       596 ~m~~-----~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~---~~~A~~~  664 (748)
                      +..+     .. +....++..+...+...|++++|...+++......-.++   ...+..+...+...|+   +++|...
T Consensus       247 ~al~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~  325 (378)
T 3q15_A          247 KAAKVSREKVP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSY  325 (378)
T ss_dssp             HHHHHHHHHCG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHH
T ss_pred             HHHHHHHhhCC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            9887     42 333567889999999999999999999998543332222   3345667777888888   8999999


Q ss_pred             HhhCCCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          665 IDEMPCKDD-PVIWEVLLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       665 ~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      +++....|+ ...+..++..+...|++++|...++++++...
T Consensus       326 ~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~~~  367 (378)
T 3q15_A          326 FEKKNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLKAQE  367 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHhCCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            998653333 45666788889999999999999999987643

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.13  E-value=1.4e-09  Score=103.55  Aligned_cols=184  Identities=10%  Similarity=-0.044  Sum_probs=106.3

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHhhhcCC--C-C---HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCC-CCC-HHHHH
Q 041741          539 DIFVGSALIEMYCKCGDIYGARQFFDMMHG--K-N---TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGV-KPD-DITFV  610 (748)
Q Consensus       539 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~-~~~~~  610 (748)
                      ++..+..+...+.+.|++++|...|+.+.+  | +   ...+..+..++...|++++|+..|++..+... .|. ...+.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            445555556666666677777666666553  2 2   44556666666666666666666666666421 111 23445


Q ss_pred             HHHHHhcC--------CCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHH
Q 041741          611 AILTACSH--------SGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLS  682 (748)
Q Consensus       611 ~l~~~~~~--------~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~  682 (748)
                      .+..++..        .|++++|+..|+++.....-.+  .....+.......++.               ...+..++.
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~--~~~~a~~~~~~~~~~~---------------~~~~~~la~  156 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHE--LVDDATQKIRELRAKL---------------ARKQYEAAR  156 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCT--THHHHHHHHHHHHHHH---------------HHHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCch--hHHHHHHHHHHHHHHH---------------HHHHHHHHH
Confidence            55555555        6666666666666643321111  1111111100000000               011345566


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCC---cchHHHhHHHhhc----------CChHHHHHHHHHHHhcCC
Q 041741          683 SCRLHANVRLAKRAAEELFRLDPKNS---APYSLLANIYSSL----------GRWDDLRAVRELMSENCI  739 (748)
Q Consensus       683 ~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~  739 (748)
                      .+...|++++|...++++++..|+++   .++..++.+|...          |++++|...|+++.+..+
T Consensus       157 ~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p  226 (261)
T 3qky_A          157 LYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP  226 (261)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC
Confidence            77788888888888888888888744   3678888888766          778888888888766443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.12  E-value=2.6e-09  Score=98.94  Aligned_cols=183  Identities=10%  Similarity=-0.014  Sum_probs=113.1

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHhhhcCC--CC----HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH----HHH
Q 041741          540 IFVGSALIEMYCKCGDIYGARQFFDMMHG--KN----TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD----ITF  609 (748)
Q Consensus       540 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~  609 (748)
                      +..+..+...+.+.|++++|...|+.+.+  |+    ...+..++.++...|++++|+..|+++.+.  .|+.    ..+
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a~   81 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVM   81 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHHH
Confidence            33445556667777777777777777653  32    245666777777777777777777777764  2332    133


Q ss_pred             HHHHHHhcC------------------CCChHHHHHHHHHhhhhhCCCCCh-hHHHHHHHHHHhcCChHHHHHHHhhCCC
Q 041741          610 VAILTACSH------------------SGLVDVGVEIFNSMQLDHGVEPIL-DHYTCMIDCLGRAGHFHEAEMLIDEMPC  670 (748)
Q Consensus       610 ~~l~~~~~~------------------~~~~~~A~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~  670 (748)
                      ..+..++..                  .|++++|+..|+++...   .|+. .........    +......        
T Consensus        82 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~P~~~~a~~a~~~l----~~~~~~~--------  146 (225)
T 2yhc_A           82 YMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG---YPNSQYTTDATKRL----VFLKDRL--------  146 (225)
T ss_dssp             HHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT---CTTCTTHHHHHHHH----HHHHHHH--------
T ss_pred             HHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH---CcCChhHHHHHHHH----HHHHHHH--------
Confidence            334444332                  34455555555554321   2221 111110000    0000000        


Q ss_pred             CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC---cchHHHhHHHhhcCChHHHHHHHHHHHhcCCCCC
Q 041741          671 KDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS---APYSLLANIYSSLGRWDDLRAVRELMSENCIVKD  742 (748)
Q Consensus       671 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  742 (748)
                         ......++..+...|++++|...++++++..|+++   .++..++.+|.+.|++++|.+.++.+...++...
T Consensus       147 ---~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~  218 (225)
T 2yhc_A          147 ---AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTL  218 (225)
T ss_dssp             ---HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCC
T ss_pred             ---HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCch
Confidence               00112455668889999999999999999999876   5799999999999999999999999888766543

>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=99.08  E-value=8.7e-10  Score=106.56  Aligned_cols=221  Identities=15%  Similarity=0.138  Sum_probs=155.3

Q ss_pred             cCCCCchhHHHHHHHHHHh-------CCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC-----------CCHHHHHHH
Q 041741          516 AKLSSSFQGRQVHAQIEKD-------GYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG-----------KNTVTWNEM  577 (748)
Q Consensus       516 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----------~~~~~~~~l  577 (748)
                      ...|+++.|..++++..+.       ..+....++..+...|...|++++|...++++.+           ....++..+
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            4578888888888887653       2223567788899999999999999999887652           134578889


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHc------CCCCC-HHHHHHHHHHhcCCCChHHHHHHHHHhhhhh-----CCCCC-hhH
Q 041741          578 IHGYAQNGYGDEAVRLYKDMIAS------GVKPD-DITFVAILTACSHSGLVDVGVEIFNSMQLDH-----GVEPI-LDH  644 (748)
Q Consensus       578 ~~~~~~~~~~~~a~~~~~~m~~~------~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-----~~~~~-~~~  644 (748)
                      ..++...|++++|...++++.+.      .-.|+ ..++..+...+...|++++|+.+++++....     +..|+ ...
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            99999999999999999998874      11232 3578888999999999999999999885331     11232 556


Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCC----------CCCC-HhHHHHHHHHHHhcC------CHHHHHHHHHHHHhcCCCC
Q 041741          645 YTCMIDCLGRAGHFHEAEMLIDEMP----------CKDD-PVIWEVLLSSCRLHA------NVRLAKRAAEELFRLDPKN  707 (748)
Q Consensus       645 ~~~l~~~~~~~g~~~~A~~~~~~~~----------~~~~-~~~~~~l~~~~~~~~------~~~~a~~~~~~~~~~~p~~  707 (748)
                      +..++.+|...|++++|...++++.          ..+. ...+..+.......+      .+..+...++......|..
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHH
Confidence            7789999999999999999988763          1222 233333333333322      2333444444333344556


Q ss_pred             CcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          708 SAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       708 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      +.++..++.+|...|++++|..++++..+
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            67899999999999999999999998765

>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=99.07  E-value=8.9e-10  Score=119.17  Aligned_cols=164  Identities=13%  Similarity=0.078  Sum_probs=141.1

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 041741          539 DIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTA  615 (748)
Q Consensus       539 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  615 (748)
                      +...++.+..+|.+.|++++|.+.|++..+   .+...|..+..+|.+.|++++|+..|++.++.. +-+...|..+..+
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~   86 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            567788899999999999999999998763   467889999999999999999999999999853 3345789999999


Q ss_pred             hcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHH
Q 041741          616 CSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRL  692 (748)
Q Consensus       616 ~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~  692 (748)
                      +...|++++|++.|++..   .+.|+ ...+..++.+|...|++++|++.+++..  .+.++..+..++..+...|++++
T Consensus        87 l~~~g~~~~A~~~~~kAl---~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAI---QINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHH---HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHcCCHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHH
Confidence            999999999999999885   33455 6788999999999999999999999885  34468889999999999999999


Q ss_pred             HHHHHHHHHhcCCC
Q 041741          693 AKRAAEELFRLDPK  706 (748)
Q Consensus       693 a~~~~~~~~~~~p~  706 (748)
                      |.+.+++++++.|+
T Consensus       164 A~~~~~kal~l~~~  177 (723)
T 4gyw_A          164 YDERMKKLVSIVAD  177 (723)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhChh
Confidence            99999999987654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.07  E-value=6.5e-09  Score=97.86  Aligned_cols=243  Identities=8%  Similarity=-0.034  Sum_probs=157.6

Q ss_pred             HHhcCChHHHHHHHhhCCCCCcch-HHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHH
Q 041741          449 YSKCQRNELAERVFHRIPELDIVC-WNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQV  527 (748)
Q Consensus       449 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  527 (748)
                      ..-.|.+..++.-...+...+... -.-+.++|...|++...         ..-.|....+..+...+. .+    +...
T Consensus        23 ~fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~~-~~----a~~~   88 (310)
T 3mv2_B           23 NYYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFLD-TK----NIEE   88 (310)
T ss_dssp             HHTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHHT-TT----CCHH
T ss_pred             HHHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHhc-cc----HHHH
Confidence            445788888877666554333332 22234677777776532         123344444444444432 22    6667


Q ss_pred             HHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC-----CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCC
Q 041741          528 HAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG-----KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGV  602 (748)
Q Consensus       528 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~  602 (748)
                      ++++...+ .++......+..++...|++++|++++.+...     .+...+..++..+.+.|+.+.|.+.+++|.+.  
T Consensus        89 l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--  165 (310)
T 3mv2_B           89 LENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--  165 (310)
T ss_dssp             HHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--
Confidence            77666554 44455556778888888999999999887643     24566777888888999999999999998874  


Q ss_pred             CC-----CHHHHHHHHHHh--cC--CCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC---
Q 041741          603 KP-----DDITFVAILTAC--SH--SGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPC---  670 (748)
Q Consensus       603 ~p-----~~~~~~~l~~~~--~~--~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---  670 (748)
                      .|     +..+...+..++  ..  .+++.+|..+|+++..   -.|+..+...+..++.+.|++++|.+.++.+..   
T Consensus       166 ~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~---~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p  242 (310)
T 3mv2_B          166 IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQ---TFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYY  242 (310)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHT---TSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHH
T ss_pred             CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHH---hCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence            66     355566666553  33  3388889999988842   235423333344478888999999988876531   


Q ss_pred             ---------CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHH
Q 041741          671 ---------KDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSL  713 (748)
Q Consensus       671 ---------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  713 (748)
                               +.++.++..++......|+  .|.+.++++.+.+|++|.+...
T Consensus       243 ~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~d~  292 (310)
T 3mv2_B          243 SVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIKHH  292 (310)
T ss_dssp             HTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHHHH
T ss_pred             cccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHHHH
Confidence                     3356666566666556676  7788888888888877655443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.07  E-value=3e-09  Score=101.35  Aligned_cols=206  Identities=9%  Similarity=-0.012  Sum_probs=149.2

Q ss_pred             CCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCC--chHHHHHHHHHHHhcCCHHHHHHHhhhcCC--C----CHHH
Q 041741          502 YPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVN--DIFVGSALIEMYCKCGDIYGARQFFDMMHG--K----NTVT  573 (748)
Q Consensus       502 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~----~~~~  573 (748)
                      +.+...+..+...+...|++++|...|+.+.+.....  ....+..+..+|.+.|++++|...|+...+  |    ....
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            3456677778888999999999999999998874221  167788899999999999999999998763  3    2456


Q ss_pred             HHHHHHHHHH--------cCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhH
Q 041741          574 WNEMIHGYAQ--------NGYGDEAVRLYKDMIASGVKPDDI-TFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDH  644 (748)
Q Consensus       574 ~~~l~~~~~~--------~~~~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  644 (748)
                      +..+..++..        .|++++|+..|+++++.  .|+.. ....+              ..+..+...     ....
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~--------------~~~~~~~~~-----~~~~  150 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDAT--------------QKIRELRAK-----LARK  150 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHH--------------HHHHHHHHH-----HHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHH--------------HHHHHHHHH-----HHHH
Confidence            7788889988        99999999999999986  35432 22111              111111000     0122


Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCC-CCC----CHhHHHHHHHHHHhc----------CCHHHHHHHHHHHHhcCCCCCc
Q 041741          645 YTCMIDCLGRAGHFHEAEMLIDEMP-CKD----DPVIWEVLLSSCRLH----------ANVRLAKRAAEELFRLDPKNSA  709 (748)
Q Consensus       645 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~p~~~~  709 (748)
                      +..++.+|.+.|++++|...++++. ..|    .+..+..++.++...          |++++|...++++++..|+++.
T Consensus       151 ~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  230 (261)
T 3qky_A          151 QYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPL  230 (261)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChH
Confidence            5567888999999999999988874 223    245666677777655          8999999999999999998864


Q ss_pred             ---chHHHhHHHhhcCChHHHH
Q 041741          710 ---PYSLLANIYSSLGRWDDLR  728 (748)
Q Consensus       710 ---~~~~l~~~~~~~g~~~~A~  728 (748)
                         +...+..++...|+++++.
T Consensus       231 ~~~a~~~l~~~~~~~~~~~~~~  252 (261)
T 3qky_A          231 LRTAEELYTRARQRLTELEGDA  252 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCT
T ss_pred             HHHHHHHHHHHHHHHHHhhhhh
Confidence               4556666666666655443

>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=99.06  E-value=6.6e-11  Score=101.40  Aligned_cols=141  Identities=9%  Similarity=-0.084  Sum_probs=94.5

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhc
Q 041741          578 IHGYAQNGYGDEAVRLYKDMIASGVKPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRA  655 (748)
Q Consensus       578 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~  655 (748)
                      ...+...|++++|+..+++....  .|+. ..+..+...|...|++++|++.|++...   +.|+ ...+..++.+|.+.
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~---~~p~~~~a~~~lg~~~~~~   78 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYIN---VQERDPKAHRFLGLLYELE   78 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHc
Confidence            34444556667777777665552  3333 3455666677777777777777777642   2343 56677777777777


Q ss_pred             CChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHH-HHHHHHhcCCCCCcchHHHhHHHhhcCC
Q 041741          656 GHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKR-AAEELFRLDPKNSAPYSLLANIYSSLGR  723 (748)
Q Consensus       656 g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~~~~p~~~~~~~~l~~~~~~~g~  723 (748)
                      |++++|...+++..  .+.++..+..++..+...|++++|.. .++++++++|+++.++...+.++...|+
T Consensus        79 ~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           79 ENTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             CchHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            77777777777764  33457777777778888887765444 4688888888888888888888877775

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.06  E-value=3.3e-09  Score=102.27  Aligned_cols=175  Identities=10%  Similarity=-0.030  Sum_probs=141.8

Q ss_pred             HHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhC
Q 041741          558 GARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHG  637 (748)
Q Consensus       558 ~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  637 (748)
                      .....+......+...+..+...+...|++++|...|+++.+.. +-+...+..+...+...|++++|...++++.   .
T Consensus       104 ~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~---~  179 (287)
T 3qou_A          104 AIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIP---L  179 (287)
T ss_dssp             HHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSC---G
T ss_pred             HHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCc---h
Confidence            34444444444455667778888999999999999999999863 4455788889999999999999999999885   3


Q ss_pred             CCCChhHHH-HHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--CcchH
Q 041741          638 VEPILDHYT-CMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN--SAPYS  712 (748)
Q Consensus       638 ~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~--~~~~~  712 (748)
                      ..|+..... .....+...++.++|...+++..  .+.++..+..+...+...|++++|...++++++.+|++  +.++.
T Consensus       180 ~~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~  259 (287)
T 3qou_A          180 QDQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRX  259 (287)
T ss_dssp             GGCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHH
T ss_pred             hhcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHH
Confidence            345543322 33444677888899999888875  45578899999999999999999999999999999987  88999


Q ss_pred             HHhHHHhhcCChHHHHHHHHHHHh
Q 041741          713 LLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       713 ~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .++.++...|+.++|...|++...
T Consensus       260 ~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          260 TFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHH
Confidence            999999999999999999987653

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.06  E-value=1.1e-09  Score=106.14  Aligned_cols=200  Identities=11%  Similarity=-0.015  Sum_probs=141.5

Q ss_pred             CchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC-----CC----HHHHHHHHHHHHHcCChhHH
Q 041741          520 SSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG-----KN----TVTWNEMIHGYAQNGYGDEA  590 (748)
Q Consensus       520 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a  590 (748)
                      +++.|...+...               ...|...|++++|.+.|.+...     .+    ..+|+.+..+|...|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            366666666554               4457778888888888876542     11    45788899999999999999


Q ss_pred             HHHHHHHHHcCC---CCC--HHHHHHHHHHhcCC-CChHHHHHHHHHhhhhhCCCCC----hhHHHHHHHHHHhcCChHH
Q 041741          591 VRLYKDMIASGV---KPD--DITFVAILTACSHS-GLVDVGVEIFNSMQLDHGVEPI----LDHYTCMIDCLGRAGHFHE  660 (748)
Q Consensus       591 ~~~~~~m~~~~~---~p~--~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~  660 (748)
                      +..+++..+...   .+.  ..++..+...|... |++++|+..|++......-..+    ..++..++.++.+.|++++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            999998876311   111  24688888899886 9999999999988543221111    3467888999999999999


Q ss_pred             HHHHHhhCC-CCCC-H-------hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc-----hHHHhHHHh--hcCCh
Q 041741          661 AEMLIDEMP-CKDD-P-------VIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAP-----YSLLANIYS--SLGRW  724 (748)
Q Consensus       661 A~~~~~~~~-~~~~-~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~-----~~~l~~~~~--~~g~~  724 (748)
                      |...+++.. ..|+ +       ..+..++.++...|++++|...++++++++|+.+..     +..++..|.  ..+++
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~  256 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQL  256 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTH
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHH
Confidence            999998874 2232 1       146677778889999999999999999999986653     344555554  45778


Q ss_pred             HHHHHHHHHH
Q 041741          725 DDLRAVRELM  734 (748)
Q Consensus       725 ~~A~~~~~~~  734 (748)
                      ++|+..|+.+
T Consensus       257 ~~A~~~~~~~  266 (292)
T 1qqe_A          257 SEHCKEFDNF  266 (292)
T ss_dssp             HHHHHHHTTS
T ss_pred             HHHHHHhccC
Confidence            8888888753

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.02  E-value=2.6e-08  Score=93.78  Aligned_cols=241  Identities=8%  Similarity=-0.065  Sum_probs=146.8

Q ss_pred             HHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCH
Q 041741          477 IAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDI  556 (748)
Q Consensus       477 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  556 (748)
                      |+-..-.|.+..++.-...+   ...........+.+++...|++....         ...|....+..+.. |...+  
T Consensus        20 ikn~fy~G~yq~~i~e~~~~---~~~~~~~~~~~~~Rs~iAlg~~~~~~---------~~~~~~~a~~~la~-~~~~~--   84 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQEIEKF---SKVTDNTLLFYKAKTLLALGQYQSQD---------PTSKLGKVLDLYVQ-FLDTK--   84 (310)
T ss_dssp             HHHHHTTTCHHHHTHHHHTS---SCCCCHHHHHHHHHHHHHTTCCCCCC---------SSSTTHHHHHHHHH-HHTTT--
T ss_pred             HHHHHHhhHHHHHHHHHHhc---CccchHHHHHHHHHHHHHcCCCccCC---------CCCHHHHHHHHHHH-Hhccc--
Confidence            34455667777776633222   11122233334556666666665321         12223223333333 33322  


Q ss_pred             HHHHHHhhhcC---CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHhcCCCChHHHHHHHHHh
Q 041741          557 YGARQFFDMMH---GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKP-DDITFVAILTACSHSGLVDVGVEIFNSM  632 (748)
Q Consensus       557 ~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~  632 (748)
                        |...|++..   .++..++..+..++...|++++|++++.+.++.|..+ +...+..++..+.+.|+.+.|.+.+++|
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 --NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             --CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             --HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence              556666544   2455556677788888888888888888877654312 3456777778888888888888888888


Q ss_pred             hhhhCCCC-----ChhHHHHHHHH--HHhcC--ChHHHHHHHhhCC-CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 041741          633 QLDHGVEP-----ILDHYTCMIDC--LGRAG--HFHEAEMLIDEMP-CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFR  702 (748)
Q Consensus       633 ~~~~~~~~-----~~~~~~~l~~~--~~~~g--~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  702 (748)
                      . .  ..|     +..+...++.+  ....|  ++.+|..+|+++. ..|+......+..++...|++++|+..++.+.+
T Consensus       163 ~-~--~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          163 T-N--AIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             H-H--HSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             H-h--cCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4 2  345     24444555544  33334  7888888888875 334422223333367778888888888887776


Q ss_pred             c----------CCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          703 L----------DPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       703 ~----------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      .          +|+|+.++..++.+....|+  +|.++++++++..+
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P  284 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDH  284 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTC
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCC
Confidence            5          47788888788777777887  77888888766543

>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=99.01  E-value=2.3e-09  Score=94.82  Aligned_cols=158  Identities=9%  Similarity=0.009  Sum_probs=107.6

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHH-HH
Q 041741          575 NEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDC-LG  653 (748)
Q Consensus       575 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~-~~  653 (748)
                      ..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|+..++++...   .|+......+... +.
T Consensus        10 ~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A           10 LKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHHHHH
Confidence            344555666666777776666665532 334455666666667777777777777666422   2232222222211 12


Q ss_pred             hcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--CcchHHHhHHHhhcCChHHHHH
Q 041741          654 RAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN--SAPYSLLANIYSSLGRWDDLRA  729 (748)
Q Consensus       654 ~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~A~~  729 (748)
                      ..+...+|...+++..  .+.++..+..+...+...|++++|...++++++.+|+.  +.++..++.++...|+.++|..
T Consensus        86 ~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             hhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            2233345666776664  34468888899999999999999999999999999975  5589999999999999999999


Q ss_pred             HHHHHHh
Q 041741          730 VRELMSE  736 (748)
Q Consensus       730 ~~~~~~~  736 (748)
                      .|++...
T Consensus       166 ~y~~al~  172 (176)
T 2r5s_A          166 KYRRQLY  172 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9998654

>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=99.00  E-value=1e-09  Score=119.59  Aligned_cols=148  Identities=13%  Similarity=0.069  Sum_probs=67.6

Q ss_pred             cCCCCchhHHHHHHHHH--------HhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHc
Q 041741          516 AKLSSSFQGRQVHAQIE--------KDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQN  584 (748)
Q Consensus       516 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~  584 (748)
                      ...|++++|.+.++...        +. .+.+...+..+..++...|++++|.+.|+++.+   .+...|..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            44555555555555544        11 122334444444455555555555555544432   2344444455555555


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHH
Q 041741          585 GYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEM  663 (748)
Q Consensus       585 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~  663 (748)
                      |++++|+..|+++.+.. +-+...+..+..++...|++++ +..|+++..   ..|+ ...+..++.++.+.|++++|.+
T Consensus       481 g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWS---TNDGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHH---hCCchHHHHHHHHHHHHHcCCHHHHHH
Confidence            55555555555554431 1122344444444455555555 444444421   1222 3344444555555555555555


Q ss_pred             HHhhCC
Q 041741          664 LIDEMP  669 (748)
Q Consensus       664 ~~~~~~  669 (748)
                      .+++..
T Consensus       556 ~~~~al  561 (681)
T 2pzi_A          556 TLDEVP  561 (681)
T ss_dssp             HHHTSC
T ss_pred             HHHhhc
Confidence            554443

>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=99.00  E-value=5.9e-10  Score=95.40  Aligned_cols=124  Identities=12%  Similarity=-0.024  Sum_probs=103.0

Q ss_pred             HHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcC
Q 041741          612 ILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHA  688 (748)
Q Consensus       612 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~  688 (748)
                      |...+...|++++|+..++...   ...|+ ...+..++.+|.+.|++++|.+.+++..  .+.++..|..++..+...|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~---~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGST---PSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHS---CSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhc---ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            4566778899999999998874   33444 3445679999999999999999999885  4557899999999999999


Q ss_pred             CHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHH-HHHHHhcC
Q 041741          689 NVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAV-RELMSENC  738 (748)
Q Consensus       689 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~~  738 (748)
                      ++++|...++++++++|+++.++..++.+|...|++++|.+. ++++.+-.
T Consensus        80 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~  130 (150)
T 4ga2_A           80 NTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF  130 (150)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS
T ss_pred             chHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC
Confidence            999999999999999999999999999999999999887765 57765543

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.99  E-value=6.6e-09  Score=87.18  Aligned_cols=127  Identities=15%  Similarity=0.136  Sum_probs=77.1

Q ss_pred             HHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhc
Q 041741          610 VAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLH  687 (748)
Q Consensus       610 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~  687 (748)
                      ..+...+...|++++|..+++++...  .+.+...+..++..+...|++++|...++++.  .+.++..+..++..+...
T Consensus         5 ~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            5 YNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHh
Confidence            33444444444555555554444211  11223344445555555555555555555543  233455666666777777


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          688 ANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       688 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      |++++|...++++++..|+++.++..++.++...|++++|...++++.+..
T Consensus        83 ~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             cCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            778888888888777777777777778888888888888888887766543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.98  E-value=3.6e-08  Score=99.60  Aligned_cols=195  Identities=13%  Similarity=0.072  Sum_probs=141.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHhhhcCC-----CCH----HHHHHHHHHHHHcCChhHHHHHHHHHHHc----CCC--CC-
Q 041741          542 VGSALIEMYCKCGDIYGARQFFDMMHG-----KNT----VTWNEMIHGYAQNGYGDEAVRLYKDMIAS----GVK--PD-  605 (748)
Q Consensus       542 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~--p~-  605 (748)
                      .+..+...+...|++++|.+.+++...     .+.    .++..+...+...|++++|...+++..+.    +..  |. 
T Consensus        55 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~  134 (373)
T 1hz4_A           55 ATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMH  134 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHH
Confidence            344556667777888888877776542     222    33567788899999999999999988763    222  32 


Q ss_pred             HHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCC-CC--ChhHHHHHHHHHHhcCChHHHHHHHhhCC---CCC-CHhHHH
Q 041741          606 DITFVAILTACSHSGLVDVGVEIFNSMQLDHGV-EP--ILDHYTCMIDCLGRAGHFHEAEMLIDEMP---CKD-DPVIWE  678 (748)
Q Consensus       606 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~-~~~~~~  678 (748)
                      ...+..+...+...|++++|...+++......- .+  ....+..++.++...|++++|...+++..   ..+ .+..+.
T Consensus       135 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~  214 (373)
T 1hz4_A          135 EFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWI  214 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHH
Confidence            245677888899999999999999987532211 11  23467788999999999999999998763   111 212222


Q ss_pred             -----HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc----chHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          679 -----VLLSSCRLHANVRLAKRAAEELFRLDPKNSA----PYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       679 -----~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                           ..+..+...|++++|...+++++...|.++.    .+..++.++...|++++|...++++.+
T Consensus       215 ~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~  281 (373)
T 1hz4_A          215 SNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNE  281 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                 2233477899999999999999987775432    357889999999999999999998754

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.98  E-value=5.2e-09  Score=101.28  Aligned_cols=171  Identities=8%  Similarity=-0.101  Sum_probs=137.0

Q ss_pred             CHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHc----CCCCC-HHHHHHHHHHhcCCCChHHHHHHH
Q 041741          555 DIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS----GVKPD-DITFVAILTACSHSGLVDVGVEIF  629 (748)
Q Consensus       555 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~  629 (748)
                      ++++|...|+..           +..|...|++++|+..|++..+.    |-+++ ..+|..+..+|...|++++|+..+
T Consensus        32 ~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~  100 (292)
T 1qqe_A           32 KFEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (292)
T ss_dssp             HHHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            488888887664           66788899999999999988763    22222 357899999999999999999999


Q ss_pred             HHhhhhhCCCCC----hhHHHHHHHHHHhc-CChHHHHHHHhhCC-CCC---C----HhHHHHHHHHHHhcCCHHHHHHH
Q 041741          630 NSMQLDHGVEPI----LDHYTCMIDCLGRA-GHFHEAEMLIDEMP-CKD---D----PVIWEVLLSSCRLHANVRLAKRA  696 (748)
Q Consensus       630 ~~~~~~~~~~~~----~~~~~~l~~~~~~~-g~~~~A~~~~~~~~-~~~---~----~~~~~~l~~~~~~~~~~~~a~~~  696 (748)
                      ++......-..+    ..++..++.+|... |++++|...+++.. ..|   +    ..++..++..+...|++++|...
T Consensus       101 ~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~  180 (292)
T 1qqe_A          101 ENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDI  180 (292)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            988543221122    35688899999996 99999999998874 111   1    35677888899999999999999


Q ss_pred             HHHHHhcCCCCCc-------chHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          697 AEELFRLDPKNSA-------PYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       697 ~~~~~~~~p~~~~-------~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      ++++++..|+++.       .+..++.++...|++++|...+++..+
T Consensus       181 ~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  227 (292)
T 1qqe_A          181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS  227 (292)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9999999998765       367889999999999999999998543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.98  E-value=2e-09  Score=91.43  Aligned_cols=102  Identities=13%  Similarity=0.024  Sum_probs=90.1

Q ss_pred             CCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHH
Q 041741          637 GVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSL  713 (748)
Q Consensus       637 ~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  713 (748)
                      .+.|+ ...+..++..+.+.|++++|...|++..  .+.++..|..+..++...|++++|...++++++++|+++.++..
T Consensus        30 ~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~  109 (151)
T 3gyz_A           30 AIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFH  109 (151)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHH
Confidence            44554 5567788899999999999999999885  45578899999999999999999999999999999999999999


Q ss_pred             HhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          714 LANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       714 l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      ++.+|...|++++|...|+++.+..
T Consensus       110 lg~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          110 TGQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999999987644

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.97  E-value=3.5e-08  Score=90.14  Aligned_cols=162  Identities=7%  Similarity=-0.072  Sum_probs=125.6

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCC----ChHHHHHHHHHhhhhhCCCCChhH
Q 041741          569 KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSG----LVDVGVEIFNSMQLDHGVEPILDH  644 (748)
Q Consensus       569 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~----~~~~A~~~~~~~~~~~~~~~~~~~  644 (748)
                      .++..+..+...|...+++++|+..|++..+.|   +...+..+...|.. +    ++++|+.+|++.. +.   -+...
T Consensus        16 g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~-~~---g~~~a   87 (212)
T 3rjv_A           16 GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV-EA---GSKSG   87 (212)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH-HT---TCHHH
T ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH-HC---CCHHH
Confidence            466677777777888888888888888888764   45566677777776 5    7888888888873 32   24566


Q ss_pred             HHHHHHHHHh----cCChHHHHHHHhhCC-CCCC---HhHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCcchH
Q 041741          645 YTCMIDCLGR----AGHFHEAEMLIDEMP-CKDD---PVIWEVLLSSCRL----HANVRLAKRAAEELFRLDPKNSAPYS  712 (748)
Q Consensus       645 ~~~l~~~~~~----~g~~~~A~~~~~~~~-~~~~---~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~  712 (748)
                      +..++.+|..    .+++++|..++++.. ..|.   +..+..|...+..    .+|+++|...++++.+. |.++.++.
T Consensus        88 ~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~a~~  166 (212)
T 3rjv_A           88 EIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL-SRTGYAEY  166 (212)
T ss_dssp             HHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT-SCTTHHHH
T ss_pred             HHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc-CCCHHHHH
Confidence            7778888876    788999999988876 3332   7778888888877    77899999999999888 66788999


Q ss_pred             HHhHHHhhc-C-----ChHHHHHHHHHHHhcCC
Q 041741          713 LLANIYSSL-G-----RWDDLRAVRELMSENCI  739 (748)
Q Consensus       713 ~l~~~~~~~-g-----~~~~A~~~~~~~~~~~~  739 (748)
                      .|+.+|... |     +.++|..+|++..+.|.
T Consensus       167 ~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          167 WAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            999998754 3     89999999998877654

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.95  E-value=1.4e-08  Score=98.05  Aligned_cols=201  Identities=9%  Similarity=-0.010  Sum_probs=132.5

Q ss_pred             CHHHHHHHHHhhcCCCCchhHHHHHHHHHHh------CCCC-chHHHHHHHHHHHhcCCHHHHHHHhhhcCC-------C
Q 041741          504 TQFSFATVLSSCAKLSSSFQGRQVHAQIEKD------GYVN-DIFVGSALIEMYCKCGDIYGARQFFDMMHG-------K  569 (748)
Q Consensus       504 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~  569 (748)
                      ...++..+...+...|+++.|...+..+.+.      +-.| ...++..+..+|...|++++|.+.+++...       +
T Consensus        42 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~  121 (283)
T 3edt_B           42 VATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGK  121 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCC
Confidence            3445666777777777777777777776654      2222 455677778888888888888888776542       1


Q ss_pred             ----CHHHHHHHHHHHHHcCChhHHHHHHHHHHHc------CCCCC-HHHHHHHHHHhcCCCChHHHHHHHHHhhhhh--
Q 041741          570 ----NTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS------GVKPD-DITFVAILTACSHSGLVDVGVEIFNSMQLDH--  636 (748)
Q Consensus       570 ----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--  636 (748)
                          ...++..+...+...|++++|..+++++.+.      +-.|+ ..++..+...+...|++++|..+++++....  
T Consensus       122 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~  201 (283)
T 3edt_B          122 FHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHE  201 (283)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence                2456777888889999999999999888874      11333 3567888889999999999999998875321  


Q ss_pred             ----CCCCC-hhHHHHHHHHHHhcCC------hHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 041741          637 ----GVEPI-LDHYTCMIDCLGRAGH------FHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRL  703 (748)
Q Consensus       637 ----~~~~~-~~~~~~l~~~~~~~g~------~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  703 (748)
                          ...+. ...+..+...+...+.      +.++...++... ..| ....+..++..+...|++++|...++++++.
T Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          202 KEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             hcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                11222 3344444444444333      344444444444 222 3556778888899999999999999999875


Q ss_pred             C
Q 041741          704 D  704 (748)
Q Consensus       704 ~  704 (748)
                      .
T Consensus       282 ~  282 (283)
T 3edt_B          282 R  282 (283)
T ss_dssp             C
T ss_pred             h
Confidence            3

>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=98.92  E-value=5.5e-09  Score=112.07  Aligned_cols=160  Identities=10%  Similarity=-0.001  Sum_probs=122.9

Q ss_pred             cCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHH
Q 041741          553 CGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIF  629 (748)
Q Consensus       553 ~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~  629 (748)
                      .|++++|.+.+++..+   .+...|..+...+...|++++|.+.+++..+.. +.+...+..+..++...|++++|...+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4788999999988764   357789999999999999999999999999863 445678889999999999999999999


Q ss_pred             HHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhc---CCHHHHHHHHHHHHhcC
Q 041741          630 NSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLH---ANVRLAKRAAEELFRLD  704 (748)
Q Consensus       630 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~  704 (748)
                      ++....  .+.+...+..++.+|.+.|++++|.+.+++..  .+.++..+..+...+...   |+.++|.+.++++++.+
T Consensus        81 ~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            988532  12346788899999999999999999998875  445678888888899899   99999999999999999


Q ss_pred             CCCCcchHHHh
Q 041741          705 PKNSAPYSLLA  715 (748)
Q Consensus       705 p~~~~~~~~l~  715 (748)
                      |++...+..++
T Consensus       159 p~~~~~~~~l~  169 (568)
T 2vsy_A          159 VGAVEPFAFLS  169 (568)
T ss_dssp             CCCSCHHHHTT
T ss_pred             CcccChHHHhC
Confidence            99888888887

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.92  E-value=1.2e-08  Score=93.09  Aligned_cols=154  Identities=12%  Similarity=0.053  Sum_probs=110.9

Q ss_pred             HHHHhcCCHHHHHHHhhhcCC--C-CHHHHHH----------------HHHHHHHcCChhHHHHHHHHHHHcCCCCCHHH
Q 041741          548 EMYCKCGDIYGARQFFDMMHG--K-NTVTWNE----------------MIHGYAQNGYGDEAVRLYKDMIASGVKPDDIT  608 (748)
Q Consensus       548 ~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  608 (748)
                      ..+...|++++|...|+...+  | +...|..                +..++...|++++|+..+++.++.. +-+...
T Consensus        12 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~   90 (208)
T 3urz_A           12 SAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PNNVDC   90 (208)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHH
Confidence            344455566666665555442  2 2233444                8889999999999999999999963 445678


Q ss_pred             HHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCC--hHHHHHHHhhCCCCCCHh--HHHHHHHH
Q 041741          609 FVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGH--FHEAEMLIDEMPCKDDPV--IWEVLLSS  683 (748)
Q Consensus       609 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~~~~~--~~~~l~~~  683 (748)
                      +..+..++...|++++|+..|+++..   +.|+ ...+..++.+|...|.  .+.+...++... .|++.  .+.....+
T Consensus        91 ~~~lg~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~a~~~~g~~  166 (208)
T 3urz_A           91 LEACAEMQVCRGQEKDALRMYEKILQ---LEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLS-SPTKMQYARYRDGLS  166 (208)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh-CCCchhHHHHHHHHH
Confidence            89999999999999999999999853   3454 6778888888876654  455666676665 44443  34445566


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCC
Q 041741          684 CRLHANVRLAKRAAEELFRLDPK  706 (748)
Q Consensus       684 ~~~~~~~~~a~~~~~~~~~~~p~  706 (748)
                      +...|++++|+..++++++++|+
T Consensus       167 ~~~~~~~~~A~~~~~~al~l~P~  189 (208)
T 3urz_A          167 KLFTTRYEKARNSLQKVILRFPS  189 (208)
T ss_dssp             HHHHHTHHHHHHHHHHHTTTSCC
T ss_pred             HHHccCHHHHHHHHHHHHHhCCC
Confidence            77789999999999999999995

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.91  E-value=4.9e-09  Score=86.33  Aligned_cols=92  Identities=13%  Similarity=0.098  Sum_probs=46.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcC
Q 041741          645 YTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLG  722 (748)
Q Consensus       645 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  722 (748)
                      +...+..|.+.|++++|+..|++..  .+.++..|..++.++...|++++|+..++++++++|+++.++..+|.+|...|
T Consensus        16 ~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   95 (126)
T 4gco_A           16 EKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVAMR   95 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCC
Confidence            4444555555555555555554442  22334445555555555555555555555555555555555555555555555


Q ss_pred             ChHHHHHHHHHHHh
Q 041741          723 RWDDLRAVRELMSE  736 (748)
Q Consensus       723 ~~~~A~~~~~~~~~  736 (748)
                      ++++|.+.|++..+
T Consensus        96 ~~~~A~~~~~~al~  109 (126)
T 4gco_A           96 EWSKAQRAYEDALQ  109 (126)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            55555555555433

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.89  E-value=3.7e-08  Score=82.44  Aligned_cols=131  Identities=15%  Similarity=0.201  Sum_probs=100.8

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHH
Q 041741          573 TWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCL  652 (748)
Q Consensus       573 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  652 (748)
                      .|..++..+...|++++|..+++++.+.+ +.+...+..+...+...|++++|..+++++...  .+.+...+..++.++
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHHHHH
Confidence            45667777888888888888888887753 345567777777888888888888888887422  133456677788888


Q ss_pred             HhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041741          653 GRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK  706 (748)
Q Consensus       653 ~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  706 (748)
                      ...|++++|...++++.  .+.++..+..++..+...|++++|...++++++.+|+
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            88888888888888774  3446777888888888999999999999999988885

>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=98.87  E-value=4.7e-09  Score=89.38  Aligned_cols=95  Identities=13%  Similarity=0.008  Sum_probs=65.3

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHh
Q 041741          642 LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYS  719 (748)
Q Consensus       642 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  719 (748)
                      ...+..++..+.+.|++++|...+++..  .+.++..|..+..++...|++++|...++++++++|+++.++..++.+|.
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~  100 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECLL  100 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            3445556666777777777777776653  33456666666667777777777777777777777777777777777777


Q ss_pred             hcCChHHHHHHHHHHHh
Q 041741          720 SLGRWDDLRAVRELMSE  736 (748)
Q Consensus       720 ~~g~~~~A~~~~~~~~~  736 (748)
                      ..|++++|...|++..+
T Consensus       101 ~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          101 QXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            77777777777776655

>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=98.87  E-value=4.5e-08  Score=95.48  Aligned_cols=218  Identities=12%  Similarity=0.001  Sum_probs=151.4

Q ss_pred             CCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcC-CCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHH
Q 041741          483 NSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAK-LSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQ  561 (748)
Q Consensus       483 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  561 (748)
                      .|++++|.+++++..+... ..          +.. .++++.|...+..+               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~~-~~----------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK-TS----------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-CC----------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc-cc----------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            3556677777776654311 10          122 46777777666553               456777888888888


Q ss_pred             HhhhcCC-----CC----HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCC---CCC--HHHHHHHHHHhcCCCChHHHHH
Q 041741          562 FFDMMHG-----KN----TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGV---KPD--DITFVAILTACSHSGLVDVGVE  627 (748)
Q Consensus       562 ~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~---~p~--~~~~~~l~~~~~~~~~~~~A~~  627 (748)
                      .|.+..+     .+    ..+|+.+..+|...|++++|+..+++..+.-.   .|.  ..++..+...|.. |++++|+.
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            8776542     11    34788888999999999999999998776311   222  2467888888888 99999999


Q ss_pred             HHHHhhhhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHhhCC-C---CCC----HhHHHHHHHHHHhcCCHHHHHH
Q 041741          628 IFNSMQLDHGVEPI----LDHYTCMIDCLGRAGHFHEAEMLIDEMP-C---KDD----PVIWEVLLSSCRLHANVRLAKR  695 (748)
Q Consensus       628 ~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~---~~~----~~~~~~l~~~~~~~~~~~~a~~  695 (748)
                      .+++......-..+    ..++..++.+|.+.|++++|...+++.. .   .+.    ...+..++..+...|++++|..
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            99987533211111    4567889999999999999999998874 1   111    2245556666777899999999


Q ss_pred             HHHHHHhcCCCCCcc-----hHHHhHHHhhcCChHHHHH
Q 041741          696 AAEELFRLDPKNSAP-----YSLLANIYSSLGRWDDLRA  729 (748)
Q Consensus       696 ~~~~~~~~~p~~~~~-----~~~l~~~~~~~g~~~~A~~  729 (748)
                      .+++++ ++|.....     +..++.++ ..|+.+.+..
T Consensus       217 ~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          217 CVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            999999 99976544     44455545 5677766655

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.86  E-value=1.1e-08  Score=93.24  Aligned_cols=161  Identities=12%  Similarity=0.028  Sum_probs=123.5

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH-HHHHH----------------HHHHhcCCCChHHHHHHHHHhhh
Q 041741          572 VTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD-ITFVA----------------ILTACSHSGLVDVGVEIFNSMQL  634 (748)
Q Consensus       572 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~----------------l~~~~~~~~~~~~A~~~~~~~~~  634 (748)
                      ..+...+..+...|++++|+..|++..+.  .|+. ..+..                +..++...|++++|+..+++...
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   82 (208)
T 3urz_A            5 DEMLQKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQ   82 (208)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34445567788999999999999999985  5654 45666                88899999999999999999853


Q ss_pred             hhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcC--CHHHHHHHHHHHHhcCCCCCc
Q 041741          635 DHGVEP-ILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHA--NVRLAKRAAEELFRLDPKNSA  709 (748)
Q Consensus       635 ~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~p~~~~  709 (748)
                         ..| +...+..++.++...|++++|...+++..  .+.++..+..++..+...|  +.+.+...+++++...| ...
T Consensus        83 ---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~  158 (208)
T 3urz_A           83 ---KAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTK-MQY  158 (208)
T ss_dssp             ---HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCH-HHH
T ss_pred             ---HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCc-hhH
Confidence               345 47788899999999999999999999885  4456888888888876554  34556667777654333 223


Q ss_pred             chHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          710 PYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       710 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      .+..++.++...|++++|...|+++.+..
T Consensus       159 a~~~~g~~~~~~~~~~~A~~~~~~al~l~  187 (208)
T 3urz_A          159 ARYRDGLSKLFTTRYEKARNSLQKVILRF  187 (208)
T ss_dssp             HHHHHHHHHHHHHTHHHHHHHHHHHTTTS
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            56778999999999999999999875543

>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=98.84  E-value=1.4e-08  Score=99.15  Aligned_cols=196  Identities=6%  Similarity=-0.127  Sum_probs=148.3

Q ss_pred             CCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHH
Q 041741          518 LSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDM  597 (748)
Q Consensus       518 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  597 (748)
                      .|++++|.+++++..+.... +      +   +...++++.|...|..           .+..|...|++++|...+.+.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~-~------~---~~~~~~~~~A~~~~~~-----------a~~~~~~~g~~~~A~~~~~~a   62 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKT-S------F---MKWKPDYDSAASEYAK-----------AAVAFKNAKQLEQAKDAYLQE   62 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCC-C------S---SSCSCCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccc-c------c---cCCCCCHHHHHHHHHH-----------HHHHHHHcCCHHHHHHHHHHH
Confidence            46677888888877764211 1      0   1114788888887765           467788999999999999988


Q ss_pred             HHcCC---CCC--HHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHhhC
Q 041741          598 IASGV---KPD--DITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI----LDHYTCMIDCLGRAGHFHEAEMLIDEM  668 (748)
Q Consensus       598 ~~~~~---~p~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~  668 (748)
                      .+...   .+.  ..+|..+...|...|++++|+..+++......-..+    ..++..++.+|.. |++++|...+++.
T Consensus        63 l~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~A  141 (307)
T 2ifu_A           63 AEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQA  141 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHH
Confidence            76311   111  247888899999999999999999987533211111    3567788999988 9999999999877


Q ss_pred             C-C-----CC--CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc------chHHHhHHHhhcCChHHHHHHHHHH
Q 041741          669 P-C-----KD--DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSA------PYSLLANIYSSLGRWDDLRAVRELM  734 (748)
Q Consensus       669 ~-~-----~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~~A~~~~~~~  734 (748)
                      . .     .+  ....+..+...+...|++++|...+++++++.|++..      .+..++.++...|++++|...+++.
T Consensus       142 l~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~a  221 (307)
T 2ifu_A          142 AAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRES  221 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4 1     11  1456778888999999999999999999999876543      6777888999999999999999986


Q ss_pred             H
Q 041741          735 S  735 (748)
Q Consensus       735 ~  735 (748)
                      .
T Consensus       222 l  222 (307)
T 2ifu_A          222 Y  222 (307)
T ss_dssp             T
T ss_pred             h
Confidence            5

>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=98.84  E-value=4.4e-08  Score=105.02  Aligned_cols=150  Identities=15%  Similarity=0.060  Sum_probs=77.8

Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHH
Q 041741          585 GYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEM  663 (748)
Q Consensus       585 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~  663 (748)
                      |++++|+..++++.+.. +.+...+..+...+...|++++|+..+++..   ...|+ ...+..++.+|...|++++|.+
T Consensus         3 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al---~~~p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGL---ALHPGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHH---TTSTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            45566666666655532 2234455566666666666666666666553   22333 4455566666666666666666


Q ss_pred             HHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhc---CChHHHHHHHHHHHhcC
Q 041741          664 LIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSL---GRWDDLRAVRELMSENC  738 (748)
Q Consensus       664 ~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~  738 (748)
                      .+++..  .+.++..+..+...+...|++++|.+.++++++.+|+++.++..++.++...   |++++|.+.++++.+.+
T Consensus        79 ~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           79 LLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            666553  2334555566666666666666666666666666666666666666666666   66666666666655443

>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=98.84  E-value=4.5e-08  Score=89.73  Aligned_cols=127  Identities=7%  Similarity=-0.091  Sum_probs=85.8

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHH
Q 041741          573 TWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCL  652 (748)
Q Consensus       573 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  652 (748)
                      .+..+...+...|++++|+..+++.    +.|+...+..+...+...|++++|+..+++.....  +.+...+..++.+|
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHH
Confidence            4455666777777777777777765    25566677777777777777777777777764221  23355666777777


Q ss_pred             HhcCChHHHHHHHhhCC--CCCCH----------------hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          653 GRAGHFHEAEMLIDEMP--CKDDP----------------VIWEVLLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       653 ~~~g~~~~A~~~~~~~~--~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      ...|++++|...+++..  .+.+.                ..+..++..+...|++++|...++++++..|
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            77777777777776663  11122                5566666677777777777777777777777

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.83  E-value=1.3e-08  Score=83.68  Aligned_cols=115  Identities=15%  Similarity=0.029  Sum_probs=93.2

Q ss_pred             CCCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHH
Q 041741          602 VKPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWE  678 (748)
Q Consensus       602 ~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~  678 (748)
                      +.|+. ..+...+..+.+.|++++|+..|++....  .+.+...+..++.+|.+.|++++|+..+++..  .+.++..|.
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~   85 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYI   85 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHH
Confidence            44544 45777788888888888888888887522  12346778888899999999999999888875  455688899


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHH
Q 041741          679 VLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIY  718 (748)
Q Consensus       679 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  718 (748)
                      .++.++...|++++|...++++++++|+++.++..|+.++
T Consensus        86 ~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~l  125 (126)
T 4gco_A           86 RKAACLVAMREWSKAQRAYEDALQVDPSNEEAREGVRNCL  125 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHhc
Confidence            9999999999999999999999999999998888887664

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.79  E-value=8e-07  Score=80.98  Aligned_cols=173  Identities=9%  Similarity=-0.065  Sum_probs=135.2

Q ss_pred             hHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC-CCHHHHHHHHHHHHHcC----ChhHHHHHHHHH
Q 041741          523 QGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG-KNTVTWNEMIHGYAQNG----YGDEAVRLYKDM  597 (748)
Q Consensus       523 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~~~----~~~~a~~~~~~m  597 (748)
                      +|..+|....+.|   ++..+..+...|...+++++|.+.|++..+ .++..+..|...|.. +    ++++|++.|++.
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A   79 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKA   79 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHH
Confidence            4556666666654   566777788888888999999999987664 577788888888887 6    899999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHhcC----CCChHHHHHHHHHhhhhhCCCCC---hhHHHHHHHHHHh----cCChHHHHHHHh
Q 041741          598 IASGVKPDDITFVAILTACSH----SGLVDVGVEIFNSMQLDHGVEPI---LDHYTCMIDCLGR----AGHFHEAEMLID  666 (748)
Q Consensus       598 ~~~~~~p~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~----~g~~~~A~~~~~  666 (748)
                      .+.|   +...+..|...|..    .+++++|+.+|++.. .  ..|+   ...+..|+.+|..    .+++++|..+++
T Consensus        80 ~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~-~--~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           80 VEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAA-R--DSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHT-S--STTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHH-H--cCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            8865   55667777777776    889999999999884 3  3342   6778889999988    889999999999


Q ss_pred             hCC-CCCCHhHHHHHHHHHHhc-C-----CHHHHHHHHHHHHhcCC
Q 041741          667 EMP-CKDDPVIWEVLLSSCRLH-A-----NVRLAKRAAEELFRLDP  705 (748)
Q Consensus       667 ~~~-~~~~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~~~~~~p  705 (748)
                      +.. .++++..+..+...|... |     |+++|...++++.+..+
T Consensus       154 ~A~~~~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          154 GSSSLSRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHTSCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            885 335666777777776543 3     89999999999998865

>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=98.79  E-value=4.3e-07  Score=87.89  Aligned_cols=161  Identities=6%  Similarity=-0.056  Sum_probs=120.7

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCC-CCCHH----HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC----hhHHH
Q 041741          576 EMIHGYAQNGYGDEAVRLYKDMIASGV-KPDDI----TFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI----LDHYT  646 (748)
Q Consensus       576 ~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~----~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~  646 (748)
                      ..+..+...|++++|..++++..+... .|+..    .+..+...+...|++++|+..++++.....-.++    ..++.
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346677888999999999998887421 22211    2334666777888999999999988542222233    23688


Q ss_pred             HHHHHHHhcCChHHHHHHHhhCC-----CCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC------Ccch
Q 041741          647 CMIDCLGRAGHFHEAEMLIDEMP-----CKDD----PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN------SAPY  711 (748)
Q Consensus       647 ~l~~~~~~~g~~~~A~~~~~~~~-----~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~  711 (748)
                      .++.+|...|++++|...++++.     .+.+    ..++..++..+...|++++|...+++++++.++.      +.++
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            89999999999999998888764     1112    3467788888999999999999999999976543      4578


Q ss_pred             HHHhHHHhhcCC-hHHHHHHHHHHHh
Q 041741          712 SLLANIYSSLGR-WDDLRAVRELMSE  736 (748)
Q Consensus       712 ~~l~~~~~~~g~-~~~A~~~~~~~~~  736 (748)
                      ..+|.+|...|+ +++|.++++++..
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            999999999995 6999999998764

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.77  E-value=9.2e-08  Score=104.25  Aligned_cols=182  Identities=10%  Similarity=-0.001  Sum_probs=144.2

Q ss_pred             HhCCCchHHHHHHHHHH--------HCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHh
Q 041741          481 SLNSLDIEAFMFFKQMR--------QNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCK  552 (748)
Q Consensus       481 ~~~~~~~~a~~~~~~m~--------~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  552 (748)
                      ...|++++|++.+++..        .. .+.+...+..+..++...|++++|...++.+.+.. +.+...+..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            77899999999999987        32 23355677788888999999999999999988864 3467788888999999


Q ss_pred             cCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHH
Q 041741          553 CGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIF  629 (748)
Q Consensus       553 ~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~  629 (748)
                      .|++++|.+.|++..+   .+...|..+..++...|++++ +..|+++.+.+ +.+...+..+..++...|++++|+..|
T Consensus       480 ~g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999998763   467788899999999999999 99999999863 445578888999999999999999999


Q ss_pred             HHhhhhhCCCCC-hhHHHHHHHHHHhcCC--------hHHHHHHHhhCC
Q 041741          630 NSMQLDHGVEPI-LDHYTCMIDCLGRAGH--------FHEAEMLIDEMP  669 (748)
Q Consensus       630 ~~~~~~~~~~~~-~~~~~~l~~~~~~~g~--------~~~A~~~~~~~~  669 (748)
                      +++.   ...|+ ...+..++.++...|+        +++|.+.+..+.
T Consensus       558 ~~al---~l~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~  603 (681)
T 2pzi_A          558 DEVP---PTSRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALP  603 (681)
T ss_dssp             HTSC---TTSTTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSC
T ss_pred             Hhhc---ccCcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCC
Confidence            9885   45676 5567777888766444        667777777765

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.77  E-value=1.4e-07  Score=91.24  Aligned_cols=164  Identities=5%  Similarity=-0.065  Sum_probs=117.6

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH-----HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC----hh
Q 041741          573 TWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDD-----ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI----LD  643 (748)
Q Consensus       573 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~  643 (748)
                      .+...+..+...|++++|.+.+++..+.....+.     ..+..+...+...|++++|+..+++......-..+    ..
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            3444566778888888888888887775322111     12344556667888999999988877432211112    34


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhCC-----CCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--C----C
Q 041741          644 HYTCMIDCLGRAGHFHEAEMLIDEMP-----CKDD----PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK--N----S  708 (748)
Q Consensus       644 ~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~----~  708 (748)
                      ++..++.+|...|++++|...+++..     .+.+    ..++..++..+...|++++|...+++++++.++  +    +
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            67788899999999999998887763     1121    257778888899999999999999999987542  1    4


Q ss_pred             cchHHHhHHHhhcCChHHH-HHHHHHHHh
Q 041741          709 APYSLLANIYSSLGRWDDL-RAVRELMSE  736 (748)
Q Consensus       709 ~~~~~l~~~~~~~g~~~~A-~~~~~~~~~  736 (748)
                      .++..+|.+|...|++++| ..++++...
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            5688899999999999999 777877643

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.76  E-value=2.4e-07  Score=85.54  Aligned_cols=186  Identities=10%  Similarity=-0.036  Sum_probs=133.8

Q ss_pred             CHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCC--chHHHHHHHHHHHhcCCHHHHHHHhhhcCC--CCH----HHHH
Q 041741          504 TQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVN--DIFVGSALIEMYCKCGDIYGARQFFDMMHG--KNT----VTWN  575 (748)
Q Consensus       504 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~----~~~~  575 (748)
                      +...+..+...+...|++++|...|+.+.+.....  ....+..+..+|.+.|++++|...|+++.+  |+.    ..+.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            34455566777889999999999999999874322  246778889999999999999999998763  322    2455


Q ss_pred             HHHHHHHH------------------cCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHhcCCCChHHHHHHHHHhhhhh
Q 041741          576 EMIHGYAQ------------------NGYGDEAVRLYKDMIASGVKPDDI-TFVAILTACSHSGLVDVGVEIFNSMQLDH  636 (748)
Q Consensus       576 ~l~~~~~~------------------~~~~~~a~~~~~~m~~~~~~p~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  636 (748)
                      .+..++..                  .|++++|+..|+++++.  .|+.. .+.....          ...+...+    
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~----------l~~~~~~~----  146 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR----------LVFLKDRL----  146 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH----------HHHHHHHH----
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH----------HHHHHHHH----
Confidence            56666654                  57899999999999985  45542 2221111          01111111    


Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CH---hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc
Q 041741          637 GVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DP---VIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAP  710 (748)
Q Consensus       637 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  710 (748)
                           ......++..|.+.|++++|...++++. ..| ++   ..+..++.++...|++++|...++.+....|++...
T Consensus       147 -----~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~~  220 (225)
T 2yhc_A          147 -----AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLEH  220 (225)
T ss_dssp             -----HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCCC
T ss_pred             -----HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchhh
Confidence                 0112357888999999999999999885 233 33   567788889999999999999999999999976543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.75  E-value=5e-08  Score=93.91  Aligned_cols=135  Identities=9%  Similarity=0.002  Sum_probs=112.4

Q ss_pred             CCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCHhHHHHH
Q 041741          603 KPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDPVIWEVL  680 (748)
Q Consensus       603 ~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l  680 (748)
                      +.+...+..+...+...|++++|+..++++...   .|+ ...+..++.++.+.|++++|...++++. ..|+.......
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQL---SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh---CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHH
Confidence            444456778888889999999999999998533   444 6778899999999999999999999996 45665544433


Q ss_pred             HH-HHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCCC
Q 041741          681 LS-SCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIV  740 (748)
Q Consensus       681 ~~-~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  740 (748)
                      .. .+...++.+.|...++++++.+|+++.++..++.+|...|++++|+..|+++.+..+.
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~  251 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLT  251 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccc
Confidence            33 3667788889999999999999999999999999999999999999999998876543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.75  E-value=1.1e-06  Score=83.88  Aligned_cols=148  Identities=14%  Similarity=0.162  Sum_probs=71.1

Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChH--HHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCC-----
Q 041741          585 GYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVD--VGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGH-----  657 (748)
Q Consensus       585 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~--~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-----  657 (748)
                      +++++++..++++.+.. +-+...|..-...+...|.++  ++++.++++...  ..-+...|..-..++.+.|.     
T Consensus       124 ~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~  200 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDN  200 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhh
Confidence            34455555555555432 333344444444444444444  555555554311  11223334433344444343     


Q ss_pred             -hHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCC-HHHHHHHHHHHHhcC---CCCCcchHHHhHHHhhcCChHHHHHH
Q 041741          658 -FHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHAN-VRLAKRAAEELFRLD---PKNSAPYSLLANIYSSLGRWDDLRAV  730 (748)
Q Consensus       658 -~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~A~~~  730 (748)
                       ++++++.++++.  .+.+...|..+...+...|+ .+......+++++++   |.++.++..++.+|.+.|+.++|.++
T Consensus       201 ~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          201 TIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence             555555555443  33345555555555555444 233444555555444   55555666666666666666666666


Q ss_pred             HHHHH
Q 041741          731 RELMS  735 (748)
Q Consensus       731 ~~~~~  735 (748)
                      ++.+.
T Consensus       281 ~~~l~  285 (306)
T 3dra_A          281 YDLLK  285 (306)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.72  E-value=6.2e-08  Score=81.92  Aligned_cols=94  Identities=12%  Similarity=-0.058  Sum_probs=63.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhh
Q 041741          643 DHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS  720 (748)
Q Consensus       643 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  720 (748)
                      ..+..++..+.+.|++++|...+++..  .+.++..|..+...+...|++++|...++++++++|+++.++..++.+|..
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Confidence            344456666667777777777766653  334566666666667777777777777777777777777777777777777


Q ss_pred             cCChHHHHHHHHHHHh
Q 041741          721 LGRWDDLRAVRELMSE  736 (748)
Q Consensus       721 ~g~~~~A~~~~~~~~~  736 (748)
                      .|++++|...|+.+.+
T Consensus        99 ~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           99 LGDLDGAESGFYSARA  114 (142)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            7777777777776654

>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=98.69  E-value=5.6e-08  Score=93.18  Aligned_cols=192  Identities=8%  Similarity=-0.061  Sum_probs=130.4

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 041741          539 DIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTA  615 (748)
Q Consensus       539 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~  615 (748)
                      +...+..+...+.+.|++++|...|+...+   .+...|..+..++...|++++|+..+++..+.. +.+...+..+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            345566677778888888888888887652   367788888888999999999999999888753 3455678888888


Q ss_pred             hcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHH
Q 041741          616 CSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKR  695 (748)
Q Consensus       616 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  695 (748)
                      +...|++++|+..|++......-.+.  .+...+....+......... ......++++.+...+.. + ..|++++|.+
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~p~~~~--~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l~~-l-~~~~~~~A~~  156 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLAKEQRL--NFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYLTR-L-IAAERERELE  156 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTC--CCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHHHH-H-HHHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHHHHhCccchh--hHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHHHH-H-HHHHHHHHHH
Confidence            88999999999988887432211111  01111111111111111111 222233445554444433 2 2689999999


Q ss_pred             HHHHHHhcCCCCCcchHHHhHHHhhc-CChHHHHHHHHHHHh
Q 041741          696 AAEELFRLDPKNSAPYSLLANIYSSL-GRWDDLRAVRELMSE  736 (748)
Q Consensus       696 ~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~  736 (748)
                      .++++++.+|++......+..++... +.+++|.++|+++.+
T Consensus       157 ~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          157 ECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             TTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            99999999998888888888888777 788999999998765

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.69  E-value=4.6e-08  Score=79.76  Aligned_cols=95  Identities=16%  Similarity=-0.003  Sum_probs=84.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhc
Q 041741          644 HYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSL  721 (748)
Q Consensus       644 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  721 (748)
                      .+..++..+.+.|++++|...+++..  .+.++..|..+...+...|++++|+..++++++++|+++.++..++.+|...
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            35567888999999999999999885  4457888999999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHhcC
Q 041741          722 GRWDDLRAVRELMSENC  738 (748)
Q Consensus       722 g~~~~A~~~~~~~~~~~  738 (748)
                      |++++|+..++++.+..
T Consensus        99 g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHC--
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            99999999999876543

>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=98.66  E-value=2.3e-07  Score=80.92  Aligned_cols=127  Identities=9%  Similarity=-0.082  Sum_probs=93.2

Q ss_pred             HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHH
Q 041741          608 TFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCR  685 (748)
Q Consensus       608 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  685 (748)
                      .+..+...+...|++++|...+++....  .+.+...+..++.++...|++++|...+++..  .+.++..+..++..+.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            3555555666667777777776666322  12235566677777777777887777777664  3446777888888899


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCcchHHHhHH--HhhcCChHHHHHHHHHHHh
Q 041741          686 LHANVRLAKRAAEELFRLDPKNSAPYSLLANI--YSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       686 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~A~~~~~~~~~  736 (748)
                      ..|++++|...++++++..|+++.++..++.+  +...|++++|...++....
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            99999999999999999999888877554444  8888999999999887654

>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=98.66  E-value=1.2e-07  Score=78.25  Aligned_cols=94  Identities=10%  Similarity=-0.018  Sum_probs=67.7

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhh
Q 041741          643 DHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS  720 (748)
Q Consensus       643 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  720 (748)
                      ..+..++..+.+.|++++|...+++..  .+.++..+..++..+...|++++|...++++++++|+++.++..++.+|..
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~   84 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIA   84 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            345556667777777777777776664  344566777777777777777777777777777777777777777777777


Q ss_pred             cCChHHHHHHHHHHHh
Q 041741          721 LGRWDDLRAVRELMSE  736 (748)
Q Consensus       721 ~g~~~~A~~~~~~~~~  736 (748)
                      .|++++|...++++.+
T Consensus        85 ~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           85 VKEYASALETLDAART  100 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             HhCHHHHHHHHHHHHH
Confidence            7777777777777654

>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=98.66  E-value=7.5e-08  Score=85.18  Aligned_cols=125  Identities=10%  Similarity=0.084  Sum_probs=75.8

Q ss_pred             HHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHH-HHhcCCh--
Q 041741          582 AQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDC-LGRAGHF--  658 (748)
Q Consensus       582 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~--  658 (748)
                      ...|++++|+..+++..+.. +.+...+..+...|...|++++|+..++++....  +.+...+..++.+ +...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcch
Confidence            44566777777777766652 3455666677777777777777777777664222  1234455566666 5566766  


Q ss_pred             HHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc
Q 041741          659 HEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSA  709 (748)
Q Consensus       659 ~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  709 (748)
                      ++|...++++.  .+.++..+..++..+...|++++|...++++++.+|+++.
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  150 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRIN  150 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSC
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCcc
Confidence            77777766653  2334566666666666777777777777777777776544

>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=1.7e-07  Score=78.05  Aligned_cols=114  Identities=10%  Similarity=-0.008  Sum_probs=77.5

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHH
Q 041741          607 ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSS  683 (748)
Q Consensus       607 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  683 (748)
                      ..+..+...+...|++++|+..+++..   ...| +...+..++.++...|++++|...+++..  .+.++..+..+...
T Consensus        17 ~~~~~~~~~~~~~~~~~~A~~~~~~al---~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   93 (133)
T 2lni_A           17 LMVKNKGNECFQKGDYPQAMKHYTEAI---KRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHH---TTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHH---HcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            345555555666666666666666553   1222 34555566666666666666666666553  33456677777778


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCC
Q 041741          684 CRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGR  723 (748)
Q Consensus       684 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  723 (748)
                      +...|++++|...++++++.+|+++.++..++.++...|+
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            8888888888888888888888888888888888877664

>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=98.64  E-value=8.3e-08  Score=94.64  Aligned_cols=144  Identities=15%  Similarity=0.079  Sum_probs=106.4

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHH
Q 041741          570 NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMI  649 (748)
Q Consensus       570 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  649 (748)
                      +...+..+...+...|++++|+..|++.++.  .|+...+           ..+.+..+ ...        ....+..++
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~-----------~~~~~~~~-~~~--------~~~~~~nla  203 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSW--LEYESSF-----------SNEEAQKA-QAL--------RLASHLNLA  203 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCCC-----------CSHHHHHH-HHH--------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--hhccccC-----------ChHHHHHH-HHH--------HHHHHHHHH
Confidence            3456666777777777777777777777764  2322100           00111111 000        135677888


Q ss_pred             HHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHH
Q 041741          650 DCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDL  727 (748)
Q Consensus       650 ~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  727 (748)
                      .+|.+.|++++|...+++..  .+.++..+..+..++...|++++|...++++++++|+++.++..++.++...|++++|
T Consensus       204 ~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          204 MCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999988875  4456888889999999999999999999999999999999999999999999999999


Q ss_pred             H-HHHHHHH
Q 041741          728 R-AVRELMS  735 (748)
Q Consensus       728 ~-~~~~~~~  735 (748)
                      . ..|+.|.
T Consensus       284 ~~~~~~~~~  292 (336)
T 1p5q_A          284 EKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            4 4666654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.62  E-value=1.6e-07  Score=75.42  Aligned_cols=99  Identities=10%  Similarity=0.015  Sum_probs=84.4

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CCcchHHHhHH
Q 041741          642 LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK--NSAPYSLLANI  717 (748)
Q Consensus       642 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~  717 (748)
                      ...+..++..+...|++++|...+++..  .+.++..+..++..+...|++++|...++++++..|+  ++.++..++.+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            4456677888888889999888888774  3456778888888899999999999999999999999  88999999999


Q ss_pred             Hhhc-CChHHHHHHHHHHHhcCCC
Q 041741          718 YSSL-GRWDDLRAVRELMSENCIV  740 (748)
Q Consensus       718 ~~~~-g~~~~A~~~~~~~~~~~~~  740 (748)
                      |... |++++|.+++++..+..+.
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p~  109 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHHH  109 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcccC
Confidence            9999 9999999999998765553

>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=98.61  E-value=1.1e-06  Score=80.36  Aligned_cols=131  Identities=11%  Similarity=0.028  Sum_probs=108.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCCh
Q 041741          543 GSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLV  622 (748)
Q Consensus       543 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~  622 (748)
                      +..+...+...|++++|...|++...++...|..+..++...|++++|+..+++..+.. +.+...+..+..++...|++
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~   87 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   87 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccH
Confidence            34566778889999999999999988899999999999999999999999999999864 45667888999999999999


Q ss_pred             HHHHHHHHHhhhhhCC-------------CCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCH
Q 041741          623 DVGVEIFNSMQLDHGV-------------EPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDP  674 (748)
Q Consensus       623 ~~A~~~~~~~~~~~~~-------------~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~  674 (748)
                      ++|+..+++......-             .|+ ...+..++.++...|++++|...+++.. ..|+.
T Consensus        88 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           88 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            9999999988532211             111 2678889999999999999999998874 44543

>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=98.59  E-value=6.4e-07  Score=78.94  Aligned_cols=152  Identities=10%  Similarity=0.054  Sum_probs=78.8

Q ss_pred             hhhHHHHHHHccCCchhhhhhhhcCCC---CchhhhhHHHHHhhcCCChhHHHHhhccCCC--CCchhHHHHHHH-HHhc
Q 041741           25 LCNRLIELYSKCNNTHSAQHLFDKMPH---KDIYSWNAILSAQCKSDDLEFAYKLFDEMPE--RNVVSWNNLISA-LVRN   98 (748)
Q Consensus        25 ~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~-~~~~   98 (748)
                      .+..+...+.+.|++++|...|++..+   .+...+..+...+...|++++|...|++...  |+...+..+... +...
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~   87 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYKSLIAKLELHQQ   87 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChHHHHHHHHHHHHhh
Confidence            455667777778888888888887775   3456777777777777888888887777764  322222221111 1122


Q ss_pred             CChhHHHHHHHHHHhCCCCCC-cchHHHHHHHhccccCcHHHhHHHHHHHHHCCCC-cHhHHHHHHHHHHhcCChhhHHH
Q 041741           99 GLEEKALSVYNKMSNEGFVPT-HITLASVFKASTALLDVEHGRRCHGLVIKIGLDK-NIYVANALLSLYAKCGWTKHAVP  176 (748)
Q Consensus        99 ~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~  176 (748)
                      +....|+..+++..+.  .|+ ...+..+-.++...|++++|...++.+.+....+ +...+..+..++...|+.++|..
T Consensus        88 ~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           88 AAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             HTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             cccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            2233455556555543  222 3333344444444444444444444444433221 12334444444444444444444


Q ss_pred             HH
Q 041741          177 VF  178 (748)
Q Consensus       177 ~~  178 (748)
                      .|
T Consensus       166 ~y  167 (176)
T 2r5s_A          166 KY  167 (176)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.59  E-value=1.2e-07  Score=78.15  Aligned_cols=93  Identities=8%  Similarity=-0.043  Sum_probs=66.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc-------chHHH
Q 041741          644 HYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSA-------PYSLL  714 (748)
Q Consensus       644 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-------~~~~l  714 (748)
                      .+..++..+.+.|++++|+..|++..  .+.++..+..++.++...|++++|+..++++++++|+++.       ++..+
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            34556777777777777777777664  3345667777777777778888888888888877776554       45666


Q ss_pred             hHHHhhcCChHHHHHHHHHHHh
Q 041741          715 ANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       715 ~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      |.++...|++++|++.|++..+
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            7777777788888887777654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.59  E-value=1.5e-05  Score=76.01  Aligned_cols=230  Identities=8%  Similarity=0.010  Sum_probs=165.3

Q ss_pred             hCCC-chHHHHHHHHHHHCCCCCC-HHHHHHHHHhhcCCC--CchhHHHHHHHHHHhCCCCchHHHHHHHHHH----Hhc
Q 041741          482 LNSL-DIEAFMFFKQMRQNEMYPT-QFSFATVLSSCAKLS--SSFQGRQVHAQIEKDGYVNDIFVGSALIEMY----CKC  553 (748)
Q Consensus       482 ~~~~-~~~a~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~  553 (748)
                      +.|. .++|+..+..++..  .|+ ...++.--..+...+  +++++..+++.+.... +-+..+|+.-..++    .+.
T Consensus        44 ~~~e~s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l  120 (306)
T 3dra_A           44 KAEEYSERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELN  120 (306)
T ss_dssp             HTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHT
T ss_pred             HcCCCCHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhc
Confidence            3343 35788888777755  343 334555555555566  7888888888877765 23444555444444    444


Q ss_pred             ---CCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChh--HHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCC----
Q 041741          554 ---GDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGD--EAVRLYKDMIASGVKPDDITFVAILTACSHSGL----  621 (748)
Q Consensus       554 ---g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~--~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~----  621 (748)
                         +++++++++++.+.+   .|..+|+.-..++...|.++  ++++.++++++.. +-|...|+.-...+...+.    
T Consensus       121 ~~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~  199 (306)
T 3dra_A          121 NNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATD  199 (306)
T ss_dssp             TTCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCH
T ss_pred             cccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchh
Confidence               788999999988764   57788888888888889888  9999999999975 4566678777766666666    


Q ss_pred             --hHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHH-HHHHHhhCC--C---CCCHhHHHHHHHHHHhcCCHHHH
Q 041741          622 --VDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHE-AEMLIDEMP--C---KDDPVIWEVLLSSCRLHANVRLA  693 (748)
Q Consensus       622 --~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~--~---~~~~~~~~~l~~~~~~~~~~~~a  693 (748)
                        ++++++.++++...  .+-|...|..+..++.+.|+..+ +..+++++.  .   ..++..+..++..+...|+.++|
T Consensus       200 ~~~~eEl~~~~~aI~~--~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A  277 (306)
T 3dra_A          200 NTIDEELNYVKDKIVK--CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNES  277 (306)
T ss_dssp             HHHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hhHHHHHHHHHHHHHh--CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHH
Confidence              88899998888522  23446778888888888887555 555777664  1   34678888899999999999999


Q ss_pred             HHHHHHHHh-cCCCCCcchHHHhHH
Q 041741          694 KRAAEELFR-LDPKNSAPYSLLANI  717 (748)
Q Consensus       694 ~~~~~~~~~-~~p~~~~~~~~l~~~  717 (748)
                      .++++.+.+ .+|-....+...+..
T Consensus       278 ~~~~~~l~~~~Dpir~~yW~~~~~~  302 (306)
T 3dra_A          278 RTVYDLLKSKYNPIRSNFWDYQISK  302 (306)
T ss_dssp             HHHHHHHHHTTCGGGHHHHHHHHHT
T ss_pred             HHHHHHHHhccChHHHHHHHHHHhh
Confidence            999999997 799776666555443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.59  E-value=6.7e-07  Score=83.09  Aligned_cols=125  Identities=13%  Similarity=-0.089  Sum_probs=68.2

Q ss_pred             HHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCCH----hHHHHHHHHHHhc
Q 041741          612 ILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDP----VIWEVLLSSCRLH  687 (748)
Q Consensus       612 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~l~~~~~~~  687 (748)
                      +...+...|++++|.++|+.+.   ...|+......++..+.+.|++++|+..++.....|++    ..+..+..++...
T Consensus       108 yA~~L~~~g~y~eA~~~l~~~~---~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al~~L  184 (282)
T 4f3v_A          108 FAACEAAQGNYADAMEALEAAP---VAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAANL  184 (282)
T ss_dssp             HHHHHHHHTCHHHHHHHHTSSC---CTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHH---hcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHHHHC
Confidence            3444555666666666666553   12233223444455566666666666666654422322    2444555556666


Q ss_pred             CCHHHHHHHHHHHHhcC--CC-CCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          688 ANVRLAKRAAEELFRLD--PK-NSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       688 ~~~~~a~~~~~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      |++++|+..++++....  |. .+.+...++.++.++|+.++|...|+++.+..+
T Consensus       185 G~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P  239 (282)
T 4f3v_A          185 ALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHP  239 (282)
T ss_dssp             TCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSC
T ss_pred             CCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            66666666666665322  32 223556666666666666666666666655443

>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=98.59  E-value=5.6e-06  Score=79.98  Aligned_cols=160  Identities=9%  Similarity=-0.048  Sum_probs=121.4

Q ss_pred             HHHHHHHhcCCHHHHHHHhhhcCC-----CC----HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCC-CC----HHHHH
Q 041741          545 ALIEMYCKCGDIYGARQFFDMMHG-----KN----TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVK-PD----DITFV  610 (748)
Q Consensus       545 ~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~  610 (748)
                      ..+..+...|++++|...++...+     ++    ...+..+...+...+++++|+..++++.+.... ++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346678889999999999988654     12    113334667777788999999999999984322 22    23688


Q ss_pred             HHHHHhcCCCChHHHHHHHHHhhhhhC----CCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-------CCC-CHhHH
Q 041741          611 AILTACSHSGLVDVGVEIFNSMQLDHG----VEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-------CKD-DPVIW  677 (748)
Q Consensus       611 ~l~~~~~~~~~~~~A~~~~~~~~~~~~----~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~-~~~~~  677 (748)
                      .+...|...|++++|+.+++++.....    ..+. ..++..++.+|.+.|++++|...+++..       ..+ -...+
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            999999999999999999999853221    1222 3467889999999999999999988763       112 25678


Q ss_pred             HHHHHHHHhcCC-HHHHHHHHHHHHhcC
Q 041741          678 EVLLSSCRLHAN-VRLAKRAAEELFRLD  704 (748)
Q Consensus       678 ~~l~~~~~~~~~-~~~a~~~~~~~~~~~  704 (748)
                      ..++..+...|+ +++|...+++++.+.
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~i~  267 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASFFF  267 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHHH
Confidence            888889999995 699999999999863

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.58  E-value=4.4e-07  Score=74.45  Aligned_cols=114  Identities=15%  Similarity=0.137  Sum_probs=81.9

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHH
Q 041741          607 ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSC  684 (748)
Q Consensus       607 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~  684 (748)
                      ..+..+...+...|++++|...++++...  .+.+...+..++.++.+.|++++|...++++.  .+.++..+..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Confidence            45556666666667777777776666322  12234556667777777777777777777664  344567777888888


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcC
Q 041741          685 RLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLG  722 (748)
Q Consensus       685 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  722 (748)
                      ...|++++|...++++++.+|+++.++..++.++...|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            88899999999999999999988888888888876654

>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=98.58  E-value=3e-07  Score=77.09  Aligned_cols=95  Identities=11%  Similarity=-0.043  Sum_probs=55.5

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHh
Q 041741          642 LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYS  719 (748)
Q Consensus       642 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  719 (748)
                      ...+..++..+...|++++|...+++..  .+.++..+..++..+...|++++|...++++++++|+++.++..++.+|.
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~   88 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQL   88 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHHHH
Confidence            4445555555555666666665555543  23345555555555666666666666666666666666666666666666


Q ss_pred             hcCChHHHHHHHHHHHh
Q 041741          720 SLGRWDDLRAVRELMSE  736 (748)
Q Consensus       720 ~~g~~~~A~~~~~~~~~  736 (748)
                      ..|++++|...++++.+
T Consensus        89 ~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           89 EMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHH
Confidence            66666666666665544

>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=3e-07  Score=76.26  Aligned_cols=116  Identities=9%  Similarity=-0.079  Sum_probs=87.0

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHH
Q 041741          607 ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSC  684 (748)
Q Consensus       607 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~  684 (748)
                      ..+..+...+...|++++|+..+++....  .+.+...+..++.++...|++++|...+++..  .+.++..+..++..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            44556666666677777777777766422  12235566677777777788888877777664  344577788888888


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCCh
Q 041741          685 RLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRW  724 (748)
Q Consensus       685 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  724 (748)
                      ...|++++|...++++++..|+++.++..++.++...|++
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            8999999999999999999999999999999999888875

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.57  E-value=4e-07  Score=77.11  Aligned_cols=104  Identities=12%  Similarity=-0.031  Sum_probs=85.7

Q ss_pred             CCCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHH
Q 041741          602 VKPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIW  677 (748)
Q Consensus       602 ~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~  677 (748)
                      +.|+. ..+..+...+...|++++|+..|+++..   ..| +...|..++.+|...|++++|...|++..  .+.++..|
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~  107 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCI---YDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPV  107 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHH
Confidence            34544 4677788888999999999999998852   344 46778889999999999999999998885  44568888


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 041741          678 EVLLSSCRLHANVRLAKRAAEELFRLDPKNS  708 (748)
Q Consensus       678 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  708 (748)
                      ..+..++...|++++|...+++++++.|+++
T Consensus       108 ~~lg~~~~~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A          108 FHTGQCQLRLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            8999999999999999999999999999653

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.57  E-value=2.6e-05  Score=80.82  Aligned_cols=349  Identities=10%  Similarity=0.034  Sum_probs=195.2

Q ss_pred             CChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC-HHHHHHHhccCCC------CCcchHHHHHHHHH----ccCCH
Q 041741          317 YQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGD-IKTGREMFDSMPS------PSVSSWNAMLSSYS----QSENH  385 (748)
Q Consensus       317 ~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~------~~~~~~~~ll~~~~----~~~~~  385 (748)
                      |+++.+..+|++....  .|+...|...+....+.++ .+....+|+....      .+...|...+..+.    .+++.
T Consensus        28 ~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~  105 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRI  105 (493)
T ss_dssp             TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHH
T ss_pred             CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHH
Confidence            7888888888888774  4688888877776666553 2334444443321      34455666665443    23567


Q ss_pred             HHHHHHHHHHHHcCCCCCHhhHHHHHHHh---hccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhc-CChHHHHHH
Q 041741          386 KEAIKLFREMQFRGVKPDRTTLAIILSSC---AAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKC-QRNELAERV  461 (748)
Q Consensus       386 ~~a~~~~~~m~~~g~~p~~~~~~~ll~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~  461 (748)
                      +.+.++|+.....  ++.  .+..+...|   ....+...+..+......               .|... ..++.+...
T Consensus       106 ~~vR~iy~rAL~~--P~~--~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~---------------~y~~ar~~y~~~~~~  166 (493)
T 2uy1_A          106 EKIRNGYMRALQT--PMG--SLSELWKDFENFELELNKITGKKIVGDTLP---------------IFQSSFQRYQQIQPL  166 (493)
T ss_dssp             HHHHHHHHHHHTS--CCT--THHHHHHHHHHHHHHHCHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--hhh--hHHHHHHHHHHHHHHhccccHHHHHHHHhH---------------HHHHHHHHHHHHHHH
Confidence            7788888887763  221  111222211   111112222222221110               00000 001112222


Q ss_pred             HhhCCCCCcchHHHHHHHHHhCC--C-----chHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHh
Q 041741          462 FHRIPELDIVCWNSMIAGLSLNS--L-----DIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKD  534 (748)
Q Consensus       462 ~~~~~~~~~~~~~~li~~~~~~~--~-----~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  534 (748)
                      +..   .+...|...+.--...+  -     .+.+..+|+++.... +-+...|...+.-+...|+++.|..+++.....
T Consensus       167 ~~~---~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~  242 (493)
T 2uy1_A          167 IRG---WSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM  242 (493)
T ss_dssp             HHT---CSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             Hhh---ccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            211   12234444443322211  1     234567788777643 344566666666677788899999999988887


Q ss_pred             CCCCchHHHHHHHHHHHhcCCHHHH-HHHhhhcC------------CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcC
Q 041741          535 GYVNDIFVGSALIEMYCKCGDIYGA-RQFFDMMH------------GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASG  601 (748)
Q Consensus       535 ~~~~~~~~~~~l~~~~~~~g~~~~A-~~~~~~~~------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  601 (748)
                        +.+...+..    |....+.++. ..+.+...            ......|...+....+.++.+.|..+|+++ .. 
T Consensus       243 --P~~~~l~~~----y~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-  314 (493)
T 2uy1_A          243 --SDGMFLSLY----YGLVMDEEAVYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-  314 (493)
T ss_dssp             --CCSSHHHHH----HHHHTTCTHHHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-
T ss_pred             --CCcHHHHHH----HHhhcchhHHHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-
Confidence              444443332    2221111111 11111110            012245667777777788899999999999 32 


Q ss_pred             CCCCHHHHHHHHHHhc-CCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCCHhHHHHH
Q 041741          602 VKPDDITFVAILTACS-HSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVL  680 (748)
Q Consensus       602 ~~p~~~~~~~l~~~~~-~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l  680 (748)
                      ...+...|......-. ..++.+.|..+|+......+-  +...+...++...+.|+.+.|..+++++.  .....|...
T Consensus       315 ~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~--~~~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~  390 (493)
T 2uy1_A          315 EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPD--STLLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSM  390 (493)
T ss_dssp             SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHH
Confidence            1233344432221111 233699999999998655432  23455667787888999999999999984  357888888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh
Q 041741          681 LSSCRLHANVRLAKRAAEELFR  702 (748)
Q Consensus       681 ~~~~~~~~~~~~a~~~~~~~~~  702 (748)
                      +..-...|+.+.+..++++++.
T Consensus       391 ~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          391 IEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            8888888999999999998886

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.56  E-value=1.9e-07  Score=81.31  Aligned_cols=110  Identities=10%  Similarity=-0.043  Sum_probs=90.8

Q ss_pred             CHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHH
Q 041741          605 DDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLL  681 (748)
Q Consensus       605 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~  681 (748)
                      +...+..+...+...|++++|+..|++....   .| +...+..++.+|.+.|++++|...+++..  .+.++..+..+.
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg   86 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSI---APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            3457888888999999999999999988532   34 46778889999999999999999998885  444688888899


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHH
Q 041741          682 SSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANI  717 (748)
Q Consensus       682 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  717 (748)
                      ..+...|++++|...++++++++|+++..+...+..
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  122 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEAEGNGGSDAMKRGLE  122 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            999999999999999999999999988866555433

>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=7.3e-08  Score=81.94  Aligned_cols=118  Identities=9%  Similarity=-0.032  Sum_probs=88.1

Q ss_pred             HHHHHHHcCCCCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--
Q 041741          593 LYKDMIASGVKPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--  669 (748)
Q Consensus       593 ~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--  669 (748)
                      .++++..  +.|+. ..+..+...+...|++++|+..|+++...  .+.+...+..++.+|...|++++|...+++..  
T Consensus         9 ~~~~al~--~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l   84 (148)
T 2vgx_A            9 TIAMLNE--ISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVM   84 (148)
T ss_dssp             SHHHHTT--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHc--CCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            3444444  34433 45667777888888888888888887422  12346677788888888899999998888875  


Q ss_pred             CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHH
Q 041741          670 CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLL  714 (748)
Q Consensus       670 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  714 (748)
                      .+.++..+..++.++...|++++|...+++++++.|+++......
T Consensus        85 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~  129 (148)
T 2vgx_A           85 DIXEPRFPFHAAECLLQXGELAEAESGLFLAQELIANXPEFXELS  129 (148)
T ss_dssp             STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCGGGHHHH
T ss_pred             CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCCcchHHH
Confidence            344678888888899999999999999999999999877664433

>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=98.53  E-value=4.5e-08  Score=88.45  Aligned_cols=169  Identities=10%  Similarity=-0.016  Sum_probs=105.6

Q ss_pred             HHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChH
Q 041741          547 IEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVD  623 (748)
Q Consensus       547 ~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  623 (748)
                      +......|+++++.+.++.-..   .....+..+...+...|++++|+..|++..+.  .|+...+...        ..+
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~--------~~~   80 (198)
T 2fbn_A           11 SSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTEEWDDQ--------ILL   80 (198)
T ss_dssp             -----------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCTTCCCH--------HHH
T ss_pred             hhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--Hhcccccchh--------hHH
Confidence            3344455666766666654332   23445666777777788888888888877763  2221100000        000


Q ss_pred             HHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 041741          624 VGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELF  701 (748)
Q Consensus       624 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  701 (748)
                      .-.   ..+        ....+..++.+|...|++++|...+++..  .+.++..+..++.++...|++++|...+++++
T Consensus        81 ~~~---~~~--------~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al  149 (198)
T 2fbn_A           81 DKK---KNI--------EISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAA  149 (198)
T ss_dssp             HHH---HHH--------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHH---HHH--------HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            000   000        12456778888889999999998888775  44567888888999999999999999999999


Q ss_pred             hcCCCCCcchHHHhHHHhhcCChHHHH-HHHHHHHh
Q 041741          702 RLDPKNSAPYSLLANIYSSLGRWDDLR-AVRELMSE  736 (748)
Q Consensus       702 ~~~p~~~~~~~~l~~~~~~~g~~~~A~-~~~~~~~~  736 (748)
                      +++|+++.++..++.++...|+.+++. ..++.|-.
T Consensus       150 ~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          150 SLNPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHSTTCHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             HHCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            999999999999999999999998888 55555543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.52  E-value=1.4e-06  Score=78.89  Aligned_cols=81  Identities=14%  Similarity=-0.020  Sum_probs=38.7

Q ss_pred             hcCCHHHHHH---HhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHc----CCCCC-HHHHHHHHHHhcCCCChH
Q 041741          552 KCGDIYGARQ---FFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS----GVKPD-DITFVAILTACSHSGLVD  623 (748)
Q Consensus       552 ~~g~~~~A~~---~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p~-~~~~~~l~~~~~~~~~~~  623 (748)
                      ..|++++|.+   .+..........+..+...+...|++++|...+++..+.    +..|. ..++..+...+...|+++
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            3566666666   443322223445555566666666666666666555541    11111 123444445555555555


Q ss_pred             HHHHHHHHh
Q 041741          624 VGVEIFNSM  632 (748)
Q Consensus       624 ~A~~~~~~~  632 (748)
                      +|...+++.
T Consensus        84 ~A~~~~~~a   92 (203)
T 3gw4_A           84 AARRCFLEE   92 (203)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555544

>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=98.52  E-value=4.8e-07  Score=73.37  Aligned_cols=91  Identities=14%  Similarity=0.069  Sum_probs=43.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcC
Q 041741          645 YTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLG  722 (748)
Q Consensus       645 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  722 (748)
                      +..++..+...|++++|...+++..  .+.++..+..++..+...|++++|...++++++..|+++.++..++.+|...|
T Consensus         7 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~   86 (118)
T 1elw_A            7 LKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLN   86 (118)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHh
Confidence            3334444444444444444444442  22234444444444444455555555555555555544445555555555555


Q ss_pred             ChHHHHHHHHHHH
Q 041741          723 RWDDLRAVRELMS  735 (748)
Q Consensus       723 ~~~~A~~~~~~~~  735 (748)
                      ++++|...+++..
T Consensus        87 ~~~~A~~~~~~~~   99 (118)
T 1elw_A           87 RFEEAKRTYEEGL   99 (118)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHH
Confidence            5555555554443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.49  E-value=2.9e-06  Score=82.04  Aligned_cols=163  Identities=8%  Similarity=-0.088  Sum_probs=120.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCH------HHHHHHHHHHHHcCChhHHHHHHHHHHHcCC---CCC--H
Q 041741          541 FVGSALIEMYCKCGDIYGARQFFDMMHG---KNT------VTWNEMIHGYAQNGYGDEAVRLYKDMIASGV---KPD--D  606 (748)
Q Consensus       541 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~---~p~--~  606 (748)
                      ..+...+..+...|++++|.+.+....+   ...      ..+..+...+...|++++|+..+++..+...   .+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            3445567778889999999988875432   111      2344466677788899999999999886421   222  3


Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-----hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-------C
Q 041741          607 ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-----LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-------D  673 (748)
Q Consensus       607 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-------~  673 (748)
                      .+++.+...|...|++++|+.+++++.......|+     ..++..++.+|...|++++|...+++.. ..+       .
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            47888999999999999999999988532222233     2578889999999999999999988763 111       1


Q ss_pred             HhHHHHHHHHHHhcCCHHHH-HHHHHHHHhc
Q 041741          674 PVIWEVLLSSCRLHANVRLA-KRAAEELFRL  703 (748)
Q Consensus       674 ~~~~~~l~~~~~~~~~~~~a-~~~~~~~~~~  703 (748)
                      ...+..++..+...|++++| ...+++++.+
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            56778888889999999999 8889988875

>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=98.49  E-value=1.2e-06  Score=77.31  Aligned_cols=122  Identities=5%  Similarity=0.036  Sum_probs=96.0

Q ss_pred             hcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHH-HHhcCCH--
Q 041741          616 CSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSS-CRLHANV--  690 (748)
Q Consensus       616 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~-~~~~~~~--  690 (748)
                      +...|++++|+..+++.....  +.+...+..++.+|...|++++|...+++..  .+.++..+..++.. +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN--PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcch
Confidence            456788888998888874322  3346778889999999999999999998875  34467777788887 7788888  


Q ss_pred             HHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          691 RLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       691 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      ++|...++++++.+|+++.++..++.+|...|++++|...++++.+..+
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  146 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNS  146 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCC
Confidence            9999999999999999999999999999999999999999998877554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.48  E-value=6.1e-07  Score=74.68  Aligned_cols=98  Identities=13%  Similarity=0.069  Sum_probs=88.3

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHH
Q 041741          641 ILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIY  718 (748)
Q Consensus       641 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  718 (748)
                      +...+..++..+...|++++|...+++..  .+.+...+..++..+...|++++|...++++++.+|+++.++..++.+|
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   94 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            35678889999999999999999999874  3346888889999999999999999999999999999999999999999


Q ss_pred             hhcCChHHHHHHHHHHHhcC
Q 041741          719 SSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       719 ~~~g~~~~A~~~~~~~~~~~  738 (748)
                      ...|++++|.+.+++..+..
T Consensus        95 ~~~~~~~~A~~~~~~~~~~~  114 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDLD  114 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhHHHHHHHHHHHHHhC
Confidence            99999999999999987643

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.44  E-value=1.9e-06  Score=73.17  Aligned_cols=110  Identities=13%  Similarity=0.022  Sum_probs=63.4

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHH
Q 041741          607 ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI----LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVL  680 (748)
Q Consensus       607 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l  680 (748)
                      ..+..+...+...|++++|+..|++..   ...|+    ...+..++.+|...|++++|...+++..  .+.++..+..+
T Consensus        29 ~~~~~~a~~~~~~~~~~~A~~~~~~a~---~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  105 (148)
T 2dba_A           29 EQLRKEGNELFKCGDYGGALAAYTQAL---GLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRR  105 (148)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHH---TSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHH---HHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHH
Confidence            344444555555555555555555543   22333    3445555666666666666666665543  23345566666


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHh
Q 041741          681 LSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYS  719 (748)
Q Consensus       681 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  719 (748)
                      ...+...|++++|...++++++.+|+++.++..+..+..
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  144 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISG  144 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHh
Confidence            666777777777777777777777766666655555543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.44  E-value=1.1e-06  Score=72.08  Aligned_cols=98  Identities=16%  Similarity=0.185  Sum_probs=88.1

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHh
Q 041741          642 LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYS  719 (748)
Q Consensus       642 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  719 (748)
                      ...+..++..+...|++++|.+.++++.  .+.++..+..++..+...|++++|...++++++..|+++.++..++.+|.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            4567788999999999999999999885  44567888889999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhcCC
Q 041741          720 SLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       720 ~~g~~~~A~~~~~~~~~~~~  739 (748)
                      ..|++++|..+++++.+..+
T Consensus        89 ~~~~~~~A~~~~~~~~~~~~  108 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALELDP  108 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHHCT
T ss_pred             HhcCHHHHHHHHHHHHHhCC
Confidence            99999999999999876543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.42  E-value=1.9e-06  Score=80.00  Aligned_cols=139  Identities=13%  Similarity=-0.019  Sum_probs=98.8

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC--hhHHHHHHHHH
Q 041741          575 NEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI--LDHYTCMIDCL  652 (748)
Q Consensus       575 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~  652 (748)
                      -.+...+...|++++|.++|+.+...  .|+......+...+.+.+++++|+..|+... ... .|.  ...+..++.++
T Consensus       106 LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~-~~~-d~~~~~~a~~~LG~al  181 (282)
T 4f3v_A          106 MGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAG-KWP-DKFLAGAAGVAHGVAA  181 (282)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGG-GCS-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhh-ccC-CcccHHHHHHHHHHHH
Confidence            34566777788888888888777764  3544444555557788888888888887652 111 111  23566788889


Q ss_pred             HhcCChHHHHHHHhhCCCC---C--CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHH
Q 041741          653 GRAGHFHEAEMLIDEMPCK---D--DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIY  718 (748)
Q Consensus       653 ~~~g~~~~A~~~~~~~~~~---~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  718 (748)
                      .+.|++++|+..+++....   |  .+..+.....++...|+.++|...+++++..+|+ +.+...|...-
T Consensus       182 ~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~~~~  251 (282)
T 4f3v_A          182 ANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALKDPS  251 (282)
T ss_dssp             HHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHHCTT
T ss_pred             HHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHhCCC
Confidence            9999999999999887422   3  2346677777888999999999999999999997 66665554443

>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=98.42  E-value=5.7e-07  Score=74.99  Aligned_cols=61  Identities=13%  Similarity=0.031  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhc-------CCCCCcch----HHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          676 IWEVLLSSCRLHANVRLAKRAAEELFRL-------DPKNSAPY----SLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       676 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~p~~~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .|..+..++...|++++|+..+++++++       +|+++.++    ..+|.++...|++++|+..|++..+
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            6777777777788888888888888888       88887788    8888888888888888888887654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.42  E-value=7.1e-07  Score=75.31  Aligned_cols=107  Identities=13%  Similarity=-0.010  Sum_probs=79.8

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHH
Q 041741          607 ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSC  684 (748)
Q Consensus       607 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~  684 (748)
                      ..+..+...+...|++++|+..|+++...  .+.+...+..++.+|.+.|++++|...+++..  .+.++..+..+...+
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Confidence            34555666777778888888888777422  12245667778888888888888888888774  344677788888888


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCcchHHHh
Q 041741          685 RLHANVRLAKRAAEELFRLDPKNSAPYSLLA  715 (748)
Q Consensus       685 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  715 (748)
                      ...|++++|...+++++++.|+++.......
T Consensus        97 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  127 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALAAAQPAHEALAA  127 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTCGGGHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCcchHHHHH
Confidence            8999999999999999999998876655543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.41  E-value=3.5e-06  Score=76.22  Aligned_cols=175  Identities=10%  Similarity=-0.030  Sum_probs=101.2

Q ss_pred             CCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---------CCHHHHHHHHHHHHHcCChh
Q 041741          518 LSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---------KNTVTWNEMIHGYAQNGYGD  588 (748)
Q Consensus       518 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~~l~~~~~~~~~~~  588 (748)
                      .|+++.|.+.++.+.. ........+..+...+...|++++|...+++...         .....+..+...+...|+++
T Consensus         5 ~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            5 AHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             --CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             cccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            4455555553332221 1112445566666667777777777776665542         13346777788888888888


Q ss_pred             HHHHHHHHHHHc----CCCC--CHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC----hhHHHHHHHHHHhcCCh
Q 041741          589 EAVRLYKDMIAS----GVKP--DDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI----LDHYTCMIDCLGRAGHF  658 (748)
Q Consensus       589 ~a~~~~~~m~~~----~~~p--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~  658 (748)
                      +|...+++..+.    +-.|  ....+..+...+...|++++|...+++......-..+    ...+..++.++...|++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH
Confidence            888888876653    1111  1235667777788888888888888776432211122    22345667777777777


Q ss_pred             HHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          659 HEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       659 ~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      ++|...+++..            ......|+......+...+-...|
T Consensus       164 ~~A~~~~~~al------------~~~~~~~~~~~~~~~~~~~~~~~~  198 (203)
T 3gw4_A          164 LEAQQHWLRAR------------DIFAELEDSEAVNELMTRLNGLEH  198 (203)
T ss_dssp             HHHHHHHHHHH------------HHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHH------------HHHHHcCCHHHHHHHHhcccchhh
Confidence            77777766632            334444555444444444444443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.41  E-value=1.4e-06  Score=74.00  Aligned_cols=99  Identities=11%  Similarity=-0.011  Sum_probs=88.6

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHh
Q 041741          641 ILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDD----PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLA  715 (748)
Q Consensus       641 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  715 (748)
                      +...+..++..+...|++++|...+++.. ..|+    ...+..+...+...|++++|...++++++.+|+++.++..++
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a  106 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRS  106 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHH
Confidence            46678889999999999999999999875 5565    677888888899999999999999999999999999999999


Q ss_pred             HHHhhcCChHHHHHHHHHHHhcCC
Q 041741          716 NIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       716 ~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      .+|...|++++|...+++..+..+
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~~~p  130 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCVSLEP  130 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCC
Confidence            999999999999999999876543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.40  E-value=1.5e-06  Score=71.87  Aligned_cols=98  Identities=15%  Similarity=0.051  Sum_probs=88.1

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHh
Q 041741          642 LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYS  719 (748)
Q Consensus       642 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  719 (748)
                      ...+..++..+...|++++|...+++..  .+.++..+..++..+...|++++|...++++++..|+++.++..++.+|.
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHHH
Confidence            4567788999999999999999999875  44578888889999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhcCC
Q 041741          720 SLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       720 ~~g~~~~A~~~~~~~~~~~~  739 (748)
                      ..|++++|..+++++.+..+
T Consensus        92 ~~~~~~~A~~~~~~~~~~~p  111 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELDP  111 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHST
T ss_pred             HhCCHHHHHHHHHHHHhcCc
Confidence            99999999999999876543

>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=98.38  E-value=8.8e-07  Score=72.90  Aligned_cols=109  Identities=9%  Similarity=-0.118  Sum_probs=74.8

Q ss_pred             HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHH
Q 041741          608 TFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCR  685 (748)
Q Consensus       608 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  685 (748)
                      .+..+...+...|++++|+..|++....  .+.+...+..++.++.+.|++++|...+++..  .+.++..+..++..+.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            4555566666667777777776666422  12235566677777777777777777777664  3345677777888888


Q ss_pred             hcCCHHHHHHHHHHHHhcC------CCCCcchHHHhHHH
Q 041741          686 LHANVRLAKRAAEELFRLD------PKNSAPYSLLANIY  718 (748)
Q Consensus       686 ~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~  718 (748)
                      ..|++++|...++++++++      |+++.+...+..+.
T Consensus        84 ~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~  122 (126)
T 3upv_A           84 AVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKAS  122 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHH
Confidence            8888888888888888888      77666666665554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.38  E-value=5.8e-05  Score=78.21  Aligned_cols=364  Identities=9%  Similarity=-0.054  Sum_probs=202.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHhccCCC--CCcchHHHHHHHHHccCC-HHHHHHHHHHHHHc-CCCC-CHhhHHHHHHH
Q 041741          339 VTSINMLVACVRSGDIKTGREMFDSMPS--PSVSSWNAMLSSYSQSEN-HKEAIKLFREMQFR-GVKP-DRTTLAIILSS  413 (748)
Q Consensus       339 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~-g~~p-~~~~~~~ll~~  413 (748)
                      ..|...+..+-. |+.+.+..+|+....  |+...|...+....+.++ .+.+..+|+..... |..| +...+...+.-
T Consensus        16 ~vyer~l~~~P~-~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f   94 (493)
T 2uy1_A           16 AIMEHARRLYMS-KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEE   94 (493)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCC-CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHH
Confidence            345555544433 778888888877665  677777777766655553 34556666665543 4333 44555555544


Q ss_pred             hh----ccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHH
Q 041741          414 CA----AMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEA  489 (748)
Q Consensus       414 ~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  489 (748)
                      +.    ..++.+.+..+++.++..........+...... .+......+.+++.+               ..  +.+..|
T Consensus        95 ~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~f-E~~~~~~~~~~~~~~---------------~~--~~y~~a  156 (493)
T 2uy1_A           95 EGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENF-ELELNKITGKKIVGD---------------TL--PIFQSS  156 (493)
T ss_dssp             TSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHH-HHHHCHHHHHHHHHH---------------HH--HHHHHH
T ss_pred             HHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHH-HHHhccccHHHHHHH---------------Hh--HHHHHH
Confidence            33    235566777777777764322222222222111 111111122222111               00  112223


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHhhcCC--CC-----chhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHH
Q 041741          490 FMFFKQMRQNEMYPTQFSFATVLSSCAKL--SS-----SFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQF  562 (748)
Q Consensus       490 ~~~~~~m~~~~~~p~~~~~~~l~~~~~~~--~~-----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  562 (748)
                      ..+++.+...-...+...|...+.--...  +-     .+++..+++.+.... +.++.+|...+..+.+.|+++.|..+
T Consensus       157 r~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i  235 (493)
T 2uy1_A          157 FQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKV  235 (493)
T ss_dssp             HHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            33333332210001222333333322111  11     234667888877653 45678888888888899999999999


Q ss_pred             hhhcCC-CCH-HHHHHHHHHHHHcCChhHHHHHHHHHHHcC---------CCCC---HHHHHHHHHHhcCCCChHHHHHH
Q 041741          563 FDMMHG-KNT-VTWNEMIHGYAQNGYGDEAVRLYKDMIASG---------VKPD---DITFVAILTACSHSGLVDVGVEI  628 (748)
Q Consensus       563 ~~~~~~-~~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~---------~~p~---~~~~~~l~~~~~~~~~~~~A~~~  628 (748)
                      +++... |.. ..|.    .|......++.   ++.+.+.-         ..+.   ...|...+....+.+..+.|..+
T Consensus       236 ~erAi~~P~~~~l~~----~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i  308 (493)
T 2uy1_A          236 VERGIEMSDGMFLSL----YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKL  308 (493)
T ss_dssp             HHHHHHHCCSSHHHH----HHHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             HHHHHhCCCcHHHHH----HHHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHH
Confidence            987543 322 2222    22222222222   22322210         0111   13466666666667789999999


Q ss_pred             HHHhhhhhCCCCChhHHHHHHHHHHhcC-ChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          629 FNSMQLDHGVEPILDHYTCMIDCLGRAG-HFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       629 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      |+++ ...+  .+...|...+..-.+.+ +.+.|..+++...  .+.++..|..++......|+.+.|..+++++    +
T Consensus       309 ~~~A-~~~~--~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~----~  381 (493)
T 2uy1_A          309 FIEL-GNEG--VGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRL----E  381 (493)
T ss_dssp             HHHH-TTSC--CCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHS----C
T ss_pred             HHHh-hCCC--CChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH----H
Confidence            9988 3322  24445544343333334 6999999998874  4445777777888788899999999999997    3


Q ss_pred             CCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          706 KNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       706 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .....+......-...|+.+.+..+++++.+
T Consensus       382 k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          382 KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3455677777777788999999998888765

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.38  E-value=1.4e-06  Score=75.63  Aligned_cols=94  Identities=12%  Similarity=0.046  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHH
Q 041741          571 TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMI  649 (748)
Q Consensus       571 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~  649 (748)
                      ...+..+...+...|++++|+..|++.++.. +.+...|..+..+|...|++++|+..+++....   .|+ ...+..++
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg   86 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVV---DPKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh---CCCCHHHHHHHH
Confidence            3455556666666666666666666666642 234455666666666666666666666665321   232 45555666


Q ss_pred             HHHHhcCChHHHHHHHhhC
Q 041741          650 DCLGRAGHFHEAEMLIDEM  668 (748)
Q Consensus       650 ~~~~~~g~~~~A~~~~~~~  668 (748)
                      .+|...|++++|...+++.
T Consensus        87 ~~~~~~g~~~~A~~~~~~a  105 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKG  105 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHH
Confidence            6666666666666666655

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.37  E-value=1.6e-06  Score=71.70  Aligned_cols=99  Identities=12%  Similarity=-0.019  Sum_probs=47.1

Q ss_pred             HHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCC---HhHHHHHHHHHH
Q 041741          612 ILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDD---PVIWEVLLSSCR  685 (748)
Q Consensus       612 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~---~~~~~~l~~~~~  685 (748)
                      +...+...|++++|+..|+++.......+. ...+..++.++...|++++|...+++..  .+.+   +..+..++..+.
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~   87 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQY   87 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHH
Confidence            344445555555555555555322111110 1244445555555555555555555442  1112   334444555555


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCcc
Q 041741          686 LHANVRLAKRAAEELFRLDPKNSAP  710 (748)
Q Consensus       686 ~~~~~~~a~~~~~~~~~~~p~~~~~  710 (748)
                      ..|++++|...++++++..|+++.+
T Consensus        88 ~~g~~~~A~~~~~~~~~~~p~~~~~  112 (129)
T 2xev_A           88 GEGKNTEAQQTLQQVATQYPGSDAA  112 (129)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTSHHH
T ss_pred             HcCCHHHHHHHHHHHHHHCCCChHH
Confidence            5555555555555555555544433

>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=98.37  E-value=2.1e-06  Score=88.56  Aligned_cols=143  Identities=13%  Similarity=0.075  Sum_probs=102.9

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHH
Q 041741          570 NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMI  649 (748)
Q Consensus       570 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  649 (748)
                      ....|..+...+.+.|++++|+..|++.++.  .|+...+          . -+...+ ....        ....|..++
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~----------~-~~~~~~-~~~~--------~~~~~~nla  324 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSW--LEMEYGL----------S-EKESKA-SESF--------LLAAFLNLA  324 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTCCSC----------C-HHHHHH-HHHH--------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccC----------C-hHHHHH-HHHH--------HHHHHHHHH
Confidence            3456777778888888888888888887763  2221100          0 000000 0000        135677888


Q ss_pred             HHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHH
Q 041741          650 DCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDL  727 (748)
Q Consensus       650 ~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  727 (748)
                      .+|.+.|++++|+..+++..  .+.++..+..+..++...|++++|...++++++++|+++.++..++.++...|++++|
T Consensus       325 ~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          325 MCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999998875  4456788888999999999999999999999999999999999999999999999988


Q ss_pred             HH-HHHHH
Q 041741          728 RA-VRELM  734 (748)
Q Consensus       728 ~~-~~~~~  734 (748)
                      .+ .++.|
T Consensus       405 ~~~~~~~~  412 (457)
T 1kt0_A          405 DRRIYANM  412 (457)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHHH
Confidence            75 45544

>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=98.36  E-value=2.8e-06  Score=68.64  Aligned_cols=110  Identities=13%  Similarity=-0.008  Sum_probs=77.5

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHH
Q 041741          607 ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSC  684 (748)
Q Consensus       607 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~  684 (748)
                      ..+..+...+...|++++|...+++....  .+.+...+..++.++...|++++|...+++..  .+.++..+..++..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            34555566666667777777776666322  12235566667777777777777777777664  334577777888888


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHH
Q 041741          685 RLHANVRLAKRAAEELFRLDPKNSAPYSLLANIY  718 (748)
Q Consensus       685 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  718 (748)
                      ...|++++|...++++++.+|+++.++..++.+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  116 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNME  116 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHhh
Confidence            8889999999999999999998877777776654

>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=98.32  E-value=3.3e-05  Score=74.44  Aligned_cols=32  Identities=25%  Similarity=0.209  Sum_probs=26.6

Q ss_pred             CCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          705 PKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       705 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      +.++.++..|+.+|...|+.++|.+.++.+.+
T Consensus       299 ~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          299 LPVPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            45667788999999999999999999998753

>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=98.32  E-value=9.9e-07  Score=91.39  Aligned_cols=119  Identities=11%  Similarity=-0.047  Sum_probs=96.5

Q ss_pred             HHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhc
Q 041741          611 AILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLH  687 (748)
Q Consensus       611 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~  687 (748)
                      .+...+...|++++|+..+++....   .|+ ...+..++.+|.+.|++++|.+.+++..  .+.++..+..++..+...
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~   87 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMAL   87 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            3445667788999999998888532   343 6778889999999999999999988875  344678888899999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCcchHHHhHH--HhhcCChHHHHHHHH
Q 041741          688 ANVRLAKRAAEELFRLDPKNSAPYSLLANI--YSSLGRWDDLRAVRE  732 (748)
Q Consensus       688 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~A~~~~~  732 (748)
                      |++++|...++++++++|+++.++..++.+  +.+.|++++|++.++
T Consensus        88 g~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           88 GKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999999999999999999999988  889999999999988

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.31  E-value=1.1e-06  Score=86.53  Aligned_cols=151  Identities=11%  Similarity=-0.012  Sum_probs=87.1

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHH
Q 041741          570 NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMI  649 (748)
Q Consensus       570 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  649 (748)
                      ....+..+...+.+.|++++|+..|++.+..  .|+...       +...|+.+++...+.           ...+..++
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla  237 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIA  237 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH-----------HHHHHHHH
Confidence            3456777788888899999999999998874  455442       233444454443321           13578899


Q ss_pred             HHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHH-hhcCChHH
Q 041741          650 DCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIY-SSLGRWDD  726 (748)
Q Consensus       650 ~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~~  726 (748)
                      .+|.+.|++++|...+++..  .+.+...+..+..++...|++++|...++++++++|+++.++..|+.+. ...+..++
T Consensus       238 ~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~  317 (338)
T 2if4_A          238 ACLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQK  317 (338)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999998875  3456788899999999999999999999999999999999999999884 45577888


Q ss_pred             HHHHHHHHHhcCCC
Q 041741          727 LRAVRELMSENCIV  740 (748)
Q Consensus       727 A~~~~~~~~~~~~~  740 (748)
                      +...|+.|....+.
T Consensus       318 a~~~~~~~l~~~p~  331 (338)
T 2if4_A          318 QKEMYKGIFKGKDE  331 (338)
T ss_dssp             --------------
T ss_pred             HHHHHHHhhCCCCC
Confidence            88899887665443

>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=98.30  E-value=2.9e-06  Score=73.77  Aligned_cols=97  Identities=12%  Similarity=0.023  Sum_probs=87.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhh
Q 041741          643 DHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS  720 (748)
Q Consensus       643 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  720 (748)
                      ..+..++..+...|++++|...+++..  .+.++..+..++..+...|++++|...++++++.+|+++.++..++.++..
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~   93 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            446678889999999999999999875  445688888999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHHhcCC
Q 041741          721 LGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       721 ~g~~~~A~~~~~~~~~~~~  739 (748)
                      .|++++|..+++++.+..+
T Consensus        94 ~~~~~~A~~~~~~a~~~~p  112 (166)
T 1a17_A           94 LGKFRAALRDYETVVKVKP  112 (166)
T ss_dssp             TTCHHHHHHHHHHHHHHST
T ss_pred             hccHHHHHHHHHHHHHhCC
Confidence            9999999999999876543

>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=98.28  E-value=2.4e-06  Score=71.51  Aligned_cols=101  Identities=8%  Similarity=-0.104  Sum_probs=73.0

Q ss_pred             CCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHH
Q 041741          604 PDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLL  681 (748)
Q Consensus       604 p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~  681 (748)
                      .+...+..+...+...|++++|+..|++.....  +.+...+..++.++...|++++|...+++..  .+.++..+..++
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            345566667777777777777777777664221  2235567777777778888888887777764  344577788888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCC
Q 041741          682 SSCRLHANVRLAKRAAEELFRLDPK  706 (748)
Q Consensus       682 ~~~~~~~~~~~a~~~~~~~~~~~p~  706 (748)
                      ..+...|++++|...+++++++.|+
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHChh
Confidence            8888888999999999999888887

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.28  E-value=1.5e-06  Score=75.31  Aligned_cols=112  Identities=12%  Similarity=0.033  Sum_probs=67.5

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHhhhhhC------C---------CCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-
Q 041741          607 ITFVAILTACSHSGLVDVGVEIFNSMQLDHG------V---------EPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-  669 (748)
Q Consensus       607 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~------~---------~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-  669 (748)
                      ..+......+...|++++|+..|++......      .         .|. ...+..++.+|.+.|++++|...+++.. 
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            4566677777788888888888877643210      0         111 2445566666666666666666666553 


Q ss_pred             -CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-cchHHHhHHH
Q 041741          670 -CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS-APYSLLANIY  718 (748)
Q Consensus       670 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~  718 (748)
                       .+.++..+..++.++...|++++|...++++++++|+++ .+...+..+.
T Consensus        92 ~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~~  142 (162)
T 3rkv_A           92 REETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIVT  142 (162)
T ss_dssp             HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             cCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence             333455666666666666666666666666666666655 3344444433

>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=98.27  E-value=1.9e-06  Score=71.30  Aligned_cols=111  Identities=6%  Similarity=-0.024  Sum_probs=72.4

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-C----CCC----HhHH
Q 041741          607 ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-C----KDD----PVIW  677 (748)
Q Consensus       607 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~----~~~----~~~~  677 (748)
                      ..+..+...+...|++++|+..+++....  .+.+...+..++.++...|++++|...+++.. .    .++    +..+
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            45666677777777777777777776422  12345566677777777777777777776663 1    122    5556


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhh
Q 041741          678 EVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS  720 (748)
Q Consensus       678 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  720 (748)
                      ..++..+...|++++|...++++++..| ++.....++.+...
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~  124 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAEKI  124 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHHHH
Confidence            6666677777777777777777777777 66666665555443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.27  E-value=4.5e-07  Score=73.44  Aligned_cols=91  Identities=9%  Similarity=0.070  Sum_probs=51.3

Q ss_pred             CCChHHHHHHHHHhhhhhCC-CCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHH
Q 041741          619 SGLVDVGVEIFNSMQLDHGV-EPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAK  694 (748)
Q Consensus       619 ~~~~~~A~~~~~~~~~~~~~-~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~  694 (748)
                      .|++++|+..|++... .+. .|+ ...+..++.+|...|++++|...+++..  .+.++..+..++.++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~-~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIA-SGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHS-SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHH-cCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            4666667777766631 110 122 4455566666666666666666666653  3334556666666666666666666


Q ss_pred             HHHHHHHhcCCCCCcc
Q 041741          695 RAAEELFRLDPKNSAP  710 (748)
Q Consensus       695 ~~~~~~~~~~p~~~~~  710 (748)
                      ..++++++..|+++..
T Consensus        82 ~~~~~al~~~p~~~~~   97 (117)
T 3k9i_A           82 ELLLKIIAETSDDETI   97 (117)
T ss_dssp             HHHHHHHHHHCCCHHH
T ss_pred             HHHHHHHHhCCCcHHH
Confidence            6666666666655543

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.27  E-value=3.3e-06  Score=80.74  Aligned_cols=113  Identities=7%  Similarity=-0.111  Sum_probs=88.8

Q ss_pred             CHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHhhCC-CC-CCHhHHHHHH
Q 041741          605 DDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CK-DDPVIWEVLL  681 (748)
Q Consensus       605 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-~~~~~~~~l~  681 (748)
                      +...+..+...+...|++++|+..|++....   .| +...+..++.+|.+.|++++|...+++.. .. .+...+..++
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg   79 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            4566778888888999999999999888532   34 46778888999999999999999988875 33 4577788888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhh
Q 041741          682 SSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS  720 (748)
Q Consensus       682 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  720 (748)
                      .++...|++++|...++++++++|+++..+...++....
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~  118 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALR  118 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHH
Confidence            888899999999999999999998877666555555443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.25  E-value=8.3e-06  Score=84.06  Aligned_cols=189  Identities=7%  Similarity=-0.112  Sum_probs=134.6

Q ss_pred             HHHHhcCCHHHHHHHhhhcCC--C------------------CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcC-CCCCH
Q 041741          548 EMYCKCGDIYGARQFFDMMHG--K------------------NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASG-VKPDD  606 (748)
Q Consensus       548 ~~~~~~g~~~~A~~~~~~~~~--~------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~  606 (748)
                      ..+.+.|++++|.+.|..+.+  +                  ...++..++..|...|++++|.+++.++...- ..++.
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            345566777777777766542  1                  01246778889999999999999988876521 11222


Q ss_pred             ----HHHHHHHHHhcCCCChHHHHHHHHHhhhhh---CCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC-------CC
Q 041741          607 ----ITFVAILTACSHSGLVDVGVEIFNSMQLDH---GVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP-------CK  671 (748)
Q Consensus       607 ----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~  671 (748)
                          ...+.+...+...|+++.|..+++......   +..+. ..++..++..|...|++++|..+++++.       .+
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence                234445556677899999999988764322   22222 4567789999999999999999988763       11


Q ss_pred             C-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-------cchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          672 D-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS-------APYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       672 ~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      + ...++..++..|...|++++|...+++++...|..+       ..+..++..+...|++++|..++.+..+
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            2 234677778889999999999999999988754322       3467778888999999999998887754

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.19  E-value=3.9e-06  Score=68.17  Aligned_cols=97  Identities=10%  Similarity=-0.015  Sum_probs=67.3

Q ss_pred             HHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHH
Q 041741          609 FVAILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCR  685 (748)
Q Consensus       609 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  685 (748)
                      +..+...+...|++++|+..+++...   ..| +...+..++.++...|++++|...+++..  .+.++..+..+...+.
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQ---KEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHT   96 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            44455666777788888888777742   234 45667777888888888888888887764  3345777778888888


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCC
Q 041741          686 LHANVRLAKRAAEELFRLDPKNS  708 (748)
Q Consensus       686 ~~~~~~~a~~~~~~~~~~~p~~~  708 (748)
                      ..|++++|...++++++.+|+++
T Consensus        97 ~~g~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC------
T ss_pred             HcCCHHHHHHHHHHHHHhCcCCC
Confidence            88888899999999888888654

>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=98.19  E-value=1.4e-05  Score=65.44  Aligned_cols=60  Identities=7%  Similarity=-0.061  Sum_probs=36.3

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhh
Q 041741          573 TWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQ  633 (748)
Q Consensus       573 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  633 (748)
                      .+..++..+.+.|++++|+..|++.++.. +-+...|..+..+|...|++++|+..+++..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al   69 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAV   69 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHH
Confidence            34556666666666666666666666642 2334456666666666666666666666553

>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=98.18  E-value=6.1e-06  Score=74.23  Aligned_cols=96  Identities=10%  Similarity=-0.037  Sum_probs=80.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhhCC-C-CCCH----------------hHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041741          643 DHYTCMIDCLGRAGHFHEAEMLIDEMP-C-KDDP----------------VIWEVLLSSCRLHANVRLAKRAAEELFRLD  704 (748)
Q Consensus       643 ~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  704 (748)
                      ..+..++..+.+.|++++|...+++.. . +.++                ..+..+...+...|++++|...++++++.+
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~  118 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID  118 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            445667777778888888888777663 1 2222                677888888999999999999999999999


Q ss_pred             CCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          705 PKNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       705 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      |+++.++..++.+|...|++++|...|+++.+..
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~  152 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  152 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC
Confidence            9999999999999999999999999999887643

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.17  E-value=8.8e-06  Score=67.07  Aligned_cols=93  Identities=13%  Similarity=0.023  Sum_probs=67.8

Q ss_pred             HHHHHHHHhcCChHHHHHHHhhCC-CCC-CH---hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---CcchHHHhHH
Q 041741          646 TCMIDCLGRAGHFHEAEMLIDEMP-CKD-DP---VIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN---SAPYSLLANI  717 (748)
Q Consensus       646 ~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~  717 (748)
                      ..++..+...|++++|...+++.. ..| ++   ..+..++..+...|++++|...++++++..|++   +.++..++.+
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            346667777888888888877764 223 33   466667777777888888888888888888877   5567888888


Q ss_pred             HhhcCChHHHHHHHHHHHhcC
Q 041741          718 YSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       718 ~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      |...|++++|...++++.+..
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHcCCHHHHHHHHHHHHHHC
Confidence            888888888888888776543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.16  E-value=3.7e-06  Score=72.71  Aligned_cols=93  Identities=17%  Similarity=0.117  Sum_probs=60.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhCC----CCCC----HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC------CCc
Q 041741          644 HYTCMIDCLGRAGHFHEAEMLIDEMP----CKDD----PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK------NSA  709 (748)
Q Consensus       644 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~------~~~  709 (748)
                      .+..++.++...|++++|...+++..    ..++    ...+..+...+...|++++|...++++++..+.      .+.
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            34445555555666666655555442    0111    334555666677778888888888887776322      134


Q ss_pred             chHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          710 PYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       710 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      ++..++.+|...|++++|.+++++..+
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            678888899999999999998888765

>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=98.16  E-value=0.00072  Score=65.12  Aligned_cols=225  Identities=12%  Similarity=0.018  Sum_probs=153.8

Q ss_pred             HhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCC-CchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhc-C-CHH
Q 041741          481 SLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLS-SSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKC-G-DIY  557 (748)
Q Consensus       481 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-~~~  557 (748)
                      .+.+..++|+++++.+...+ +-+...++.--..+...+ .++++..+++.+.... +-+..+|+.-..++.+. + +++
T Consensus        65 ~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~  142 (349)
T 3q7a_A           65 AKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPV  142 (349)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCH
T ss_pred             HhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChH
Confidence            34445577888888888653 223444554444444556 5888888888887654 34666777777667666 6 889


Q ss_pred             HHHHHhhhcCC---CCHHHHHHHHHHHHHcCChh--------HHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCC-----
Q 041741          558 GARQFFDMMHG---KNTVTWNEMIHGYAQNGYGD--------EAVRLYKDMIASGVKPDDITFVAILTACSHSGL-----  621 (748)
Q Consensus       558 ~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~-----  621 (748)
                      +++++++.+.+   .|..+|+--..++...|.++        ++++.++++++.. +-|...|+.....+...+.     
T Consensus       143 ~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~  221 (349)
T 3q7a_A          143 SEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSS  221 (349)
T ss_dssp             HHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccch
Confidence            99999998875   46677777666666666666        8999999999974 4566778887777777765     


Q ss_pred             --hHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCCh--------------------HHHHHHHhhCC-C-------
Q 041741          622 --VDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHF--------------------HEAEMLIDEMP-C-------  670 (748)
Q Consensus       622 --~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~--------------------~~A~~~~~~~~-~-------  670 (748)
                        ++++++.++++..   ..|+ ...|..+-..+.+.|+.                    .+.......+. .       
T Consensus       222 ~~~~eELe~~~~aI~---~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  298 (349)
T 3q7a_A          222 RSLQDELIYILKSIH---LIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTP  298 (349)
T ss_dssp             HHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCC
T ss_pred             HHHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccC
Confidence              6788888887752   3444 55666666666666653                    34445555553 1       


Q ss_pred             CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHH-hcCCCCCcch
Q 041741          671 KDDPVIWEVLLSSCRLHANVRLAKRAAEELF-RLDPKNSAPY  711 (748)
Q Consensus       671 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~p~~~~~~  711 (748)
                      .+.+..+..++..|...|+.++|.++++.+. +.+|-....+
T Consensus       299 ~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw  340 (349)
T 3q7a_A          299 LPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYW  340 (349)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHH
T ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHH
Confidence            2567888899999999999999999999987 5688443333

>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=98.15  E-value=0.00021  Score=68.54  Aligned_cols=178  Identities=9%  Similarity=0.008  Sum_probs=95.5

Q ss_pred             HHHHHHHhhhcCC---CCHHHHHHHHHHHHHcC--ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCC-hHHHHHHH
Q 041741          556 IYGARQFFDMMHG---KNTVTWNEMIHGYAQNG--YGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGL-VDVGVEIF  629 (748)
Q Consensus       556 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~-~~~A~~~~  629 (748)
                      +++++.+++.+..   .+..+|+.-..++...+  ++++++.+++++.+.. +-|...|+.-...+...|. ++++++.+
T Consensus        90 l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            3445555554432   35555655555555555  3566666666666653 3344555555555555555 36666666


Q ss_pred             HHhhhhhCCCCChhHHHHHHHHHHhc--------------CChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhc------
Q 041741          630 NSMQLDHGVEPILDHYTCMIDCLGRA--------------GHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLH------  687 (748)
Q Consensus       630 ~~~~~~~~~~~~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~------  687 (748)
                      +++...  .+-+...|.....++.+.              +.++++++.+.+..  .+.+...|..+-..+...      
T Consensus       169 ~~~I~~--~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~  246 (331)
T 3dss_A          169 DSLITR--NFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCEL  246 (331)
T ss_dssp             HHHHHH--CSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGC
T ss_pred             HHHHHH--CCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCcccc
Confidence            666421  122344444444444333              34566666666654  344566665554444433      


Q ss_pred             -----CCHHHHHHHHHHHHhcCCCCCcchHHHhHHH---hhcCChHHHHHHHHHHHh
Q 041741          688 -----ANVRLAKRAAEELFRLDPKNSAPYSLLANIY---SSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       688 -----~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~---~~~g~~~~A~~~~~~~~~  736 (748)
                           +..+++++.++++++++|++.-++..++.+.   ...|..++....+.++.+
T Consensus       247 ~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          247 SVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence                 3466777777777777776643333333221   234666677777776654

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.14  E-value=6.3e-07  Score=71.79  Aligned_cols=93  Identities=13%  Similarity=0.024  Sum_probs=79.1

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC------CcchH
Q 041741          641 ILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN------SAPYS  712 (748)
Q Consensus       641 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~  712 (748)
                      +...+..++..+...|++++|...+++..  .+.++..+..+...+...|++++|...++++++++|++      +.++.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            34567778888999999999999998875  44568888899999999999999999999999999988      77888


Q ss_pred             HHhHHHhhcCChHHHHHHHHH
Q 041741          713 LLANIYSSLGRWDDLRAVREL  733 (748)
Q Consensus       713 ~l~~~~~~~g~~~~A~~~~~~  733 (748)
                      .++.++...|++++|...+++
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHhHhhhHhHHHH
Confidence            899999999988888776654

>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=98.13  E-value=5.2e-06  Score=82.66  Aligned_cols=138  Identities=9%  Similarity=0.020  Sum_probs=103.8

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHH
Q 041741          571 TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMI  649 (748)
Q Consensus       571 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~  649 (748)
                      ...+..+...+.+.|++++|+..|++.++.  .|+..          .....       +..   ....| +...+..++
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~--~~~~~----------~~~~~-------~~~---~~~~~~~~~~~~nla  280 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRY--VEGSR----------AAAED-------ADG---AKLQPVALSCVLNIG  280 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHHH----------HHSCH-------HHH---GGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hhcCc----------cccCh-------HHH---HHHHHHHHHHHHHHH
Confidence            345677777888888888888888887762  11110          00001       111   01122 246688899


Q ss_pred             HHHHhcCChHHHHHHHhhCC-CC-CCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHH
Q 041741          650 DCLGRAGHFHEAEMLIDEMP-CK-DDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDL  727 (748)
Q Consensus       650 ~~~~~~g~~~~A~~~~~~~~-~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  727 (748)
                      .+|.+.|++++|...+++.. .. .++..+..+..++...|++++|...++++++++|+++.++..++.++...|+.+++
T Consensus       281 ~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          281 ACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999998875 33 46788888999999999999999999999999999999999999999999998888


Q ss_pred             HHH
Q 041741          728 RAV  730 (748)
Q Consensus       728 ~~~  730 (748)
                      .+.
T Consensus       361 ~k~  363 (370)
T 1ihg_A          361 EKA  363 (370)
T ss_dssp             HHC
T ss_pred             HHH
Confidence            753

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.13  E-value=7.7e-06  Score=63.69  Aligned_cols=66  Identities=29%  Similarity=0.293  Sum_probs=56.2

Q ss_pred             CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          671 KDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       671 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      +.++..+..++..+...|++++|+..++++++++|+++.++..++.+|...|++++|.+.+++..+
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            345777888888888889999999999999999998888999999999999999999988887654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=98.13  E-value=8.6e-06  Score=61.75  Aligned_cols=72  Identities=15%  Similarity=0.051  Sum_probs=63.1

Q ss_pred             CCCHhHHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCCCCCC
Q 041741          671 KDDPVIWEVLLSSCRLHAN---VRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDP  743 (748)
Q Consensus       671 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  743 (748)
                      ++++..+..+..++...++   .++|...++++++.+|+++.+...+|..++..|++++|+.+|+++.+..+. +|
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~-~~   77 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP-NL   77 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT-TC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-Cc
Confidence            4578888888887654444   799999999999999999999999999999999999999999999887776 55

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.13  E-value=1.6e-06  Score=70.16  Aligned_cols=84  Identities=15%  Similarity=0.056  Sum_probs=61.9

Q ss_pred             hcCChHHHHHHHhhCC-C---CC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHH
Q 041741          654 RAGHFHEAEMLIDEMP-C---KD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLR  728 (748)
Q Consensus       654 ~~g~~~~A~~~~~~~~-~---~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  728 (748)
                      ..|++++|...+++.. .   .| ++..+..++..+...|++++|...++++++.+|+++.++..++.+|...|++++|+
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            3577788888887764 2   13 35667777777888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHhc
Q 041741          729 AVRELMSEN  737 (748)
Q Consensus       729 ~~~~~~~~~  737 (748)
                      ..+++..+.
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            888876654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.13  E-value=3.8e-06  Score=72.73  Aligned_cols=92  Identities=10%  Similarity=0.014  Sum_probs=54.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCC-C------------------CC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041741          645 YTCMIDCLGRAGHFHEAEMLIDEMP-C------------------KD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLD  704 (748)
Q Consensus       645 ~~~l~~~~~~~g~~~~A~~~~~~~~-~------------------~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  704 (748)
                      +...+..+.+.|++++|...|++.. .                  .| ....+..+..++...|++++|...++++++++
T Consensus        14 ~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~   93 (162)
T 3rkv_A           14 LRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKRE   93 (162)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC
Confidence            3445556666666666666665542 1                  11 12345555556666666666666666666666


Q ss_pred             CCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          705 PKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       705 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      |+++.++..+|.+|...|++++|...|++..+
T Consensus        94 p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           94 ETNEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence            66666666666666666666666666665544

>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=98.11  E-value=2.1e-05  Score=77.42  Aligned_cols=145  Identities=10%  Similarity=0.007  Sum_probs=97.5

Q ss_pred             CCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--CC----------------HHHHHHHHHH
Q 041741          519 SSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG--KN----------------TVTWNEMIHG  580 (748)
Q Consensus       519 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~----------------~~~~~~l~~~  580 (748)
                      +++++|...++...... +.....+..+...+.+.|++++|...|++..+  |+                ...|..+..+
T Consensus       127 ~~~~~A~~~~~~a~~~~-p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~  205 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEK-LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMC  205 (336)
T ss_dssp             EEEECCCCGGGCCHHHH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHHH-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHH
Confidence            34444544443322211 12466788889999999999999999998763  32                4677777888


Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChH
Q 041741          581 YAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFH  659 (748)
Q Consensus       581 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~  659 (748)
                      +.+.|++++|+..+++.++.. +.+...+..+..+|...|++++|+..|+++..   +.|+ ...+..++.++.+.|+++
T Consensus       206 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~---l~P~~~~a~~~l~~~~~~~~~~~  281 (336)
T 1p5q_A          206 HLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ---LYPNNKAAKTQLAVCQQRIRRQL  281 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCSSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHHHHHH
Confidence            888888888888888887753 34556777777777777777777777777642   2333 455666777777777777


Q ss_pred             HHH-HHHhhC
Q 041741          660 EAE-MLIDEM  668 (748)
Q Consensus       660 ~A~-~~~~~~  668 (748)
                      +|. ..++.|
T Consensus       282 ~a~~~~~~~~  291 (336)
T 1p5q_A          282 AREKKLYANM  291 (336)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            663 344443

>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=98.10  E-value=5.1e-06  Score=69.29  Aligned_cols=75  Identities=11%  Similarity=0.026  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhCC-C-------CCC-HhHH----HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc
Q 041741          644 HYTCMIDCLGRAGHFHEAEMLIDEMP-C-------KDD-PVIW----EVLLSSCRLHANVRLAKRAAEELFRLDPKNSAP  710 (748)
Q Consensus       644 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~-------~~~-~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  710 (748)
                      .|..++.++.+.|++++|+..+++.. .       .|+ ...|    .....++...|++++|+..|+++++++|++..+
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~  138 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE  138 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHH
Confidence            56666666666666666666665543 3       564 5677    888889999999999999999999999999888


Q ss_pred             hHHHhHHH
Q 041741          711 YSLLANIY  718 (748)
Q Consensus       711 ~~~l~~~~  718 (748)
                      ...+..+-
T Consensus       139 ~~~~~~~~  146 (159)
T 2hr2_A          139 TPGKERMM  146 (159)
T ss_dssp             CTTHHHHH
T ss_pred             HHHHHHHH
Confidence            77665443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.09  E-value=1.6e-05  Score=63.36  Aligned_cols=100  Identities=10%  Similarity=-0.008  Sum_probs=69.5

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCC--CHhHHHHHHH
Q 041741          607 ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKD--DPVIWEVLLS  682 (748)
Q Consensus       607 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~--~~~~~~~l~~  682 (748)
                      ..+..+...+...|++++|+..+++....  .+.+...+..++.++...|++++|...+++..  .+.  +...+..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            34555666667777777777777766422  12235566677777777788888877777664  233  4677777788


Q ss_pred             HHHhc-CCHHHHHHHHHHHHhcCCCCC
Q 041741          683 SCRLH-ANVRLAKRAAEELFRLDPKNS  708 (748)
Q Consensus       683 ~~~~~-~~~~~a~~~~~~~~~~~p~~~  708 (748)
                      .+... |++++|.+.+++++...|.++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            88888 888888888888888888654

>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=98.05  E-value=1.2e-05  Score=66.37  Aligned_cols=109  Identities=8%  Similarity=-0.014  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCC-CCC----hhHHH
Q 041741          572 VTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGV-EPI----LDHYT  646 (748)
Q Consensus       572 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~----~~~~~  646 (748)
                      ..+..++..+...|++++|...+++..+.. +.+...+..+...+...|++++|...++++...... .++    ...+.
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 334455556666666666666666666665322211 111    34455


Q ss_pred             HHHHHHHhcCChHHHHHHHhhCC-CCCCHhHHHHHH
Q 041741          647 CMIDCLGRAGHFHEAEMLIDEMP-CKDDPVIWEVLL  681 (748)
Q Consensus       647 ~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~  681 (748)
                      .++.++...|++++|...+++.. ..|++..+..+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~l~  119 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEHRTPDVLKKCQ  119 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            56666666666666666666553 334444444333

>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=98.02  E-value=0.00011  Score=77.32  Aligned_cols=169  Identities=9%  Similarity=-0.040  Sum_probs=130.1

Q ss_pred             CHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCC----------hhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCC-
Q 041741          555 DIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGY----------GDEAVRLYKDMIASGVKPDDITFVAILTACSHSG-  620 (748)
Q Consensus       555 ~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~-  620 (748)
                      .-++|.+.++.+..   .+...|+.-..++...|+          ++++++.++++.+.. +-+...|..-..++.+.| 
T Consensus        44 ~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           44 LDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSS
T ss_pred             CCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHccc
Confidence            34567777777653   355667766666666666          889999999999864 456678888888888888 


Q ss_pred             -ChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcC-ChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhc---------
Q 041741          621 -LVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAG-HFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLH---------  687 (748)
Q Consensus       621 -~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~---------  687 (748)
                       +++++++.++++...  -+-+...|..-..++.+.| .++++++.++++.  .+.+...|......+...         
T Consensus       123 ~~~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          123 PNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccccc
Confidence             669999999998532  1234667777777888888 8899999988886  334677787777765542         


Q ss_pred             -----CCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHH
Q 041741          688 -----ANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDD  726 (748)
Q Consensus       688 -----~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  726 (748)
                           +.++++.+.+++++..+|+|..++..+++++...|+.++
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                 557999999999999999999999999999999988655

>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=98.00  E-value=3.6e-06  Score=69.97  Aligned_cols=85  Identities=15%  Similarity=0.069  Sum_probs=57.8

Q ss_pred             hcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCC----------HHHHHHHHHHHHhcCCCCCcchHHHhHHHhhc
Q 041741          654 RAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHAN----------VRLAKRAAEELFRLDPKNSAPYSLLANIYSSL  721 (748)
Q Consensus       654 ~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  721 (748)
                      +.+.+++|.+.+++..  .+.++..|..+..++...++          +++|+..++++++++|+++.++..++.+|...
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh
Confidence            3445555665555553  33345555555555555443          45888888888888888888888888888877


Q ss_pred             C-----------ChHHHHHHHHHHHhcC
Q 041741          722 G-----------RWDDLRAVRELMSENC  738 (748)
Q Consensus       722 g-----------~~~~A~~~~~~~~~~~  738 (748)
                      |           ++++|+++|+++.+-.
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l~  121 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDEQ  121 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHhC
Confidence            4           7888888888766543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.99  E-value=9.8e-06  Score=65.17  Aligned_cols=64  Identities=13%  Similarity=0.007  Sum_probs=35.7

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          642 LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       642 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      ...+..++.+|...|++++|...+++..  .+.++..+..+...+...|++++|...+++++++.|
T Consensus        19 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~   84 (115)
T 2kat_A           19 MLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAAAQ   84 (115)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence            4445555555666666666666555543  223345555555555555666666666666665555

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.99  E-value=1.3e-05  Score=78.85  Aligned_cols=150  Identities=13%  Similarity=-0.006  Sum_probs=78.8

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHhhhcCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhc
Q 041741          540 IFVGSALIEMYCKCGDIYGARQFFDMMHG--KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACS  617 (748)
Q Consensus       540 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~  617 (748)
                      ...+..+...+.+.|++++|...|++...  |+...       +...++.+++...+.          ...|..+..+|.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~~~  241 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAACLI  241 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHHHH
Confidence            44567778888899999999999998653  33221       112233333332221          136778888889


Q ss_pred             CCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHH-HHhcCCHHHH
Q 041741          618 HSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSS-CRLHANVRLA  693 (748)
Q Consensus       618 ~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~-~~~~~~~~~a  693 (748)
                      ..|++++|+..+++...   ..| +...+..++.+|...|++++|...+++.. ..| ++..+..+... ....+..+.+
T Consensus       242 ~~g~~~~A~~~~~~al~---~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          242 KLKRYDEAIGHCNIVLT---EEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             TTTCCHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999998853   234 46778889999999999999999999885 444 44555555554 3445677888


Q ss_pred             HHHHHHHHhcCCCCCc
Q 041741          694 KRAAEELFRLDPKNSA  709 (748)
Q Consensus       694 ~~~~~~~~~~~p~~~~  709 (748)
                      ...+++++...|+++.
T Consensus       319 ~~~~~~~l~~~p~~~~  334 (338)
T 2if4_A          319 KEMYKGIFKGKDEGGA  334 (338)
T ss_dssp             ----------------
T ss_pred             HHHHHHhhCCCCCCCC
Confidence            9999999999997653

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.97  E-value=2.2e-05  Score=59.75  Aligned_cols=81  Identities=16%  Similarity=0.190  Sum_probs=63.6

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHh
Q 041741          642 LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYS  719 (748)
Q Consensus       642 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  719 (748)
                      ...+..++..+...|++++|...+++..  .+.++..+..+...+...|++++|...++++++.+|+++.++..++.++.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~   88 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            3456667777888888888888877764  34456777788888888889999999999999999988888888888877


Q ss_pred             hcC
Q 041741          720 SLG  722 (748)
Q Consensus       720 ~~g  722 (748)
                      ..|
T Consensus        89 ~~g   91 (91)
T 1na3_A           89 KQG   91 (91)
T ss_dssp             HHC
T ss_pred             hcC
Confidence            654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.96  E-value=2.4e-05  Score=67.38  Aligned_cols=133  Identities=11%  Similarity=-0.021  Sum_probs=77.2

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHcCCC-CCH----HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC----hh
Q 041741          573 TWNEMIHGYAQNGYGDEAVRLYKDMIASGVK-PDD----ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI----LD  643 (748)
Q Consensus       573 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~  643 (748)
                      ++..+...+...|++++|+..+++..+.... ++.    .++..+...+...|++++|...+++........++    ..
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            3444555555566666666666555442100 111    24555666666667777777666665322211111    33


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhCC----CCC----CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          644 HYTCMIDCLGRAGHFHEAEMLIDEMP----CKD----DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       644 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      .+..++.++...|++++|...+++..    ..+    ....+..+...+...|++++|...+++++++..
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  160 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  160 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHH
Confidence            45566777777777777777766552    111    134556667778888888888888888887644

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.92  E-value=8e-06  Score=79.41  Aligned_cols=259  Identities=14%  Similarity=0.065  Sum_probs=135.6

Q ss_pred             CcchhhHHHHHHHccCCchhhhhhhhcCCCCchhhhhHHHHHhhcCCChhHHHHhhccCCC--CCchhHHHHHHHHHhcC
Q 041741           22 DTFLCNRLIELYSKCNNTHSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMPE--RNVVSWNNLISALVRNG   99 (748)
Q Consensus        22 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~   99 (748)
                      ++.+|..|..++++.++..+|.+.|=+.  .|...|..++.+..+.|++++-.+.+.-..+  +++..=+.|+-+|++.+
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA--~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~IDteLi~ayAk~~  130 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTN  130 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCC--SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTTHHHHHHHHTSC
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhC--CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccHHHHHHHHHhhC
Confidence            3445666666666666666666655333  3455566666666666666666666654433  23333445666666666


Q ss_pred             ChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHh
Q 041741          100 LEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFE  179 (748)
Q Consensus       100 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  179 (748)
                      +..+..+++       -.||..-...+-.-|...|.++.|+-+|..+.         -|..|...+.+.|++..|.+.-+
T Consensus       131 rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~is---------N~akLAstLV~L~~yq~AVdaAr  194 (624)
T 3lvg_A          131 RLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGAR  194 (624)
T ss_dssp             SSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSC---------CCTTTSSSSSSCSGGGSSTTTTT
T ss_pred             cHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCc---------cHHHHHHHHHHHHHHHHHHHHHH
Confidence            655443332       23555555555555555555555555543221         12223333444555555543322


Q ss_pred             cCCCCCeehHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhccCCCCCcchhcccccccccccchhHH
Q 041741          180 EMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQV  259 (748)
Q Consensus       180 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (748)
                      +.  .++.||-.+..+|...+.+.-|.-.--.+.     .....+..++..|...|.-+++-.+++..-           
T Consensus       195 KA--ns~ktWKeV~~ACvd~~EfrLAqicGLniI-----vhadeL~elv~~YE~~G~f~ELIsLlEagl-----------  256 (624)
T 3lvg_A          195 KA--NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAAL-----------  256 (624)
T ss_dssp             TC--CSSCSHHHHTHHHHHSCTTTTTTHHHHHHH-----CCSSCCSGGGSSSSTTCCCTTSTTTHHHHT-----------
T ss_pred             hc--CChhHHHHHHHHHhCchHHHHHHHhcchhc-----ccHHHHHHHHHHHHhCCCHHHHHHHHHHHh-----------
Confidence            22  477788888888888888776654433332     111122223333333332222222222111           


Q ss_pred             HHHHHHhcC-CCchHHHHHHHHHHHhcCChhHHHHHhccCCCC-----------CcccHHHHHHHHHhcCChhHHHH
Q 041741          260 HCLTIKLGF-EADLHLSNSLLDMYAKNGDMDSAEVIFSNLPER-----------SVVSWNVMIAGYGQKYQSTKAIE  324 (748)
Q Consensus       260 ~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~  324 (748)
                             |. ......++-|.-.|++- ++++..+.++..-.+           ....|.-+.-.|.+-.+++.|..
T Consensus       257 -------glErAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          257 -------GLERAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             -------TSTTCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             -------CCCchhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence                   22 24455677777667665 455555555544321           33467777777777777776653

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.92  E-value=6e-05  Score=77.53  Aligned_cols=159  Identities=9%  Similarity=-0.022  Sum_probs=120.7

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHcCCCCCH----------------HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC
Q 041741          578 IHGYAQNGYGDEAVRLYKDMIASGVKPDD----------------ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI  641 (748)
Q Consensus       578 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~----------------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  641 (748)
                      ...+...|++++|++.|.++.+.......                ..+..++..|...|++++|.+++..+....+..++
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            45567889999999999999985322111                24778899999999999999999988544433333


Q ss_pred             hh----HHHHHHHHHHhcCChHHHHHHHhhCC-------CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC-----
Q 041741          642 LD----HYTCMIDCLGRAGHFHEAEMLIDEMP-------CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLD-----  704 (748)
Q Consensus       642 ~~----~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----  704 (748)
                      ..    ....+...+...|++++|..+++...       ..+ ...++..++..+...|++++|...++++...-     
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            22    23445566667899999998887652       222 24577788889999999999999999988752     


Q ss_pred             -CCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          705 -PKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       705 -p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                       |....++..++.+|...|++++|..++++++.
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence             22234799999999999999999999998765

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.90  E-value=1.8e-05  Score=81.95  Aligned_cols=82  Identities=13%  Similarity=0.109  Sum_probs=36.5

Q ss_pred             HHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHH
Q 041741          550 YCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGV  626 (748)
Q Consensus       550 ~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~  626 (748)
                      +.+.|++++|.+.|++..+   .+...|..+..++.+.|++++|+..+++..+.. +.+...+..+..+|...|++++|+
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~eA~   94 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAAL   94 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            3344445555544444331   234444444444444444444444444444431 222334444444444444444444


Q ss_pred             HHHHHh
Q 041741          627 EIFNSM  632 (748)
Q Consensus       627 ~~~~~~  632 (748)
                      ..++++
T Consensus        95 ~~~~~a  100 (477)
T 1wao_1           95 RDYETV  100 (477)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444444

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.89  E-value=1.4e-05  Score=81.94  Aligned_cols=123  Identities=10%  Similarity=0.064  Sum_probs=89.7

Q ss_pred             hcCCCChHHHHHHHHHhhhhhC--C---CCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC------CCC-C---HhHHHH
Q 041741          616 CSHSGLVDVGVEIFNSMQLDHG--V---EPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP------CKD-D---PVIWEV  679 (748)
Q Consensus       616 ~~~~~~~~~A~~~~~~~~~~~~--~---~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~------~~~-~---~~~~~~  679 (748)
                      +..+|++++|+.++++......  +   .|+ ..+++.++.+|...|++++|..++++..      ..| .   ...++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            4566777777777766543221  1   222 4567788888888888888888777652      222 2   345677


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc-----CCCCCcc---hHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          680 LLSSCRLHANVRLAKRAAEELFRL-----DPKNSAP---YSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       680 l~~~~~~~~~~~~a~~~~~~~~~~-----~p~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      |+..|...|++++|+..+++++++     .|+.|.+   ...|..++...|++++|+..|+.++++.
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888899999999999999999884     6665544   5678888999999999999999998743

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=97.88  E-value=0.00053  Score=65.74  Aligned_cols=184  Identities=9%  Similarity=-0.025  Sum_probs=133.9

Q ss_pred             hcCCHH-HHHHHhhhcCC--C-CHHHHHHHHHHHHHcCC----------hhHHHHHHHHHHHcCCCCCHHHHHHHHHHhc
Q 041741          552 KCGDIY-GARQFFDMMHG--K-NTVTWNEMIHGYAQNGY----------GDEAVRLYKDMIASGVKPDDITFVAILTACS  617 (748)
Q Consensus       552 ~~g~~~-~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~----------~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~  617 (748)
                      +.|.++ +|+.+++.+..  | +...|+.-...+...+.          +++++..++.+.... +-+..+|+.-...+.
T Consensus        41 ~~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~  119 (331)
T 3dss_A           41 QAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLS  119 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHh
Confidence            344443 67777777664  2 33445543333333322          678999999999863 456678887777777


Q ss_pred             CCC--ChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCC-hHHHHHHHhhCC--CCCCHhHHHHHHHHHHhc-----
Q 041741          618 HSG--LVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGH-FHEAEMLIDEMP--CKDDPVIWEVLLSSCRLH-----  687 (748)
Q Consensus       618 ~~~--~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~-----  687 (748)
                      ..|  .+++++.+++++...  .+-+...|..-..++...|. ++++++.++++.  .+.+...|+.....+...     
T Consensus       120 ~l~~~~~~~EL~~~~k~l~~--dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l~~~~~  197 (331)
T 3dss_A          120 RLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPD  197 (331)
T ss_dssp             HCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHHSCCC-
T ss_pred             ccCcccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhhccc
Confidence            767  489999999999532  23346677777777888888 589999998885  455778888777766554     


Q ss_pred             ---------CCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhc-----------CChHHHHHHHHHHHhcC
Q 041741          688 ---------ANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSL-----------GRWDDLRAVRELMSENC  738 (748)
Q Consensus       688 ---------~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-----------g~~~~A~~~~~~~~~~~  738 (748)
                               +.++++.+.+++++..+|+|..++..+.+++...           +..+++++.++++.+-.
T Consensus       198 ~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~  268 (331)
T 3dss_A          198 SGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE  268 (331)
T ss_dssp             -----CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             cccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC
Confidence                     4578999999999999999999999888887777           56788999888886644

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.87  E-value=3.4e-05  Score=79.49  Aligned_cols=95  Identities=9%  Similarity=0.012  Sum_probs=75.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhCC-CCC-C---------------HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041741          644 HYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-D---------------PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK  706 (748)
Q Consensus       644 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~---------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  706 (748)
                      .+..++..|.+.|++++|...|++.. ..| +               ...+..+..++...|++++|+..++++++++|+
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  349 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSA  349 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc
Confidence            34455555556666666666555543 111 1               467888888999999999999999999999999


Q ss_pred             CCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          707 NSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       707 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      ++.++..++.+|...|++++|+..|+++.+..
T Consensus       350 ~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~  381 (457)
T 1kt0_A          350 NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  381 (457)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999987644

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.83  E-value=2.8e-05  Score=77.34  Aligned_cols=66  Identities=15%  Similarity=0.027  Sum_probs=61.0

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          673 DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       673 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      +...+..+...+...|++++|+..++++++++|+++.++..++.+|...|++++|+..|+++.+..
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~  337 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  337 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            456788888899999999999999999999999999999999999999999999999999987654

>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=97.81  E-value=5.4e-05  Score=62.95  Aligned_cols=89  Identities=7%  Similarity=-0.131  Sum_probs=43.1

Q ss_pred             HHHHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhh---
Q 041741          648 MIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRL----HANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS---  720 (748)
Q Consensus       648 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~---  720 (748)
                      ++.+|...+..++|.+++++.....++.....+...|..    .+|+++|...++++.+.  .++.++..|+.+|..   
T Consensus        31 lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~a~~~Lg~~y~~G~g  108 (138)
T 1klx_A           31 LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGL--NDQDGCLILGYKQYAGKG  108 (138)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSS
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcC--CCHHHHHHHHHHHHCCCC
Confidence            333343334444444444443322334444444444443    44555555555555544  344555555555555   


Q ss_pred             -cCChHHHHHHHHHHHhcC
Q 041741          721 -LGRWDDLRAVRELMSENC  738 (748)
Q Consensus       721 -~g~~~~A~~~~~~~~~~~  738 (748)
                       .+|.++|.++|++..+.|
T Consensus       109 ~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A          109 VVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             SCCCHHHHHHHHHHHHHTT
T ss_pred             CCcCHHHHHHHHHHHHHCC
Confidence             555556655555554443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.74  E-value=6.6e-05  Score=59.64  Aligned_cols=67  Identities=16%  Similarity=0.028  Sum_probs=61.1

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          673 DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       673 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      +...+..++..+...|++++|...++++++.+|+++.++..++.+|...|++++|++.++++.+..+
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p   69 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTS   69 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC
Confidence            4567778888999999999999999999999999999999999999999999999999999876544

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.62  E-value=0.00011  Score=55.68  Aligned_cols=66  Identities=20%  Similarity=0.222  Sum_probs=60.2

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          673 DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       673 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      ++..+..+...+...|++++|...++++++.+|+++.++..++.+|...|++++|...+++..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~   73 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD   73 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            356777788889999999999999999999999999999999999999999999999999987654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.59  E-value=5.8e-05  Score=58.49  Aligned_cols=80  Identities=14%  Similarity=0.041  Sum_probs=62.5

Q ss_pred             HHHHHHHhcCChHHHHHHHhhCC--CCCCHh-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCC
Q 041741          647 CMIDCLGRAGHFHEAEMLIDEMP--CKDDPV-IWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGR  723 (748)
Q Consensus       647 ~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  723 (748)
                      ..+..+.+.|++++|...+++..  .+.++. .+..++..+...|++++|...++++++++|+++.++..        +.
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~   76 (99)
T 2kc7_A            5 KTIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KM   76 (99)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HH
Confidence            35667788899999999988875  344567 88888888999999999999999999999988776632        55


Q ss_pred             hHHHHHHHHHH
Q 041741          724 WDDLRAVRELM  734 (748)
Q Consensus       724 ~~~A~~~~~~~  734 (748)
                      ..++...|++.
T Consensus        77 ~~~a~~~~~~~   87 (99)
T 2kc7_A           77 VMDILNFYNKD   87 (99)
T ss_dssp             HHHHHHHHCCT
T ss_pred             HHHHHHHHHHH
Confidence            66666666653

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.54  E-value=5.5e-06  Score=80.51  Aligned_cols=456  Identities=11%  Similarity=0.049  Sum_probs=241.8

Q ss_pred             chhhhhHHHHHhhcCCChhHHHHhhccCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhcc
Q 041741           53 DIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKASTA  132 (748)
Q Consensus        53 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  132 (748)
                      ...+|..+.++..+.+++.+|+..|-+  ..|+..|..+|.+..+.|.+++...++...++..-.|.  .=+.++-+|++
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIk--A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~--IDteLi~ayAk  128 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESY--VETELIFALAK  128 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCC--CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTT--TTHHHHHHHHT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHh--CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccc--cHHHHHHHHHh
Confidence            445788999999999999999887744  35566788999999999999999998877776533333  33466677777


Q ss_pred             ccCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCCCCeehHHHHHHHHHcCCCHHHHHHHHHHH
Q 041741          133 LLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLM  212 (748)
Q Consensus       133 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  212 (748)
                      .++..+.++.+.       .|+..-...+.+-|...|.++.|.-+|..+..     |..|...+.+.|++..|.+.-++ 
T Consensus       129 ~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN-----~akLAstLV~L~~yq~AVdaArK-  195 (624)
T 3lvg_A          129 TNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN-----FGRLASTLVHLGEYQAAVDGARK-  195 (624)
T ss_dssp             SCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCC-----CTTTSSSSSSCSGGGSSTTTTTT-
T ss_pred             hCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCcc-----HHHHHHHHHHHHHHHHHHHHHHh-
Confidence            766655443322       24444445566666667777777666665432     33444455666666666554322 


Q ss_pred             HHcCCCCCcccHHHHHHHHhccCCCCCcchhcccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCChhHHH
Q 041741          213 IRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDMDSAE  292 (748)
Q Consensus       213 ~~~g~~~~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~  292 (748)
                           .-+..||-.+-.+|...                                                   +.+.-|.
T Consensus       196 -----Ans~ktWKeV~~ACvd~---------------------------------------------------~EfrLAq  219 (624)
T 3lvg_A          196 -----ANSTRTWKEVCFACVDG---------------------------------------------------KEFRLAQ  219 (624)
T ss_dssp             -----CCSSCSHHHHTHHHHHS---------------------------------------------------CTTTTTT
T ss_pred             -----cCChhHHHHHHHHHhCc---------------------------------------------------hHHHHHH
Confidence                 23455666666666655                                                   2222221


Q ss_pred             HHh-ccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCC-----
Q 041741          293 VIF-SNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPS-----  366 (748)
Q Consensus       293 ~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----  366 (748)
                      -.- .-+..+  .-...++..|-..|.+++.+.+++.-... -......|+.|.-.|++- +.++..+-++..-+     
T Consensus       220 icGLniIvha--deL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNip  295 (624)
T 3lvg_A          220 MCGLHIVVHA--DELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIP  295 (624)
T ss_dssp             HHHHHHHCCS--SCCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCT
T ss_pred             HhcchhcccH--HHHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHH
Confidence            110 000000  01112233344556666666666554421 123444555555555543 23333332222211     


Q ss_pred             ------CCcchHHHHHHHHHccCCHHHHHHHH-------------HHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHH
Q 041741          367 ------PSVSSWNAMLSSYSQSENHKEAIKLF-------------REMQFRGVKPDRTTLAIILSSCAAMGILESGKQVH  427 (748)
Q Consensus       367 ------~~~~~~~~ll~~~~~~~~~~~a~~~~-------------~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  427 (748)
                            .....|.-++-.|++-.+++.|....             .+....  ..+...|...+.-|....- ...-.++
T Consensus       296 KviracE~ahLW~ElvfLY~~ydE~DnA~ltMi~h~~~Aw~h~~Fkdii~K--VaN~EiyYKAi~FYL~e~P-~lL~DLL  372 (624)
T 3lvg_A          296 KVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITK--VANVELYYRAIQFYLEFKP-LLLNDLL  372 (624)
T ss_dssp             TTHHHHTTTTCHHHHHHHHHHHTCHHHHHHTTTSCHHHHCCGGGGTTTGGG--CSCSHHHHHHHHHHTTSCC-TTSHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHhcchhHHHHHHHHHhCChhhccHHHHHHHHHH--cchHHHHHHHHHHHHHhCh-HHHHHHH
Confidence                  34456778888888888888765432             111111  2344444444444433211 0001111


Q ss_pred             HHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHH-HHHHHHHhCCCchHHHHHHHHHHHCCCCCCHH
Q 041741          428 AASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWN-SMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQF  506 (748)
Q Consensus       428 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  506 (748)
                      ..+ ...+.+     ..+++.+.+.+++......+..+...|...-| ++-..|....+++.                  
T Consensus       373 ~vL-~prlDh-----~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeAln~L~IEEEDy~~------------------  428 (624)
T 3lvg_A          373 MVL-SPRLDH-----TRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITEEDYQA------------------  428 (624)
T ss_dssp             HHH-CTTCCS-----TTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHHHHHHHHHTTCCHH------------------
T ss_pred             Hhc-cccCCh-----HHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHHHHHHHhhhhhHHH------------------
Confidence            110 000000     12234445555555555555555555544433 34445555555432                  


Q ss_pred             HHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCC
Q 041741          507 SFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGY  586 (748)
Q Consensus       507 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~  586 (748)
                       ...-+..|-.-.....|.+    +++   .+-...-..-...|.+.++|+++.++.++=.     .|.-.|.....+|+
T Consensus       429 -LR~SId~ydNFD~i~LA~r----LEk---HeL~eFRrIAA~LYkkn~rw~qsi~l~KkDk-----lykDAietAa~S~~  495 (624)
T 3lvg_A          429 -LRTSIDAYDNFDNISLAQR----LEK---HELIEFRRIAAYLFKGNNRWKQSVELCKKDS-----LYKDAMQYASESKD  495 (624)
T ss_dssp             -HHHTTSSCCCSCTTHHHHH----HHT---CSSHHHHHHHHHHHHTTCHHHHHSSCSSTTC-----CTTGGGTTTTTCCC
T ss_pred             -HHHHHHHhccccHHHHHHH----Hhh---CchHHHHHHHHHHHHhcccHHHHHHHHHhcc-----cHHHHHHHHHHcCC
Confidence             2222222333333333322    222   1122223344566788889999887765322     12223455567888


Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHH
Q 041741          587 GDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEI  628 (748)
Q Consensus       587 ~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~  628 (748)
                      .+-|.++++-.++.|   +..+|...+-.|...=+.+-++++
T Consensus       496 ~elaeeLL~yFv~~g---~~EcF~a~LytCYdLlrpDvVlEl  534 (624)
T 3lvg_A          496 TELAEELLQWFLQEE---KRECFGACLFTCYDLLRPDVVLET  534 (624)
T ss_dssp             TTHHHHHHHHHHHHC---STHHHHHHHHHTSSSSSCHHHHHH
T ss_pred             HHHHHHHHHHHHHcC---chHHHHHHHHHHhhccChHHHHHH
Confidence            888999999988865   445677888888887777777776

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.53  E-value=0.00039  Score=73.24  Aligned_cols=154  Identities=10%  Similarity=0.014  Sum_probs=122.5

Q ss_pred             HHcCC-hhHHHHHHHHHHHcCCCCCH-HHHHHHHHHhcCCCC----------hHHHHHHHHHhhhhhCCCCChhHHHHHH
Q 041741          582 AQNGY-GDEAVRLYKDMIASGVKPDD-ITFVAILTACSHSGL----------VDVGVEIFNSMQLDHGVEPILDHYTCMI  649 (748)
Q Consensus       582 ~~~~~-~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~----------~~~A~~~~~~~~~~~~~~~~~~~~~~l~  649 (748)
                      .+.|. .++|++.++++...  .|+. ..|+.-..++...|+          +++++..++.+...  .+-+...|..-.
T Consensus        39 ~~~~~~~eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~  114 (567)
T 1dce_A           39 RQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRC  114 (567)
T ss_dssp             HHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            34454 46789999999996  4544 567766666655566          89999999998532  233467788888


Q ss_pred             HHHHhcC--ChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcC-CHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhc---
Q 041741          650 DCLGRAG--HFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHA-NVRLAKRAAEELFRLDPKNSAPYSLLANIYSSL---  721 (748)
Q Consensus       650 ~~~~~~g--~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~---  721 (748)
                      .++.+.|  +++++++.++++.  .+.+...|..-...+...| .++++.+.++++++.+|.|..++...+.++...   
T Consensus       115 w~l~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~  194 (567)
T 1dce_A          115 WLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQ  194 (567)
T ss_dssp             HHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccc
Confidence            8888999  6799999999986  4557888888888888888 899999999999999999999999999998874   


Q ss_pred             -----------CChHHHHHHHHHHHhcCC
Q 041741          722 -----------GRWDDLRAVRELMSENCI  739 (748)
Q Consensus       722 -----------g~~~~A~~~~~~~~~~~~  739 (748)
                                 +++++|+++++++....+
T Consensus       195 ~~~~~~~~~~~~~~~eel~~~~~ai~~~P  223 (567)
T 1dce_A          195 PDSGPQGRLPENVLLKELELVQNAFFTDP  223 (567)
T ss_dssp             CCSSSCCSSCHHHHHHHHHHHHHHHHHCS
T ss_pred             ccccccccccHHHHHHHHHHHHHHHhhCC
Confidence                       667899999988765443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.49  E-value=0.0002  Score=57.32  Aligned_cols=76  Identities=16%  Similarity=0.134  Sum_probs=50.9

Q ss_pred             HHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          661 AEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       661 A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      |...+++..  .+.++..+..++..+...|++++|...++++++.+|+++.++..++.+|...|++++|...|++..+
T Consensus         4 a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444444432  2335666666777777777777777777777777777777777777777777777777777776544

>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=97.44  E-value=0.0016  Score=53.84  Aligned_cols=112  Identities=10%  Similarity=-0.054  Sum_probs=91.8

Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHh----cCChHH
Q 041741          585 GYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGR----AGHFHE  660 (748)
Q Consensus       585 ~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  660 (748)
                      +++++|++.|++..+.| .|+..    +...|...+.+++|+..|++.. +.   -+......++.+|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa-~~---g~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKAC-EL---NSGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHH-HT---TCHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHH-cC---CCHHHHHHHHHHHHcCCCCCccHHH
Confidence            46788999999999987 45544    7777888888899999999884 33   456777888888888    889999


Q ss_pred             HHHHHhhCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCC
Q 041741          661 AEMLIDEMPCKDDPVIWEVLLSSCRL----HANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       661 A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p  705 (748)
                      |..++++.....++.....+...|..    .+|+++|...++++.+...
T Consensus        80 A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            99999988655678888888888887    7899999999999988754

>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=97.41  E-value=8.4e-05  Score=61.81  Aligned_cols=50  Identities=16%  Similarity=0.084  Sum_probs=33.9

Q ss_pred             HHHHHHHhhCC-CCC-CHhHHHHHHHHHHhc-----------CCHHHHHHHHHHHHhcCCCCC
Q 041741          659 HEAEMLIDEMP-CKD-DPVIWEVLLSSCRLH-----------ANVRLAKRAAEELFRLDPKNS  708 (748)
Q Consensus       659 ~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~p~~~  708 (748)
                      ++|+..|++.. ..| ....|..+..+|...           |++++|+..|+++++++|+++
T Consensus        63 ~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~  125 (158)
T 1zu2_A           63 QEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNT  125 (158)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHhCCCCH
Confidence            35555555553 222 345555555555544           589999999999999999764

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.37  E-value=0.00031  Score=54.22  Aligned_cols=60  Identities=22%  Similarity=0.325  Sum_probs=54.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCc-chHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          680 LLSSCRLHANVRLAKRAAEELFRLDPKNSA-PYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       680 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      .+..+...|++++|...++++++.+|+++. ++..++.+|...|++++|.+.|+++.+..+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p   66 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNP   66 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            455678899999999999999999999999 999999999999999999999999876544

>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=97.31  E-value=0.00085  Score=64.47  Aligned_cols=68  Identities=13%  Similarity=0.102  Sum_probs=45.9

Q ss_pred             CCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          671 KDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       671 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      +.++..+..+...+...|++++|...++++++++| +...+..+++++.-.|++++|.+.|+++.+..+
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~-s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P  341 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEM-SWLNYVLLGKVYEMKGMNREAADAYLTAFNLRP  341 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSC
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            34566666666555566777777777777777776 455666777777777777777777776655433

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.22  E-value=0.0011  Score=51.20  Aligned_cols=83  Identities=8%  Similarity=0.050  Sum_probs=48.4

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHH
Q 041741          570 NTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMI  649 (748)
Q Consensus       570 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  649 (748)
                      +...+..+..++...|++++|+..|++.++.. +.+...|..+..+|...|++++|+..+++......-.++......+.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~l~   84 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKDLSELQ   84 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCchhHHHHHH
Confidence            45556666677777777777777777776653 22345666666777777777777777766643322233333333343


Q ss_pred             HHHH
Q 041741          650 DCLG  653 (748)
Q Consensus       650 ~~~~  653 (748)
                      ..+.
T Consensus        85 ~~l~   88 (100)
T 3ma5_A           85 DAKL   88 (100)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            3333

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.20  E-value=0.0016  Score=66.76  Aligned_cols=123  Identities=10%  Similarity=-0.073  Sum_probs=72.7

Q ss_pred             HHHcCChhHHHHHHHHHHHcC---C---CCCH-HHHHHHHHHhcCCCChHHHHHHHHHhhhhh-----CCCCC-hhHHHH
Q 041741          581 YAQNGYGDEAVRLYKDMIASG---V---KPDD-ITFVAILTACSHSGLVDVGVEIFNSMQLDH-----GVEPI-LDHYTC  647 (748)
Q Consensus       581 ~~~~~~~~~a~~~~~~m~~~~---~---~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-----~~~~~-~~~~~~  647 (748)
                      +..+|++++|+.++++.++..   +   .|+. .+++.|..+|...|++++|..++++.....     ...|+ ..+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            345566666666666555421   1   1222 356677777777777777777766653211     12233 345677


Q ss_pred             HHHHHHhcCChHHHHHHHhhCC------CCCC-Hh---HHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 041741          648 MIDCLGRAGHFHEAEMLIDEMP------CKDD-PV---IWEVLLSSCRLHANVRLAKRAAEELFRL  703 (748)
Q Consensus       648 l~~~~~~~g~~~~A~~~~~~~~------~~~~-~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~  703 (748)
                      |+..|...|++++|..++++..      ..|+ |.   ....+...+...+.+++|+..++++.+.
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7778888888888877776652      2332 32   2334444556677788888888887663

>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=96.99  E-value=0.018  Score=55.34  Aligned_cols=142  Identities=11%  Similarity=0.007  Sum_probs=88.4

Q ss_pred             CHHHHHHHHHHH--HHcC---ChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHhc----CCC----ChHHHHHHHHHhhhh
Q 041741          570 NTVTWNEMIHGY--AQNG---YGDEAVRLYKDMIASGVKPDD-ITFVAILTACS----HSG----LVDVGVEIFNSMQLD  635 (748)
Q Consensus       570 ~~~~~~~l~~~~--~~~~---~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~----~~~----~~~~A~~~~~~~~~~  635 (748)
                      +...|...+++.  ...+   +..+|..+|++.++.  .|+. ..+..+..+|.    ..+    ........++.....
T Consensus       193 ~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~  270 (372)
T 3ly7_A          193 RGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTL  270 (372)
T ss_dssp             SGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhc
Confidence            445555554433  2222   246688888888884  5653 33443333331    100    111111122211111


Q ss_pred             hCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHH
Q 041741          636 HGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLL  714 (748)
Q Consensus       636 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  714 (748)
                      ...+.+...+..++..+...|++++|...++++. ..|+...+..+...+...|++++|.+.+++++.++|.. .++...
T Consensus       271 ~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~-~t~~~~  349 (372)
T 3ly7_A          271 PELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGA-NTLYWI  349 (372)
T ss_dssp             GGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSH-HHHHHH
T ss_pred             ccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc-ChHHHH
Confidence            1224557778888877888899999999999886 55777777777788889999999999999999999955 344433

>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=96.97  E-value=0.00044  Score=69.60  Aligned_cols=59  Identities=8%  Similarity=0.027  Sum_probs=29.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhc-----CCCCC---cchHHHhHHHhhcCChHHHHHHHHHHH
Q 041741          677 WEVLLSSCRLHANVRLAKRAAEELFRL-----DPKNS---APYSLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       677 ~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      ++.++.+|...|++++|+..+++++++     .|+.|   ..+..||.+|..+|++++|+.+|+++.
T Consensus       343 ~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          343 MYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            444444455555555555555555542     23222   235555555555555555555555543

>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=0.0016  Score=65.74  Aligned_cols=60  Identities=7%  Similarity=0.005  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhc-----CCCCCc---chHHHhHHHhhcCChHHHHHHHHHHH
Q 041741          676 IWEVLLSSCRLHANVRLAKRAAEELFRL-----DPKNSA---PYSLLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       676 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      +++.++..|...|++++|+..++++++.     .|++|.   .+..||.+|..+|++++|+.+++++.
T Consensus       331 ~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          331 VLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            3444555555555555555555555543     232222   35555555555555555555555543

>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=96.85  E-value=0.44  Score=50.08  Aligned_cols=114  Identities=6%  Similarity=-0.076  Sum_probs=66.6

Q ss_pred             CChhHHHHHHHHHHHcCCCCCHH----HHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHH
Q 041741          585 GYGDEAVRLYKDMIASGVKPDDI----TFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHE  660 (748)
Q Consensus       585 ~~~~~a~~~~~~m~~~~~~p~~~----~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  660 (748)
                      .+.+.|...+......+ ..+..    ....+.......+...++...+....   ...++.......+....+.|+++.
T Consensus       228 ~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~e~~~r~Alr~~d~~~  303 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAI---MRSQSTSLIERRVRMALGTGDRRG  303 (618)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHH---HTCCCHHHHHHHHHHHHHHTCHHH
T ss_pred             cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcc---ccCCChHHHHHHHHHHHHCCCHHH
Confidence            36778888887776543 22332    23334444555553455555555542   222343344445555567788888


Q ss_pred             HHHHHhhCCCCC--CHhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 041741          661 AEMLIDEMPCKD--DPVIWEVLLSSCRLHANVRLAKRAAEELFR  702 (748)
Q Consensus       661 A~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  702 (748)
                      |...++.|...+  .+....-+..++...|+.++|...++.+..
T Consensus       304 a~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          304 LNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            888888886332  233233344456677888888888888764

>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=96.79  E-value=0.0036  Score=57.40  Aligned_cols=86  Identities=15%  Similarity=0.089  Sum_probs=55.7

Q ss_pred             HHHHHHHhhCC-CCCC---HhHHHHHHHHHHh-----cCCHHHHHHHHHHHHhcCCCC-CcchHHHhHHHhhc-CChHHH
Q 041741          659 HEAEMLIDEMP-CKDD---PVIWEVLLSSCRL-----HANVRLAKRAAEELFRLDPKN-SAPYSLLANIYSSL-GRWDDL  727 (748)
Q Consensus       659 ~~A~~~~~~~~-~~~~---~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~p~~-~~~~~~l~~~~~~~-g~~~~A  727 (748)
                      .+|...+++.. ..|+   ...+..++..|..     .|+.++|.+.++++++++|+. ..++...+..+... |+.++|
T Consensus       180 ~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a  259 (301)
T 3u64_A          180 HAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGF  259 (301)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHH
Confidence            34444444443 3343   3455555555555     477777888888888887763 77777777777664 777777


Q ss_pred             HHHHHHHHhcCCCCCCC
Q 041741          728 RAVRELMSENCIVKDPA  744 (748)
Q Consensus       728 ~~~~~~~~~~~~~~~~~  744 (748)
                      .+++++..+..+..+|+
T Consensus       260 ~~~L~kAL~a~p~~~P~  276 (301)
T 3u64_A          260 DEALDRALAIDPESVPH  276 (301)
T ss_dssp             HHHHHHHHHCCGGGCSS
T ss_pred             HHHHHHHHcCCCCCCCC
Confidence            77777777766665555

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.63  E-value=0.0025  Score=52.31  Aligned_cols=93  Identities=15%  Similarity=0.049  Sum_probs=69.7

Q ss_pred             CChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcC---ChHHHHHHHhhCC-CC-C--CHhHHHHHHHHHHhcCCHHH
Q 041741          620 GLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAG---HFHEAEMLIDEMP-CK-D--DPVIWEVLLSSCRLHANVRL  692 (748)
Q Consensus       620 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~-~~-~--~~~~~~~l~~~~~~~~~~~~  692 (748)
                      +....+.+.|.+.. ..+ .++..+...++.++++.+   +.+++..+++... .. |  ....+..+.-++.+.|++++
T Consensus        12 ~~l~~~~~~y~~e~-~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           12 EDLLKFEKKFQSEK-AAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHH-HTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHH-ccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHH
Confidence            45566677776653 323 377888888999999988   6668999988875 22 4  35666677777899999999


Q ss_pred             HHHHHHHHHhcCCCCCcchHHH
Q 041741          693 AKRAAEELFRLDPKNSAPYSLL  714 (748)
Q Consensus       693 a~~~~~~~~~~~p~~~~~~~~l  714 (748)
                      |.+.++.+++.+|+|.++....
T Consensus        90 A~~y~~~lL~ieP~n~QA~~Lk  111 (152)
T 1pc2_A           90 ALKYVRGLLQTEPQNNQAKELE  111 (152)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCHHHHHHH
Confidence            9999999999999876555443

>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=96.59  E-value=0.0095  Score=59.94  Aligned_cols=93  Identities=12%  Similarity=-0.031  Sum_probs=60.2

Q ss_pred             CCCChHHHHHHHHHhhhhh--CCCCC----hhHHHHHHHHHHhcCChHHHHHHHhhCC------CCC-C---HhHHHHHH
Q 041741          618 HSGLVDVGVEIFNSMQLDH--GVEPI----LDHYTCMIDCLGRAGHFHEAEMLIDEMP------CKD-D---PVIWEVLL  681 (748)
Q Consensus       618 ~~~~~~~A~~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~------~~~-~---~~~~~~l~  681 (748)
                      ..|++++|+.++++.....  -+.|+    ..+++.++.+|...|++++|..++++..      ..| .   ...++.++
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            3466777777766653321  12222    3556777788888888888887776652      222 2   34567777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhc-----CCCCCcc
Q 041741          682 SSCRLHANVRLAKRAAEELFRL-----DPKNSAP  710 (748)
Q Consensus       682 ~~~~~~~~~~~a~~~~~~~~~~-----~p~~~~~  710 (748)
                      ..|...|++++|+..+++++++     .|+.|.+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~  423 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYI  423 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHH
Confidence            7888888888888888888874     5655444

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.54  E-value=0.0069  Score=46.94  Aligned_cols=74  Identities=12%  Similarity=0.152  Sum_probs=55.8

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhhCC---------CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchH
Q 041741          642 LDHYTCMIDCLGRAGHFHEAEMLIDEMP---------CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYS  712 (748)
Q Consensus       642 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  712 (748)
                      ....-.++..+...|+++.|..+++...         ..+.+.++..+..++.+.|+++.|...++++++++|+++.+..
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~   84 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANG   84 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHh
Confidence            3344567777777777777777776552         1234677888889999999999999999999999998877655


Q ss_pred             HHh
Q 041741          713 LLA  715 (748)
Q Consensus       713 ~l~  715 (748)
                      .+.
T Consensus        85 n~~   87 (104)
T 2v5f_A           85 NLK   87 (104)
T ss_dssp             HHH
T ss_pred             hHH
Confidence            554

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.47  E-value=0.0069  Score=49.70  Aligned_cols=65  Identities=11%  Similarity=-0.097  Sum_probs=32.3

Q ss_pred             CCHhHHHHHHHHHHhcC---CHHHHHHHHHHHHhcC-C-CCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          672 DDPVIWEVLLSSCRLHA---NVRLAKRAAEELFRLD-P-KNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       672 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      ++..+...+.+++.+++   +.++++..++.+++.+ | ++...++.|+-.|++.|++++|+++++.+.+
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~   99 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ   99 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            34444445555555444   3345555555555544 4 2344555555555555555555555554433

>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=96.36  E-value=0.0099  Score=59.95  Aligned_cols=99  Identities=12%  Similarity=0.014  Sum_probs=65.1

Q ss_pred             HhcCCCChHHHHHHHHHhhhhh--CCCCC----hhHHHHHHHHHHhcCChHHHHHHHhhCC------CCC-C---HhHHH
Q 041741          615 ACSHSGLVDVGVEIFNSMQLDH--GVEPI----LDHYTCMIDCLGRAGHFHEAEMLIDEMP------CKD-D---PVIWE  678 (748)
Q Consensus       615 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~------~~~-~---~~~~~  678 (748)
                      .+...|++++|+.++++.....  -+.|+    ..+++.++.+|...|++++|..++++..      ..| .   ...++
T Consensus       296 ~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~  375 (429)
T 3qwp_A          296 ELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVM  375 (429)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHH
T ss_pred             HHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHH
Confidence            3445667777777777664221  12222    4457777888888888888888777652      222 2   34567


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhc-----CCCCCcchHH
Q 041741          679 VLLSSCRLHANVRLAKRAAEELFRL-----DPKNSAPYSL  713 (748)
Q Consensus       679 ~l~~~~~~~~~~~~a~~~~~~~~~~-----~p~~~~~~~~  713 (748)
                      .++..|...|++++|+..+++++++     .|+.|.+...
T Consensus       376 nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~  415 (429)
T 3qwp_A          376 KVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDL  415 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence            7777888888999998888888884     6666555433

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.33  E-value=0.23  Score=39.07  Aligned_cols=141  Identities=10%  Similarity=0.110  Sum_probs=91.9

Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHH
Q 041741          581 YAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHE  660 (748)
Q Consensus       581 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  660 (748)
                      +...|..++..++..+....   .+..-++-++--....-+-+...+.++.+-+-+.+.+= .....++.+|.+.|..  
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis~C-~NlKrVi~C~~~~n~~--   90 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKC-QNLKSVVECGVINNTL--   90 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGC-SCTHHHHHHHHHTTCC--
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhhcCcHhh-hcHHHHHHHHHHhcch--
Confidence            44578888888888888774   33444555554444455566666666666322222221 1234455555555432  


Q ss_pred             HHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCCC
Q 041741          661 AEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIV  740 (748)
Q Consensus       661 A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  740 (748)
                                   .......+..+...|.-++-..++..++.-+|.+|..+.-++.+|.+.|+..+|.++++++=++|++
T Consensus        91 -------------se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           91 -------------NEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             -------------CHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             -------------HHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence                         2334445566777888888888888866666668889999999999999999999999988888774

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.30  E-value=0.031  Score=41.94  Aligned_cols=69  Identities=9%  Similarity=0.001  Sum_probs=54.0

Q ss_pred             CCChhHHHHHHHHHHhcCC---hHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 041741          639 EPILDHYTCMIDCLGRAGH---FHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN  707 (748)
Q Consensus       639 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  707 (748)
                      +.+...+..++.++...++   .++|..++++..  .+.++..+..++..+...|++++|...++++++.+|++
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~~   76 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPN   76 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCTT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            3456777778888865554   688999888875  44457777778888889999999999999999999973

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.13  E-value=0.013  Score=45.40  Aligned_cols=66  Identities=12%  Similarity=-0.070  Sum_probs=54.5

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcC-------CCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          673 DPVIWEVLLSSCRLHANVRLAKRAAEELFRLD-------PKNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       673 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      ++.....++..+...|+++.|...++++++..       +..+.++..|+.+|.+.|++++|..+++++.+..
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            34445577888899999999999999999963       2234579999999999999999999999986643

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.83  E-value=0.4  Score=40.43  Aligned_cols=130  Identities=13%  Similarity=0.114  Sum_probs=78.9

Q ss_pred             HHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHH
Q 041741          547 IEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGV  626 (748)
Q Consensus       547 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~  626 (748)
                      +......|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+..+         +..+.-.|...|+.+.-.
T Consensus        12 F~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~   80 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLS   80 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHH
Confidence            44556778888888887766  4667788888888888888888888877554         344444455566665544


Q ss_pred             HHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHH
Q 041741          627 EIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEEL  700 (748)
Q Consensus       627 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  700 (748)
                      .+-+.. ...|   +   ++....++.-.|+++++.+++.+...-|.      -.......|-.+.|.++.+.+
T Consensus        81 kla~iA-~~~g---~---~n~af~~~l~lGdv~~~i~lL~~~~r~~e------A~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           81 KMQNIA-QTRE---D---FGSMLLNTFYNNSTKERSSIFAEGGSLPL------AYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHH-HHTT---C---HHHHHHHHHHHTCHHHHHHHHHHTTCHHH------HHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHH-HHCc---c---HHHHHHHHHHcCCHHHHHHHHHHCCChHH------HHHHHHHcCcHHHHHHHHHHh
Confidence            443333 1111   1   33344555667888888888877652221      111233456666666666543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.71  E-value=0.11  Score=57.97  Aligned_cols=49  Identities=14%  Similarity=0.159  Sum_probs=32.8

Q ss_pred             HHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q 041741          549 MYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIA  599 (748)
Q Consensus       549 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  599 (748)
                      .....|+++.|.++.+.+  .+...|..+...+.+.++++.|.+.|.++.+
T Consensus       661 ~~l~~~~~~~A~~~~~~~--~~~~~W~~la~~al~~~~~~~A~~~y~~~~d  709 (814)
T 3mkq_A          661 LALKVGQLTLARDLLTDE--SAEMKWRALGDASLQRFNFKLAIEAFTNAHD  709 (814)
T ss_dssp             HHHHHTCHHHHHHHHTTC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC
T ss_pred             hhhhcCCHHHHHHHHHhh--CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC
Confidence            345567777777776655  3456777777777777777777777776543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.69  E-value=0.072  Score=59.60  Aligned_cols=75  Identities=12%  Similarity=0.029  Sum_probs=37.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChH
Q 041741          544 SALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVD  623 (748)
Q Consensus       544 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  623 (748)
                      ..++..+.+.|.++.|.++.+.-        ..-.......|+++.|.++.+.      ..+...|..+...+.+.|+++
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~~--------~~~f~~~l~~~~~~~A~~~~~~------~~~~~~W~~la~~al~~~~~~  698 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPDQ--------DQKFELALKVGQLTLARDLLTD------ESAEMKWRALGDASLQRFNFK  698 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCCH--------HHHHHHHHHHTCHHHHHHHHTT------CCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHhCCChHHheecCCCc--------chheehhhhcCCHHHHHHHHHh------hCcHhHHHHHHHHHHHcCCHH
Confidence            44455555555555555544311        0112223445555555555332      234455666666666666666


Q ss_pred             HHHHHHHHh
Q 041741          624 VGVEIFNSM  632 (748)
Q Consensus       624 ~A~~~~~~~  632 (748)
                      .|...|.++
T Consensus       699 ~A~~~y~~~  707 (814)
T 3mkq_A          699 LAIEAFTNA  707 (814)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHc
Confidence            666666555

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.35  E-value=0.094  Score=41.28  Aligned_cols=90  Identities=17%  Similarity=0.055  Sum_probs=60.6

Q ss_pred             HHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHH---HHHHHhhCCCC--C--CHhHHHHHHHHHHhcCCHHHHHH
Q 041741          623 DVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHE---AEMLIDEMPCK--D--DPVIWEVLLSSCRLHANVRLAKR  695 (748)
Q Consensus       623 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~--~--~~~~~~~l~~~~~~~~~~~~a~~  695 (748)
                      ..+...|.... ..+ .|+..+--.++.++++..+..+   ++.+++.+...  |  ....+..+.-++.+.|++++|.+
T Consensus        18 ~~~~~~y~~e~-~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~   95 (126)
T 1nzn_A           18 LKFEKKFQSEK-AAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALK   95 (126)
T ss_dssp             HHHHHHHHHHH-HHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHh-ccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHH
Confidence            34444444442 222 2666777777788887776665   77777776522  3  23445556667889999999999


Q ss_pred             HHHHHHhcCCCCCcchHHH
Q 041741          696 AAEELFRLDPKNSAPYSLL  714 (748)
Q Consensus       696 ~~~~~~~~~p~~~~~~~~l  714 (748)
                      .++.+++.+|+|.++....
T Consensus        96 ~~~~lL~~eP~n~QA~~Lk  114 (126)
T 1nzn_A           96 YVRGLLQTEPQNNQAKELE  114 (126)
T ss_dssp             HHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHH
Confidence            9999999999887665544

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.21  E-value=0.038  Score=43.52  Aligned_cols=83  Identities=8%  Similarity=-0.172  Sum_probs=63.5

Q ss_pred             ChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHH---HHHHHHHHHhcC-C-CCCcchHHHhHHHhhcCChHHHHH
Q 041741          657 HFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRL---AKRAAEELFRLD-P-KNSAPYSLLANIYSSLGRWDDLRA  729 (748)
Q Consensus       657 ~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~A~~  729 (748)
                      ....+.+.|.+..  ..++..+...+.+++.++++...   ++..++.++..+ | .+-..++.|+-.+++.|++++|++
T Consensus        16 ~l~~~~~~y~~e~~~~~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~   95 (126)
T 1nzn_A           16 DLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALK   95 (126)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhccCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHH
Confidence            3344444444332  35788888899999988886655   888888888876 5 455789999999999999999999


Q ss_pred             HHHHHHhcCC
Q 041741          730 VRELMSENCI  739 (748)
Q Consensus       730 ~~~~~~~~~~  739 (748)
                      +.+.+.+..+
T Consensus        96 ~~~~lL~~eP  105 (126)
T 1nzn_A           96 YVRGLLQTEP  105 (126)
T ss_dssp             HHHHHHHHCT
T ss_pred             HHHHHHHhCC
Confidence            9999876444

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.18  E-value=0.84  Score=35.96  Aligned_cols=140  Identities=10%  Similarity=-0.037  Sum_probs=85.2

Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHH
Q 041741          380 SQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAE  459 (748)
Q Consensus       380 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  459 (748)
                      .-.|..++..+++.+....   .+..-++.++--....-+.+...+.++.+   |.-.|.          ..+|++....
T Consensus        18 ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~I---GkiFDi----------s~C~NlKrVi   81 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKI---GSYFDL----------DKCQNLKSVV   81 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHH---GGGSCG----------GGCSCTHHHH
T ss_pred             HHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHH---hhhcCc----------HhhhcHHHHH
Confidence            3457777777777776654   34444555554444444444444333332   221121          1234444444


Q ss_pred             HHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCC
Q 041741          460 RVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYV  537 (748)
Q Consensus       460 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  537 (748)
                      ..+-.+.. +....+.-++.+..+|+-++-.+++..+.. +.+|++.....+..+|.+.|+..++.+++.+.-+.|++
T Consensus        82 ~C~~~~n~-~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           82 ECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcc-hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            44333322 344556667788888888888888888644 34778888888888899999988888888888887754

>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=94.82  E-value=0.075  Score=42.83  Aligned_cols=103  Identities=9%  Similarity=0.048  Sum_probs=64.5

Q ss_pred             CCCHHHHHHHHHHhcCCCCh------HHHHHHHHHhhhhhCCCCChh-HHHHHHH------HHHhcCChHHHHHHHhhCC
Q 041741          603 KPDDITFVAILTACSHSGLV------DVGVEIFNSMQLDHGVEPILD-HYTCMID------CLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       603 ~p~~~~~~~l~~~~~~~~~~------~~A~~~~~~~~~~~~~~~~~~-~~~~l~~------~~~~~g~~~~A~~~~~~~~  669 (748)
                      +-|..+|-..+....+.|+.      +...++|++...  .++|+.. .+...+.      .+...++.++|.++|+.+.
T Consensus        10 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           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE--ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMAR   87 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH--HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH--cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            34556666666666666777      777778877642  4455421 1111111      1234477777887777763


Q ss_pred             --CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 041741          670 --CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN  707 (748)
Q Consensus       670 --~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  707 (748)
                        ++.-..+|......-.++|+..+|..++.+++.+.|.+
T Consensus        88 ~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           88 ANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             HHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             HHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence              34446777777777777888888888888888877754

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.81  E-value=1.6  Score=36.84  Aligned_cols=127  Identities=13%  Similarity=0.137  Sum_probs=88.0

Q ss_pred             cCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHH
Q 041741          516 AKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYK  595 (748)
Q Consensus       516 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  595 (748)
                      ...|+++.|.++.+.+      .+...|..|.......|+++-|.+.|.....     +..+.-.|...|+.+...++-+
T Consensus        16 L~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D-----~~~L~~Ly~~tg~~e~L~kla~   84 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS-----FDKLSFLYLVTGDVNKLSKMQN   84 (177)
T ss_dssp             HHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC-----HHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC-----HHHHHHHHHHhCCHHHHHHHHH
Confidence            3567778887776654      3677889999999999999999999988764     4445556667788777666666


Q ss_pred             HHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC
Q 041741          596 DMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       596 ~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  669 (748)
                      .....|      -++.....+...|+++++++++.+.    |--|.      -+......|..+.|.++.+++.
T Consensus        85 iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~----~r~~e------A~~~A~t~g~~~~a~~~~~~~~  142 (177)
T 3mkq_B           85 IAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG----GSLPL------AYAVAKANGDEAAASAFLEQAE  142 (177)
T ss_dssp             HHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT----TCHHH------HHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC----CChHH------HHHHHHHcCcHHHHHHHHHHhC
Confidence            555554      2455566677889999999998766    22221      1122233577778888887764

>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=94.34  E-value=0.085  Score=48.51  Aligned_cols=63  Identities=14%  Similarity=0.201  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHhc-----CChHHHHHHHhhCC-CCC--CHhHHHHHHHHHHh-cCCHHHHHHHHHHHHhcCCC
Q 041741          644 HYTCMIDCLGRA-----GHFHEAEMLIDEMP-CKD--DPVIWEVLLSSCRL-HANVRLAKRAAEELFRLDPK  706 (748)
Q Consensus       644 ~~~~l~~~~~~~-----g~~~~A~~~~~~~~-~~~--~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~p~  706 (748)
                      .+..++..|...     |+.++|.+.|++.. ..|  +......+...++. .|+.+++.+.++++++..|.
T Consensus       201 A~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          201 VWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCC
Confidence            455555556553     67777777776664 344  25555556666555 37777777777777777764

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.33  E-value=0.079  Score=56.67  Aligned_cols=58  Identities=10%  Similarity=-0.015  Sum_probs=51.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHH
Q 041741          677 WEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELM  734 (748)
Q Consensus       677 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  734 (748)
                      +..-...+...|+++-|..+.++++...|.+-.++..|+.+|...|+|+.|+-.+..+
T Consensus       340 L~~Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          340 LNIQTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            3334455778899999999999999999999999999999999999999999988865

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=94.12  E-value=0.29  Score=39.23  Aligned_cols=76  Identities=13%  Similarity=0.089  Sum_probs=54.9

Q ss_pred             CCCChhHHHHHHHHHHhcCChH---HHHHHHhhCC-CCC--CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcch
Q 041741          638 VEPILDHYTCMIDCLGRAGHFH---EAEMLIDEMP-CKD--DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPY  711 (748)
Q Consensus       638 ~~~~~~~~~~l~~~~~~~g~~~---~A~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  711 (748)
                      -.|+..+--.++.++.+..+.+   +++.+++.+. ..|  ....+..+.-++.+.|++++|.+..+.+++.+|+|.++.
T Consensus        35 ~~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA~  114 (144)
T 1y8m_A           35 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVG  114 (144)
T ss_dssp             TTSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHHH
T ss_pred             CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHH
Confidence            3677777778888888877654   5667777664 223  244555666678889999999999999999999875554


Q ss_pred             HH
Q 041741          712 SL  713 (748)
Q Consensus       712 ~~  713 (748)
                      .+
T Consensus       115 ~L  116 (144)
T 1y8m_A          115 AL  116 (144)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.11  E-value=8.4  Score=42.30  Aligned_cols=257  Identities=11%  Similarity=0.024  Sum_probs=140.8

Q ss_pred             HHHhcCCHHHHHHHhccCCCC----Ccch--HHHHHHHHHccCCHHHHHHHHHHHHHcCC--CCC---Hhh----HHHHH
Q 041741          347 ACVRSGDIKTGREMFDSMPSP----SVSS--WNAMLSSYSQSENHKEAIKLFREMQFRGV--KPD---RTT----LAIIL  411 (748)
Q Consensus       347 ~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~ll~~~~~~~~~~~a~~~~~~m~~~g~--~p~---~~~----~~~ll  411 (748)
                      +....|+.++++..++.....    +..+  -..+.-+.+..|..+++..++.......-  .-+   ...    ...+-
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            566889999999999887651    2221  22333455666766678887777665421  011   111    11122


Q ss_pred             HHhhccCChHHHHHHHHHHHhhcCCc-hhHHHHHHHHHHHhcCChHHHHHHHhhCCCC-Ccch--HHHHHHHHHhCCCch
Q 041741          412 SSCAAMGILESGKQVHAASLKTASHI-DNYVASGLIGIYSKCQRNELAERVFHRIPEL-DIVC--WNSMIAGLSLNSLDI  487 (748)
Q Consensus       412 ~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~--~~~li~~~~~~~~~~  487 (748)
                      .++...++. .+.+.+..++...... ......++...+.-.|+.+....+++.+.+. +...  ...+.-++...|+.+
T Consensus       463 la~~GS~~e-ev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~e  541 (963)
T 4ady_A          463 LAAMGSANI-EVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQE  541 (963)
T ss_dssp             HHSTTCCCH-HHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCGG
T ss_pred             HHhcCCCCH-HHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCChH
Confidence            233334443 3334444333322111 1122234455566677777777776654321 2222  233334455788888


Q ss_pred             HHHHHHHHHHHCCCCCCHHH--HHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhh
Q 041741          488 EAFMFFKQMRQNEMYPTQFS--FATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDM  565 (748)
Q Consensus       488 ~a~~~~~~m~~~~~~p~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  565 (748)
                      .+..+.+.+.... .|....  ...+.-+|+..|+......++..+.... ..++.....+.-++...|+.+.+.++++.
T Consensus       542 ~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~  619 (963)
T 4ady_A          542 LADDLITKMLASD-ESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQL  619 (963)
T ss_dssp             GGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTT
T ss_pred             HHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHH
Confidence            8888888887642 222221  2244557888999888888888887642 22344333444455556777777788775


Q ss_pred             cCC-CCHHHH--HHHHHHHHHcCCh-hHHHHHHHHHHHcCCCCCHHHH
Q 041741          566 MHG-KNTVTW--NEMIHGYAQNGYG-DEAVRLYKDMIASGVKPDDITF  609 (748)
Q Consensus       566 ~~~-~~~~~~--~~l~~~~~~~~~~-~~a~~~~~~m~~~~~~p~~~~~  609 (748)
                      +.+ .|+..-  ..+.-+....|.. .+++.++..+..   .+|..+-
T Consensus       620 L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~---D~d~~Vr  664 (963)
T 4ady_A          620 LSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK---DPVDFVR  664 (963)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT---CSSHHHH
T ss_pred             HHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc---CCCHHHH
Confidence            543 344332  2333444445544 578889988875   4555443

>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=93.65  E-value=0.13  Score=40.54  Aligned_cols=78  Identities=14%  Similarity=0.103  Sum_probs=54.9

Q ss_pred             CCCCChhHHHHHHHHHHhcCCh---HHHHHHHhhCC-CCC--CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc
Q 041741          637 GVEPILDHYTCMIDCLGRAGHF---HEAEMLIDEMP-CKD--DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAP  710 (748)
Q Consensus       637 ~~~~~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  710 (748)
                      +-.|+..+--.++.++.+..+.   .+++.+++.+. ..|  ....+..+.-++.+.|++++|.+..+.+++.+|+|.++
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA  114 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  114 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHH
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHH
Confidence            4456777777788888877755   35666766663 233  24556666677888899999999999999999988665


Q ss_pred             hHHH
Q 041741          711 YSLL  714 (748)
Q Consensus       711 ~~~l  714 (748)
                      ....
T Consensus       115 ~~Lk  118 (134)
T 3o48_A          115 GALK  118 (134)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.52  E-value=5.9  Score=39.90  Aligned_cols=185  Identities=8%  Similarity=0.032  Sum_probs=108.7

Q ss_pred             CCchHHHHHHHHHHHC-----CCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCC-ch--HHHHHHHHHHHhcCC
Q 041741          484 SLDIEAFMFFKQMRQN-----EMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVN-DI--FVGSALIEMYCKCGD  555 (748)
Q Consensus       484 ~~~~~a~~~~~~m~~~-----~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~--~~~~~l~~~~~~~g~  555 (748)
                      |++++|++.+..+.+.     ....+......++..|...++++...+.+..+.+..... ..  .+...++........
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~  109 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKS  109 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCc
Confidence            3455565555444431     233345566667777777777777766666555442222 11  111222222222332


Q ss_pred             HH--HHHHHhhhcCC---C-------CHHHHHHHHHHHHHcCChhHHHHHHHHHHHc--CCCCCH---HHHHHHHHHhcC
Q 041741          556 IY--GARQFFDMMHG---K-------NTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS--GVKPDD---ITFVAILTACSH  618 (748)
Q Consensus       556 ~~--~A~~~~~~~~~---~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~--~~~p~~---~~~~~l~~~~~~  618 (748)
                      .+  .-..+.+.+..   .       .......|...+...|++.+|..++..+...  |..+..   ..+...++.|..
T Consensus       110 ~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~  189 (445)
T 4b4t_P          110 LDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSIL  189 (445)
T ss_dssp             THHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH
Confidence            22  22233333221   1       1223456788899999999999999997753  222221   356667788899


Q ss_pred             CCChHHHHHHHHHhhh-hhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHhhC
Q 041741          619 SGLVDVGVEIFNSMQL-DHGVEPI----LDHYTCMIDCLGRAGHFHEAEMLIDEM  668 (748)
Q Consensus       619 ~~~~~~A~~~~~~~~~-~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~  668 (748)
                      .+++..|..++.++.. .....++    ...+...+..+...+++.+|...|.++
T Consensus       190 ~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          190 KGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            9999999999988732 1222222    234667788888999999998887665

>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=93.34  E-value=0.87  Score=36.83  Aligned_cols=99  Identities=13%  Similarity=0.211  Sum_probs=72.5

Q ss_pred             CCCHHHHHHHHHHHHHcCCh------hHHHHHHHHHHHcCCCCCHH----HHHHHHH---HhcCCCChHHHHHHHHHhhh
Q 041741          568 GKNTVTWNEMIHGYAQNGYG------DEAVRLYKDMIASGVKPDDI----TFVAILT---ACSHSGLVDVGVEIFNSMQL  634 (748)
Q Consensus       568 ~~~~~~~~~l~~~~~~~~~~------~~a~~~~~~m~~~~~~p~~~----~~~~l~~---~~~~~~~~~~A~~~~~~~~~  634 (748)
                      ..|..+|-..+...-+.|+.      ++..++|++.... ++|+..    .|..+--   .+...++.++|.++|+.+..
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~   88 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARA   88 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            45788888888888888998      8899999999886 677642    1211111   11233899999999999954


Q ss_pred             hhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC
Q 041741          635 DHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       635 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  669 (748)
                      .  .+-=...+...++.=.+.|+.+.|.+++.+..
T Consensus        89 ~--hKkFAKiwi~~AqFEiRqgnl~kARkILg~Ai  121 (161)
T 4h7y_A           89 N--CKKFAFVHISFAQFELSQGNVKKSKQLLQKAV  121 (161)
T ss_dssp             H--CTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             H--hHHHHHHHHHHHHHHHHcccHHHHHHHHHHHh
Confidence            3  22226667777777889999999999998774

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=90.96  E-value=11  Score=35.70  Aligned_cols=135  Identities=16%  Similarity=0.148  Sum_probs=85.1

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHhcCCCCCeehHHHHHHHHHcCCCHHHHHHHH----HHHHHcCCCCCcccHHHHHHHHh
Q 041741          157 VANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMF----RLMIRKAVSIDSVSLSSVLGVCA  232 (748)
Q Consensus       157 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~----~~m~~~g~~~~~~t~~~ll~~~~  232 (748)
                      +|.++..-|.+++++++|.+++-.           -...+.+.|....|.++.    +...+.++++|..+...++..+.
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~  105 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLR  105 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            356667778999999999987753           344566778876665554    66667889999988888888887


Q ss_pred             ccCCCCCcchhcccccccccccchhHHHHHHHHhc--CCCchHHHHHHHHHHHhcCChhHHHHHhccCCCCCcccHHHHH
Q 041741          233 REGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLG--FEADLHLSNSLLDMYAKNGDMDSAEVIFSNLPERSVVSWNVMI  310 (748)
Q Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~  310 (748)
                      .....           ..++.........+-.+.|  ..-|+.....+...|.+.+++.+|+..|-.-.++++..|..++
T Consensus       106 ~~~~~-----------~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL  174 (336)
T 3lpz_A          106 LFQPG-----------EPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARME  174 (336)
T ss_dssp             TSCTT-----------CHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHH
T ss_pred             hCCCC-----------CcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHH
Confidence            65311           1111111333333444444  2346677778888888888888888887432222224444444


Q ss_pred             HHH
Q 041741          311 AGY  313 (748)
Q Consensus       311 ~~~  313 (748)
                      .-+
T Consensus       175 ~ew  177 (336)
T 3lpz_A          175 YEW  177 (336)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=90.94  E-value=0.38  Score=47.67  Aligned_cols=58  Identities=12%  Similarity=0.007  Sum_probs=41.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          679 VLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       679 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .++..+...|+++++...+..++..+|-+...+..|..+|...|+..+|+++|+..++
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~  233 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKT  233 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445556677777777777777777777777777777777777777777777776654

>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=90.87  E-value=7.3  Score=38.10  Aligned_cols=23  Identities=22%  Similarity=0.258  Sum_probs=11.0

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHH
Q 041741          577 MIHGYAQNGYGDEAVRLYKDMIA  599 (748)
Q Consensus       577 l~~~~~~~~~~~~a~~~~~~m~~  599 (748)
                      ++..|...|++.+|.+++.++.+
T Consensus       105 L~~l~~~~~~y~~a~~~i~~l~~  127 (394)
T 3txn_A          105 LIALYFDTALYTEALALGAQLLR  127 (394)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHH
Confidence            44444445555555444444444

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=90.66  E-value=2  Score=34.47  Aligned_cols=68  Identities=9%  Similarity=-0.005  Sum_probs=48.8

Q ss_pred             CCCHhHHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCC-CCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          671 KDDPVIWEVLLSSCRLHAN---VRLAKRAAEELFRLDPK-NSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       671 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      .|++.+...+.+++.++.+   ..+++.+++.+....|. .-..++.|+-.+++.|++++|+++.+.+.+..
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~e  107 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  107 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            4677777777777776653   45677777777777773 34578888888888888888888888776543

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=90.58  E-value=11  Score=35.30  Aligned_cols=118  Identities=14%  Similarity=0.114  Sum_probs=77.1

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHhcCCCCCeehHHHHHHHHHcCCCHHHHHHH----HHHHHHcCCCCCcccHHHHHHHHh
Q 041741          157 VANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEM----FRLMIRKAVSIDSVSLSSVLGVCA  232 (748)
Q Consensus       157 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~----~~~m~~~g~~~~~~t~~~ll~~~~  232 (748)
                      +|.++..-|.+++++++|.+++..           -...+.+.|....|.++    ++...+.+++++......++..+.
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~  103 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIA  103 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            466677778899999999987754           34456677887776665    555566789999888888888876


Q ss_pred             ccCCCCCcchhcccccccccccchhHHHHHHHHhcC--CCchHHHHHHHHHHHhcCChhHHHHHhc
Q 041741          233 REGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGF--EADLHLSNSLLDMYAKNGDMDSAEVIFS  296 (748)
Q Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~  296 (748)
                      .....           ...+.........+-.+.|-  .-++.....+...|.+.|++.+|+..|-
T Consensus       104 ~~p~~-----------~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i  158 (312)
T 2wpv_A          104 ELDPS-----------EPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFM  158 (312)
T ss_dssp             TCCTT-----------CTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HCCCC-----------CchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHH
Confidence            64211           11111112223333333332  2367778888888888888888888775

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=90.36  E-value=0.84  Score=36.05  Aligned_cols=66  Identities=9%  Similarity=0.003  Sum_probs=40.0

Q ss_pred             CCCHhHHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCC-CCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          671 KDDPVIWEVLLSSCRLHAN---VRLAKRAAEELFRLDPK-NSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       671 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .|++.+...+.+++.++.+   ..+++.+++.+.+.+|. .-..++.|+-.+++.|++++|+++.+.+.+
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            4555665566666555543   34566666666666653 345666666777777777777776666544

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=90.33  E-value=2.2  Score=38.66  Aligned_cols=124  Identities=12%  Similarity=0.064  Sum_probs=76.4

Q ss_pred             HHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCCh
Q 041741          579 HGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHF  658 (748)
Q Consensus       579 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  658 (748)
                      ....+.|+.++++.....-++.. +-|...-..+++.++-.|+++.|..-++...   ...|+......+.+.+.++.  
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a---~l~p~~~~~a~~yr~lI~aE--   78 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSI---KLFPEYLPGASQLRHLVKAA--   78 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH---HHCGGGHHHHHHHHHHHHHH--
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH---HhCchhhHHHHHHHHHHHHH--
Confidence            34567788888888888888763 5566666778888899999999988888763   33455332222222222221  


Q ss_pred             HHHHH-HHhhC--C--CCCCHhHHHHHHHH--HHhcCCHHHHHHHHHHHHhcCCCCCc
Q 041741          659 HEAEM-LIDEM--P--CKDDPVIWEVLLSS--CRLHANVRLAKRAAEELFRLDPKNSA  709 (748)
Q Consensus       659 ~~A~~-~~~~~--~--~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~p~~~~  709 (748)
                       .... +|..-  +  ....+.....++.+  ....|+.++|.+.-.++.+..|..+.
T Consensus        79 -~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~ap~~~G  135 (273)
T 1zbp_A           79 -QARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGF  135 (273)
T ss_dssp             -HHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCE
T ss_pred             -HHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCcccCC
Confidence             1121 22211  1  12223334444444  44579999999999999999886554

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=89.47  E-value=1.3  Score=36.57  Aligned_cols=125  Identities=10%  Similarity=0.056  Sum_probs=65.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHhhhcC-----CCCH-------HHHHHHHHHHHHcCChhHHHHHHHHHHHcC-CCCCHH-HH
Q 041741          544 SALIEMYCKCGDIYGARQFFDMMH-----GKNT-------VTWNEMIHGYAQNGYGDEAVRLYKDMIASG-VKPDDI-TF  609 (748)
Q Consensus       544 ~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~-~~  609 (748)
                      -.-+..+...|.++.|+-+.+.+.     .++.       .++..+.+++...+++.+|...|++.++.. .-+... +.
T Consensus        24 ~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~  103 (167)
T 3ffl_A           24 IDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVR  103 (167)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC-------
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCcc
Confidence            344566677788888877766543     1221       144556677778888888888887765421 111111 11


Q ss_pred             HHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCC-CCHhHHHHHHH
Q 041741          610 VAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCK-DDPVIWEVLLS  682 (748)
Q Consensus       610 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~l~~  682 (748)
                      ..+.    ......          ......++.+.--.++.||.+.|++++|+..++.++.+ .++.+-..|..
T Consensus       104 ~~~~----~~ss~p----------~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~Rt~kvnm~Lak  163 (167)
T 3ffl_A          104 PSTG----NSASTP----------QSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQRTPKINMLLAN  163 (167)
T ss_dssp             ---------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGGCCHHHHHHHHH
T ss_pred             cccc----ccCCCc----------ccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchhcCHHHHHHHHH
Confidence            0000    000000          00112233444445788888888888888888888733 34444444443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=89.10  E-value=0.94  Score=37.48  Aligned_cols=112  Identities=13%  Similarity=0.022  Sum_probs=58.2

Q ss_pred             HHHHHhcCCCChHHHHHHHHHhhhhhCCCCCh-------hHHHHHHHHHHhcCChHHHHHHHhhCC-----CCCCHhHHH
Q 041741          611 AILTACSHSGLVDVGVEIFNSMQLDHGVEPIL-------DHYTCMIDCLGRAGHFHEAEMLIDEMP-----CKDDPVIWE  678 (748)
Q Consensus       611 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~  678 (748)
                      .-++.+...|.++.|+-+.+.+....+..|+.       .++..+++++...|++..|...|++..     ....+....
T Consensus        25 dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~  104 (167)
T 3ffl_A           25 DHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRP  104 (167)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence            33455566677777776666543333333431       234556666777777777776666531     000000000


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHH
Q 041741          679 VLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELM  734 (748)
Q Consensus       679 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  734 (748)
                      .+. .  ...        ...-..+ +.+...-+.++.+|.+.|++++|+.+++.+
T Consensus       105 ~~~-~--~ss--------~p~s~~~-~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A          105 STG-N--SAS--------TPQSQCL-PSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             -----------------------CC-CCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             ccc-c--cCC--------Ccccccc-cchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence            000 0  000        0000011 223356688999999999999999999954

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.56  E-value=11  Score=37.91  Aligned_cols=184  Identities=9%  Similarity=0.087  Sum_probs=102.2

Q ss_pred             CCchhHHHHHHHHHHh-----CCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCCC---CHHHHHHHHHHH----HHcCC
Q 041741          519 SSSFQGRQVHAQIEKD-----GYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHGK---NTVTWNEMIHGY----AQNGY  586 (748)
Q Consensus       519 ~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~----~~~~~  586 (748)
                      ++++.|.+.+-.+.+.     ...........++..+...|+++...+.+..+.+.   -......+++.+    .....
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~  109 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKS  109 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCc
Confidence            5667777766666653     33445777888999999999999987776655432   122222333322    22222


Q ss_pred             hhHH--HHHHHHHHH--cC-CCCC---HHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC----hhHHHHHHHHHHh
Q 041741          587 GDEA--VRLYKDMIA--SG-VKPD---DITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI----LDHYTCMIDCLGR  654 (748)
Q Consensus       587 ~~~a--~~~~~~m~~--~~-~~p~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~  654 (748)
                      .+..  +.+.+....  .| +...   ......|...+...|++.+|..++..+..+..-..+    ...+...++.|..
T Consensus       110 ~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~  189 (445)
T 4b4t_P          110 LDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSIL  189 (445)
T ss_dssp             THHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH
Confidence            2211  111111110  11 1111   122345667778888888888888887543322222    3456667778888


Q ss_pred             cCChHHHHHHHhhCC-----CCCCHh----HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 041741          655 AGHFHEAEMLIDEMP-----CKDDPV----IWEVLLSSCRLHANVRLAKRAAEELFR  702 (748)
Q Consensus       655 ~g~~~~A~~~~~~~~-----~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~  702 (748)
                      .+++.+|..+++++.     ..+.+.    .+...+..+...+++.+|-..|..+.+
T Consensus       190 ~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          190 KGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            888888888877752     222222    233334445556666666666555543

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=85.74  E-value=5.1  Score=39.51  Aligned_cols=74  Identities=9%  Similarity=0.073  Sum_probs=56.4

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhh----hhCCCCChhHHHHH
Q 041741          574 WNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQL----DHGVEPILDHYTCM  648 (748)
Q Consensus       574 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~~~~~~l  648 (748)
                      ...++..+...|++.+++..+..+.... +-+...+..++.++...|+..+|++.|+.+..    +.|+.|...+-...
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            3445677778889999998888888763 55777888999999999999999988887632    46888887654333

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=85.52  E-value=1.4  Score=39.87  Aligned_cols=56  Identities=14%  Similarity=0.153  Sum_probs=38.3

Q ss_pred             HHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041741          651 CLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK  706 (748)
Q Consensus       651 ~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  706 (748)
                      .+.+.|++++|++.++.-.  .+-|...-..++..++-.|++++|..-++.+.+++|+
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~   63 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE   63 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCch
Confidence            4556777777777665543  3335666666777777777777777777777777774

>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=83.94  E-value=4.7  Score=29.89  Aligned_cols=63  Identities=13%  Similarity=0.051  Sum_probs=44.4

Q ss_pred             ChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHH
Q 041741          100 LEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLS  163 (748)
Q Consensus       100 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  163 (748)
                      +.-+..+-++.+....+.|++......+++|.+.+|+..|.++++-++..-... ..+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~-~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPH-KEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTC-TTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCc-hhhHHHHHH
Confidence            344566677777777788888888888888888888888888888776554222 345655554

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=83.43  E-value=5.4  Score=42.83  Aligned_cols=52  Identities=12%  Similarity=0.025  Sum_probs=36.4

Q ss_pred             HHHHHcCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHhcCCCChHHHHHHHHHh
Q 041741          579 HGYAQNGYGDEAVRLYKDMIASGVKPDD-ITFVAILTACSHSGLVDVGVEIFNSM  632 (748)
Q Consensus       579 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~  632 (748)
                      .-+...|+++-|+++-++....  .|+. .+|..|..+|...|+++.|+-.++.+
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            3455567777777777777774  4543 57777777777777777777777766

>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=82.59  E-value=6.7  Score=29.08  Aligned_cols=60  Identities=18%  Similarity=0.270  Sum_probs=41.7

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHH
Q 041741          589 EAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMID  650 (748)
Q Consensus       589 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  650 (748)
                      +..+-++.+....+.|++......+++|-+.+++..|+++++.+..+.+..  ..+|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~--~~iY~~~lq   87 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPH--KEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTC--TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCc--hhhHHHHHH
Confidence            455666667777778888888888888888888888888888774333333  445555553

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=82.54  E-value=24  Score=30.76  Aligned_cols=167  Identities=13%  Similarity=0.057  Sum_probs=103.8

Q ss_pred             hhhhhhhhcCCCCchhhhhHHHHHhhcCCChhHHHHhhccCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC
Q 041741           40 HSAQHLFDKMPHKDIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPT  119 (748)
Q Consensus        40 ~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  119 (748)
                      +....+.+.+..++...-...+..+.+.++.+....+.+.+..++...-...+.++...++.+ +...+..+..   .++
T Consensus        19 ~~~~~L~~~L~~~~~~vR~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~~~-~~~~L~~~l~---~~~   94 (211)
T 3ltm_A           19 EKVEMYIKNLQDDSYYVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDER-AVEPLIKALK---DED   94 (211)
T ss_dssp             GGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSCHHHHHHHHHHHHHHCCGG-GHHHHHHHTT---CSS
T ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHHhCCccHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHH-HHHHHHHHHc---CCC
Confidence            333444444555666666667777777777555555566566666666666666777776643 4444444443   356


Q ss_pred             cchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCCCCeehHHHHHHHHHcC
Q 041741          120 HITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKT  199 (748)
Q Consensus       120 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~  199 (748)
                      ...-...+.++.+.++.+....+...+    -.++..+-...+.++...|..+....+.+.+..++...-...+.++.+.
T Consensus        95 ~~vr~~a~~aL~~~~~~~~~~~L~~~l----~d~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~  170 (211)
T 3ltm_A           95 GWVRQSAAVALGQIGDERAVEPLIKAL----KDEDWFVRIAAAFALGEIGDERAVEPLIKALKDEDGWVRQSAADALGEI  170 (211)
T ss_dssp             HHHHHHHHHHHHHHCCGGGHHHHHHHT----TCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHH----hCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            566666777777777654444433322    2467777777888888888766555555555567776666777777777


Q ss_pred             CCHHHHHHHHHHHHHc
Q 041741          200 DRVVEALEMFRLMIRK  215 (748)
Q Consensus       200 g~~~~a~~~~~~m~~~  215 (748)
                      +. .++...+..+.+.
T Consensus       171 ~~-~~~~~~L~~~l~d  185 (211)
T 3ltm_A          171 GG-ERVRAAMEKLAET  185 (211)
T ss_dssp             CS-HHHHHHHHHHHHH
T ss_pred             Cc-hhHHHHHHHHHhC
Confidence            76 4566666666654

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=81.75  E-value=10  Score=27.88  Aligned_cols=79  Identities=10%  Similarity=-0.071  Sum_probs=57.1

Q ss_pred             cCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCCCCeehHHHHHHHHHcCCCHHHHHHHHHHHH
Q 041741          134 LDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMI  213 (748)
Q Consensus       134 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  213 (748)
                      ...++|.-+-+.+...+.  ...+--.-+..+...|+|++|..+.+...-||...|-.+..  .+.|-.+++..-+..+-
T Consensus        20 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la   95 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLG   95 (115)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHH
Confidence            345666666666666554  33333334455678999999999999999999999987765  46888888888887777


Q ss_pred             HcC
Q 041741          214 RKA  216 (748)
Q Consensus       214 ~~g  216 (748)
                      .+|
T Consensus        96 ~sg   98 (115)
T 2uwj_G           96 GSS   98 (115)
T ss_dssp             TCS
T ss_pred             hCC
Confidence            664

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=80.50  E-value=11  Score=27.80  Aligned_cols=79  Identities=13%  Similarity=-0.029  Sum_probs=55.4

Q ss_pred             cCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCCCCCeehHHHHHHHHHcCCCHHHHHHHHHHHH
Q 041741          134 LDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMSEPNEVTFTAMMSGLAKTDRVVEALEMFRLMI  213 (748)
Q Consensus       134 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  213 (748)
                      ...++|.-+-+.+...+.  ...+--.-+..+...|+|++|..+.+...-||...|-.+..  .+.|-.+++..-+..+-
T Consensus        21 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la   96 (116)
T 2p58_C           21 HYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLA   96 (116)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHH
Confidence            345666666666666554  33333334455678999999999999999999999988765  45777777777776766


Q ss_pred             HcC
Q 041741          214 RKA  216 (748)
Q Consensus       214 ~~g  216 (748)
                      .+|
T Consensus        97 ~sg   99 (116)
T 2p58_C           97 RSQ   99 (116)
T ss_dssp             TCC
T ss_pred             hCC
Confidence            554

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=80.36  E-value=40  Score=31.88  Aligned_cols=109  Identities=14%  Similarity=0.086  Sum_probs=62.7

Q ss_pred             HHHHHHhcCCHHHHHHHhccCCCCCcchHHHHHHHHHccCCHHHHHHH----HHHHHHcCCCCCHhhHHHHHHHhhccCC
Q 041741          344 MLVACVRSGDIKTGREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKL----FREMQFRGVKPDRTTLAIILSSCAAMGI  419 (748)
Q Consensus       344 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~----~~~m~~~g~~p~~~~~~~ll~~~~~~~~  419 (748)
                      +..-|.+.+++++|.+++-.           -...+.+.|+...+-++    ++-+.+.++++|......++..+.....
T Consensus        41 i~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~  109 (336)
T 3lpz_A           41 VAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQP  109 (336)
T ss_dssp             HHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCT
T ss_pred             HHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Confidence            33345555666666555322           12234455665544443    4556667788888777777776665543


Q ss_pred             hH-HHHHHHHHH----Hhhc--CCchhHHHHHHHHHHHhcCChHHHHHHHh
Q 041741          420 LE-SGKQVHAAS----LKTA--SHIDNYVASGLIGIYSKCQRNELAERVFH  463 (748)
Q Consensus       420 ~~-~a~~~~~~~----~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  463 (748)
                      -+ .-..+...+    .+.|  ..-++.+...+...|.+.+++.+|+.-|-
T Consensus       110 ~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i  160 (336)
T 3lpz_A          110 GEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV  160 (336)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Confidence            21 112222222    2233  33467777888888888888888888774

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	748
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	1e-07
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	8e-07
d1zbpa1	264	e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {V	0.002

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.0 bits (123), Expect = 1e-07
 Identities = 53/357 (14%), Positives = 115/357 (32%), Gaps = 17/357 (4%)

Query: 379 YSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSC-AAMGILESGKQVHAASLKTASHI 437
             Q+ + + A +   ++     +PD T + ++LSS       L+        ++K   + 
Sbjct: 9   EYQAGDFEAAERHCMQL--WRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQ--NP 64

Query: 438 DNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMR 497
               A   +G   K +         +R        +      L+   +         Q  
Sbjct: 65  LLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAY 124

Query: 498 QNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYV--NDIFVGSALIEMYCKCGD 555
            + +      +         L +  +  +  A   K      N     S L  ++   G+
Sbjct: 125 VSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGE 184

Query: 556 IYGARQFFDM---MHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAI 612
           I+ A   F+    +       +  + +   +    D AV  Y   ++       +    +
Sbjct: 185 IWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHG-NL 243

Query: 613 LTACSHSGLVDVGVEIFN-SMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDE--MP 669
                  GL+D+ ++ +  +++L        D Y  + + L   G   EAE   +     
Sbjct: 244 ACVYYEQGLIDLAIDTYRRAIELQPH---FPDAYCNLANALKEKGSVAEAEDCYNTALRL 300

Query: 670 CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDD 726
           C         L +  R   N+  A R   +   + P+ +A +S LA++    G+  +
Sbjct: 301 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQE 357

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.7 bits (117), Expect = 8e-07
 Identities = 40/361 (11%), Positives = 79/361 (21%), Gaps = 11/361 (3%)

Query: 368 SVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVH 427
           +      + S + Q      +             P        L +             H
Sbjct: 32  NTGVLLLLSSIHFQCRRLDRSAHFSTLAI--KQNPLLAEAYSNLGNVYKERGQLQEAIEH 89

Query: 428 AASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDI 487
                            L          E A + +    + +   +       +L     
Sbjct: 90  YRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALG 149

Query: 488 EAFMFFKQMRQN-EMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSAL 546
                     +  E  P      + L               H +       N +     L
Sbjct: 150 RLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINL 209

Query: 547 IEMYCKCGDIYGARQFFDMMHGKNTV---TWNEMIHGYAQNGYGDEAVRLYKDMIASGVK 603
             +  +      A   +      +         +   Y + G  D A+  Y+  I   ++
Sbjct: 210 GNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE--LQ 267

Query: 604 PDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEM 663
           P        L A +      V                  D    + +     G+  EA  
Sbjct: 268 PHFPDAYCNL-ANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVR 326

Query: 664 LIDEM--PCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSL 721
           L  +      +       L S  +    ++ A    +E  R+ P  +  YS + N    +
Sbjct: 327 LYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEM 386

Query: 722 G 722
            
Sbjct: 387 Q 387

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]} Length = 264

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

 Score = 38.1 bits (88), Expect = 0.002
 Identities = 12/53 (22%), Positives = 20/53 (37%), Gaps = 4/53 (7%)

Query: 693 AKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIVKDPAY 745
           A     E  +  PK+++  S    +    G ++  RA  +L     I   P Y
Sbjct: 15  ALELLIEAIKASPKDASLRSSFIELLCIDGDFE--RADEQL--MQSIKLFPEY 63

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	748
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.89
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.87
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.57
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.5
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.13
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.05
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.02
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.97
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.96
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.95
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.9
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.88
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.81
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.81
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.78
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.76
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.71
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.66
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.62
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.62
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.61
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.58
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.58
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.52
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.46
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.44
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.38
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.32
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.3
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.27
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.25
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.24
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.18
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.12
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.1
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.04
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.01
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.97
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.94
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.92
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.91
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.85
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.85
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.85
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.79
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.76
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.69
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.62
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.6
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.52
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.27
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.27
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.2
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	97.15
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.91
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.08
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.69
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.4
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.18
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.73
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.24
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	93.84
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	80.15
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	80.06

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=5.4e-20  Score=186.05  Aligned_cols=374  Identities=11%  Similarity=0.013  Sum_probs=257.6

Q ss_pred             HHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhccCCC---CCcchHHHHHHHHHccCCHHH
Q 041741          311 AGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDSMPS---PSVSSWNAMLSSYSQSENHKE  387 (748)
Q Consensus       311 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~  387 (748)
                      ..+.+.|++++|++.++++.+.. +-+...+..+..++...|++++|...|+...+   .+..++..+...+.+.|++++
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~   85 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccccc
Confidence            44556677777777777766542 12344555555566666666666666665543   234456666677777777777


Q ss_pred             HHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHHHHHhhCCC
Q 041741          388 AIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAERVFHRIPE  467 (748)
Q Consensus       388 a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  467 (748)
                      |+..+....+.. ..+..............+................                                .
T Consensus        86 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------------------~  132 (388)
T d1w3ba_          86 AIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN--------------------------------P  132 (388)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC--------------------------------T
T ss_pred             cccccccccccc-cccccccccccccccccccccccccccccccccc--------------------------------c
Confidence            777777766642 1222222222222222222222222222222211                                1


Q ss_pred             CCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHH
Q 041741          468 LDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALI  547 (748)
Q Consensus       468 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  547 (748)
                      ................+....+...+....... +.+...+..+...+...|+++.|...+....+.. +.+...+..+.
T Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~  210 (388)
T d1w3ba_         133 DLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLG  210 (388)
T ss_dssp             TCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccccccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHh
Confidence            122233334444455556666666666555442 3345566667777778888888888887777654 33566777888


Q ss_pred             HHHHhcCCHHHHHHHhhhcC---CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHH
Q 041741          548 EMYCKCGDIYGARQFFDMMH---GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDV  624 (748)
Q Consensus       548 ~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~  624 (748)
                      ..+...|++++|...++...   ..+...+..+...+...|++++|+..|+++.+.. +-+..++..+...+...|++++
T Consensus       211 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~  289 (388)
T d1w3ba_         211 NVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAE  289 (388)
T ss_dssp             HHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHH
T ss_pred             hhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            88888899999988888755   3566778888899999999999999999999853 3445678888999999999999


Q ss_pred             HHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 041741          625 GVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFR  702 (748)
Q Consensus       625 A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  702 (748)
                      |+..++....  ..+.+...+..++.++...|++++|...+++.. ..| ++..+..++..+...|++++|...++++++
T Consensus       290 A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         290 AEDCYNTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHHHHhhhc--cCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999998743  234556778889999999999999999998875 344 577888899999999999999999999999


Q ss_pred             cCCCCCcchHHHhHHHhhcCC
Q 041741          703 LDPKNSAPYSLLANIYSSLGR  723 (748)
Q Consensus       703 ~~p~~~~~~~~l~~~~~~~g~  723 (748)
                      ++|+++.++..||.+|.+.||
T Consensus       368 l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         368 ISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TCTTCHHHHHHHHHHHHHTCC
T ss_pred             hCCCCHHHHHHHHHHHHHcCC
Confidence            999999999999999998886

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.87  E-value=2.1e-19  Score=181.70  Aligned_cols=353  Identities=15%  Similarity=0.098  Sum_probs=267.3

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHcCCCC-CHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCC
Q 041741          376 LSSYSQSENHKEAIKLFREMQFRGVKP-DRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQR  454 (748)
Q Consensus       376 l~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  454 (748)
                      ...+.+.|++++|++.++++.+.  .| ++..+..+...+...|++++|...++.+++..+. +...+..+..+|...|+
T Consensus         6 a~~~~~~G~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           6 AHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-LAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHhhhhcc
Confidence            34455667777777777776654  23 3455555566666777777777777777665543 44566677777777788


Q ss_pred             hHHHHHHHhhCCCC---CcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHH
Q 041741          455 NELAERVFHRIPEL---DIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQI  531 (748)
Q Consensus       455 ~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  531 (748)
                      +++|...+....+.   +..............+....+............ ................+....+...+...
T Consensus        83 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccccccchhhhhHHHHHHh
Confidence            88777777766532   223333444444455555555555555544432 23333444455556667777777777766


Q ss_pred             HHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHH
Q 041741          532 EKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDIT  608 (748)
Q Consensus       532 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  608 (748)
                      .... +.....+..+...+...|++++|...++...+   .+...|..+...+...|++++|+..+++....+ +.+...
T Consensus       162 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  239 (388)
T d1w3ba_         162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVV  239 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHH
T ss_pred             hccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHH
Confidence            6654 34567778888999999999999999987653   467789999999999999999999999999874 556677


Q ss_pred             HHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHH
Q 041741          609 FVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCR  685 (748)
Q Consensus       609 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  685 (748)
                      +..+...+...|++++|+..|+++.   ...|+ ...+..++.++...|++++|.+.++...  .+.++..+..+...+.
T Consensus       240 ~~~l~~~~~~~~~~~~A~~~~~~al---~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  316 (388)
T d1w3ba_         240 HGNLACVYYEQGLIDLAIDTYRRAI---ELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKR  316 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH---HTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHH
Confidence            8889999999999999999999885   23454 6778899999999999999999998875  5567888889999999


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          686 LHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       686 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      ..|++++|...++++++.+|+++.++..+|.+|...|++++|...|+++.+.
T Consensus       317 ~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  368 (388)
T d1w3ba_         317 EQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             TTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999987653

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=4.9e-14  Score=137.48  Aligned_cols=225  Identities=10%  Similarity=-0.050  Sum_probs=121.5

Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcC
Q 041741          475 SMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCG  554 (748)
Q Consensus       475 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  554 (748)
                      .....+.+.|++++|+..|++..+.. +-+..++..+..++...|+++.|...+....+.. +-+...+..+..+|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            45566778888888888888888663 2245566677777777777777777777766654 234556666666677777


Q ss_pred             CHHHHHHHhhhcCC--CCHH----------------HHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHh
Q 041741          555 DIYGARQFFDMMHG--KNTV----------------TWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTAC  616 (748)
Q Consensus       555 ~~~~A~~~~~~~~~--~~~~----------------~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  616 (748)
                      ++++|.+.++....  |+..                .....+..+...+                               
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------------------  150 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDS-------------------------------  150 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHH-------------------------------
T ss_pred             cccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhh-------------------------------
Confidence            77777766665432  1100                0001111122223                               


Q ss_pred             cCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHH
Q 041741          617 SHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAK  694 (748)
Q Consensus       617 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~  694 (748)
                          .+.+|...+.+........++...+..++.++...|++++|...+++..  .+.++..|..++..+...|++++|.
T Consensus       151 ----~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~  226 (323)
T d1fcha_         151 ----LFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAV  226 (323)
T ss_dssp             ----HHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ----HHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHH
Confidence                3344444444443222222233444445555555555555555555442  2223444555555555555555555


Q ss_pred             HHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          695 RAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       695 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      +.++++++++|+++.++..+|.+|...|++++|+..|+++.+
T Consensus       227 ~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         227 AAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            555555555555555555555555555555555555555443

>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=99.50  E-value=8.7e-13  Score=128.39  Aligned_cols=250  Identities=14%  Similarity=0.003  Sum_probs=174.3

Q ss_pred             HHHHHHHhcCChHHHHHHHhhCCCC---CcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCC
Q 041741          444 GLIGIYSKCQRNELAERVFHRIPEL---DIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSS  520 (748)
Q Consensus       444 ~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~  520 (748)
                      .....+.+.|++++|...|+++.+.   ++.+|..+..++...|++++|...|.+..+.. +-+...+..+...+...|+
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccc
Confidence            4567788999999999999998753   45578889999999999999999999988753 3356778888899999999


Q ss_pred             chhHHHHHHHHHHhCCCCch-HHHH-------------HHHHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCC
Q 041741          521 SFQGRQVHAQIEKDGYVNDI-FVGS-------------ALIEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGY  586 (748)
Q Consensus       521 ~~~a~~~~~~~~~~~~~~~~-~~~~-------------~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~  586 (748)
                      ++.|...+............ ....             ..+..+...+.+.+                            
T Consensus       103 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------  154 (323)
T d1fcha_         103 QRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLE----------------------------  154 (323)
T ss_dssp             HHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHH----------------------------
T ss_pred             ccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHH----------------------------
Confidence            99999999998775322110 0000             00001111111222                            


Q ss_pred             hhHHHHHHHHHHHcC-CCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHH
Q 041741          587 GDEAVRLYKDMIASG-VKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEML  664 (748)
Q Consensus       587 ~~~a~~~~~~m~~~~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~  664 (748)
                         +.+.+++..+.. -.++...+..+...+...|++++|+..+++....   .|+ ...+..++.+|...|++++|.+.
T Consensus       155 ---a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~  228 (323)
T d1fcha_         155 ---VKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGNQSEEAVAA  228 (323)
T ss_dssp             ---HHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ---HHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccc---ccccccchhhhhhcccccccchhHHHH
Confidence               333444444321 1234556667777777888888888888877422   333 56677888888888888888888


Q ss_pred             HhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcch-----------HHHhHHHhhcCChHHHH
Q 041741          665 IDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPY-----------SLLANIYSSLGRWDDLR  728 (748)
Q Consensus       665 ~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~-----------~~l~~~~~~~g~~~~A~  728 (748)
                      +++..  .+.++..+..++..+...|++++|+..++++++++|+++.+.           ..+..++...|+.+.+.
T Consensus       229 ~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         229 YRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            88764  334577888899999999999999999999999999876653           44555666666665444

>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=99.13  E-value=3.7e-09  Score=103.93  Aligned_cols=226  Identities=12%  Similarity=-0.028  Sum_probs=115.3

Q ss_pred             HHHHhhcCCCCchhHHHHHHHHHHhC----CCC-chHHHHHHHHHHHhcCCHHHHHHHhhhcCC-------C----CHHH
Q 041741          510 TVLSSCAKLSSSFQGRQVHAQIEKDG----YVN-DIFVGSALIEMYCKCGDIYGARQFFDMMHG-------K----NTVT  573 (748)
Q Consensus       510 ~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~----~~~~  573 (748)
                      .+...+...|+++.|...+....+..    ..+ ....+..+...+...|++..+...+.....       +    ....
T Consensus        56 ~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~  135 (366)
T d1hz4a_          56 VLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFL  135 (366)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHH
Confidence            34444445555555555554443321    000 122333444555556666665555544321       1    1123


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCC----CCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-----hhH
Q 041741          574 WNEMIHGYAQNGYGDEAVRLYKDMIASGVK----PDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-----LDH  644 (748)
Q Consensus       574 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~----p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-----~~~  644 (748)
                      +..+...+...|+++.+...++........    .....+......+...++...+...+............     ...
T Consensus       136 ~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~  215 (366)
T d1hz4a_         136 VRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNA  215 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHH
T ss_pred             HHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHH
Confidence            444555666666666666666665553211    11233444445555566666666665554322211111     122


Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCC-CCC-----CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhc------CCCCCcchH
Q 041741          645 YTCMIDCLGRAGHFHEAEMLIDEMP-CKD-----DPVIWEVLLSSCRLHANVRLAKRAAEELFRL------DPKNSAPYS  712 (748)
Q Consensus       645 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~p~~~~~~~  712 (748)
                      +..++..+...|++++|...+++.. ..|     ....+..+...+...|++++|...+++++..      .|..+.++.
T Consensus       216 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  295 (366)
T d1hz4a_         216 NKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLL  295 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHH
Confidence            3445556666677777777666653 111     1223444555666667777777777766642      333445666


Q ss_pred             HHhHHHhhcCChHHHHHHHHHHH
Q 041741          713 LLANIYSSLGRWDDLRAVRELMS  735 (748)
Q Consensus       713 ~l~~~~~~~g~~~~A~~~~~~~~  735 (748)
                      .++.+|...|++++|.+.+++..
T Consensus       296 ~la~~~~~~g~~~~A~~~l~~Al  318 (366)
T d1hz4a_         296 LLNQLYWQAGRKSDAQRVLLDAL  318 (366)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHH
Confidence            67777777777777777766654

>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=99.05  E-value=1.7e-09  Score=103.12  Aligned_cols=224  Identities=9%  Similarity=0.052  Sum_probs=168.0

Q ss_pred             HHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcC-CHHHHHHHhhhcCC---CCHHHHHHHHHHH
Q 041741          506 FSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCG-DIYGARQFFDMMHG---KNTVTWNEMIHGY  581 (748)
Q Consensus       506 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~l~~~~  581 (748)
                      ..++.+...+.+.+..++|...++.+.+.. |-+...|+....++...| ++++|...++.+.+   .+..+|..+...+
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHH
Confidence            455666667778889999999999998875 446777888888888766 48999999887653   5778899999999


Q ss_pred             HHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCC---
Q 041741          582 AQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGH---  657 (748)
Q Consensus       582 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~---  657 (748)
                      ...|++++|+..++++.+.. +-+...|..+...+...|++++|+..++++.   .+.|+ ...|..++.++.+.+.   
T Consensus       123 ~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al---~~~p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLL---KEDVRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHH---HHCTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHH---HHCCccHHHHHHHHHHHHHccccch
Confidence            99999999999999999863 4456788899999999999999999999885   33454 5667777777766665   


Q ss_pred             ---hHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc--chHHHhHHHhhc--CChHHHH
Q 041741          658 ---FHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSA--PYSLLANIYSSL--GRWDDLR  728 (748)
Q Consensus       658 ---~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~--~~~~l~~~~~~~--g~~~~A~  728 (748)
                         +++|...+.+..  .+.++..|..+...+.. ...+++...++.++++.|+...  .+..++.+|...  ++.+.+.
T Consensus       199 ~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~  277 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKE  277 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             hhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHH
Confidence               467887777664  34467777777666554 3467788888888888886443  456677776544  6667777


Q ss_pred             HHHHHHH
Q 041741          729 AVRELMS  735 (748)
Q Consensus       729 ~~~~~~~  735 (748)
                      ..+++..
T Consensus       278 ~~~~ka~  284 (315)
T d2h6fa1         278 DILNKAL  284 (315)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7777654

>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=99.02  E-value=6.3e-09  Score=99.13  Aligned_cols=225  Identities=10%  Similarity=0.059  Sum_probs=162.6

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCC-CchhHHHHHHHHHHhCCCCchHHHHHHHHHH
Q 041741          472 CWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLS-SSFQGRQVHAQIEKDGYVNDIFVGSALIEMY  550 (748)
Q Consensus       472 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  550 (748)
                      .++.+...+.+.+..++|+..+++++... +-+...|.....++...| ++++|...++...+.. +-+..+|..+..++
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHH
Confidence            46667778888999999999999999763 335556777777777665 5899999999988875 44788889999999


Q ss_pred             HhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCC------C
Q 041741          551 CKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSG------L  621 (748)
Q Consensus       551 ~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~------~  621 (748)
                      .+.|++++|.+.++++.+   .+...|..++..+...|++++|+..++++++.+ +-+...|+.+...+...+      .
T Consensus       123 ~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~~~  201 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAV  201 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             HhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchhhh
Confidence            999999999999998774   578899999999999999999999999999964 345567776665544433      4


Q ss_pred             hHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC----CCCCHhHHHHHHHHHHh--cCCHHHHH
Q 041741          622 VDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP----CKDDPVIWEVLLSSCRL--HANVRLAK  694 (748)
Q Consensus       622 ~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~~l~~~~~~--~~~~~~a~  694 (748)
                      +++|+..+.++.   ...|+ ...+..+...+... ..+++...++...    ...++..+..++..+..  .++.+.+.
T Consensus       202 ~~~ai~~~~~al---~~~P~~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~  277 (315)
T d2h6fa1         202 LEREVQYTLEMI---KLVPHNESAWNYLKGILQDR-GLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKE  277 (315)
T ss_dssp             HHHHHHHHHHHH---HHSTTCHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             hHHhHHHHHHHH---HhCCCchHHHHHHHHHHHhc-ChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHH
Confidence            678888888774   33454 55666666665544 4566666665542    22345555555555432  34555666


Q ss_pred             HHHHHHHhc
Q 041741          695 RAAEELFRL  703 (748)
Q Consensus       695 ~~~~~~~~~  703 (748)
                      ..+++++++
T Consensus       278 ~~~~ka~~l  286 (315)
T d2h6fa1         278 DILNKALEL  286 (315)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666666654

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.97  E-value=1.6e-09  Score=100.90  Aligned_cols=114  Identities=11%  Similarity=-0.098  Sum_probs=64.2

Q ss_pred             chHHHHHHHHHHHCCCCC---CHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHH
Q 041741          486 DIEAFMFFKQMRQNEMYP---TQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQF  562 (748)
Q Consensus       486 ~~~a~~~~~~m~~~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  562 (748)
                      .+.++..+++........   ...++..+...+.+.|+++.|...|+...+.. +-++.++..+..+|.+.|++++|.+.
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            355666666665432111   11244444555666666666666666666543 23455566666666666666666666


Q ss_pred             hhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 041741          563 FDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS  600 (748)
Q Consensus       563 ~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  600 (748)
                      |+++.+   .+..++..++.++...|++++|...+++..+.
T Consensus        94 ~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~  134 (259)
T d1xnfa_          94 FDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD  134 (259)
T ss_dssp             HHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            665542   23445556666666666666666666666654

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.96  E-value=5.7e-09  Score=96.98  Aligned_cols=196  Identities=15%  Similarity=0.047  Sum_probs=128.3

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHh
Q 041741          540 IFVGSALIEMYCKCGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTAC  616 (748)
Q Consensus       540 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~  616 (748)
                      ..++..+..+|.+.|++++|.+.|++..+   .++.+|..++.++...|++++|+..|+++.+.. +-+..++..+..++
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~  115 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIAL  115 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHH
Confidence            34666777888888888888888887653   467788888888888888888888888888853 33445777788888


Q ss_pred             cCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCCCHhHHHHHHHHHH----hcCCHH
Q 041741          617 SHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKDDPVIWEVLLSSCR----LHANVR  691 (748)
Q Consensus       617 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~----~~~~~~  691 (748)
                      ...|++++|+..+++.....  +.+......+...+.+.+..+.+..+..... ..+....+. ++..+.    ..+..+
T Consensus       116 ~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  192 (259)
T d1xnfa_         116 YYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWN-IVEFYLGNISEQTLME  192 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHH-HHHHHTTSSCHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHhhc--cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhh-HHHHHHHHHHHHHHHH
Confidence            88888888888888875321  2233334444555555555555444443332 122222221 122221    223345


Q ss_pred             HHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          692 LAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       692 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      .+...+.......|+.+.++..+|.+|...|++++|...|++..+..+
T Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  240 (259)
T d1xnfa_         193 RLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  240 (259)
T ss_dssp             HHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            555555555566676677788888888888888888888888765443

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.95  E-value=2e-08  Score=98.43  Aligned_cols=258  Identities=9%  Similarity=-0.020  Sum_probs=158.5

Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHHHHC----CCCC-CHHHHHHHHHhhcCCCCchhHHHHHHHHHHh----CCCC---ch
Q 041741          473 WNSMIAGLSLNSLDIEAFMFFKQMRQN----EMYP-TQFSFATVLSSCAKLSSSFQGRQVHAQIEKD----GYVN---DI  540 (748)
Q Consensus       473 ~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~---~~  540 (748)
                      +..+...+...|++++|+..|++....    +..+ ...++..+...+...|++..+...+......    +...   ..
T Consensus        54 ~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~  133 (366)
T d1hz4a_          54 TSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHE  133 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHH
Confidence            334445555556666666655554431    1011 1123344455566666777766666654432    1111   12


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHhhhcCC--------CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcC--CCCCH----
Q 041741          541 FVGSALIEMYCKCGDIYGARQFFDMMHG--------KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASG--VKPDD----  606 (748)
Q Consensus       541 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--~~p~~----  606 (748)
                      ..+..+...+...|+++.+...+.....        .....+..+...+...+++..+...+.+.....  .....    
T Consensus       134 ~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~  213 (366)
T d1hz4a_         134 FLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWIS  213 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHH
T ss_pred             HHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHH
Confidence            3445566777788888888887776542        133455566677778888888888877665421  11111    


Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC--hhHHHHHHHHHHhcCChHHHHHHHhhCC-------CCCC-HhH
Q 041741          607 ITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI--LDHYTCMIDCLGRAGHFHEAEMLIDEMP-------CKDD-PVI  676 (748)
Q Consensus       607 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~-~~~  676 (748)
                      ..+..+...+...|+++.|...++.........+.  ...+..++.++...|++++|...+++..       ..|+ ...
T Consensus       214 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  293 (366)
T d1hz4a_         214 NANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRN  293 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHH
Confidence            23555666778889999999998877422111111  3345567889999999999999888763       2222 345


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCc---------chHHHhHHHhhcCChHHHHHH
Q 041741          677 WEVLLSSCRLHANVRLAKRAAEELFRLDPKNSA---------PYSLLANIYSSLGRWDDLRAV  730 (748)
Q Consensus       677 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~---------~~~~l~~~~~~~g~~~~A~~~  730 (748)
                      +..+...+...|++++|.+.+++++++.+....         .+..+...+...|+.+++.+.
T Consensus       294 ~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~~  356 (366)
T d1hz4a_         294 LLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQH  356 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHHH
Confidence            667778899999999999999999987553222         234445556666777777653

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.90  E-value=7.2e-08  Score=91.68  Aligned_cols=182  Identities=9%  Similarity=0.062  Sum_probs=79.8

Q ss_pred             hHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcCC--C-C-HHHHHHHHHHHHHcCChhHHHHHHHHHH
Q 041741          523 QGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMHG--K-N-TVTWNEMIHGYAQNGYGDEAVRLYKDMI  598 (748)
Q Consensus       523 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~  598 (748)
                      .+..+++...+...+.+...+...+....+.|+++.|..+|+.+.+  | + ...|...+..+.+.|+++.|.++|++++
T Consensus        82 ~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al  161 (308)
T d2onda1          82 EAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAR  161 (308)
T ss_dssp             HHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            3444444444333333444444445555555555555555554332  1 1 2234445555555555555555555555


Q ss_pred             HcCCCCCHHHHHHHHH-HhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC----CCC-
Q 041741          599 ASGVKPDDITFVAILT-ACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP----CKD-  672 (748)
Q Consensus       599 ~~~~~p~~~~~~~l~~-~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~-  672 (748)
                      +.+ +.+...|..... -+...|+.+.|..+|+.+....  +.+...+...++.+.+.|++++|..+|++..    .+| 
T Consensus       162 ~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~  238 (308)
T d2onda1         162 EDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             TST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             HhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChH
Confidence            432 122222222221 1223344555555555543221  2223444455555555555555555555432    111 


Q ss_pred             -CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 041741          673 -DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKN  707 (748)
Q Consensus       673 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  707 (748)
                       ....|...+..-...|+.+.+..+++++.+..|++
T Consensus       239 ~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~  274 (308)
T d2onda1         239 KSGEIWARFLAFESNIGDLASILKVEKRRFTAFREE  274 (308)
T ss_dssp             GCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCccc
Confidence             12244444444444555555555555555555544

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.88  E-value=2e-09  Score=104.39  Aligned_cols=230  Identities=9%  Similarity=-0.077  Sum_probs=162.6

Q ss_pred             CCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcC--CCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHH
Q 041741          483 NSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAK--LSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGAR  560 (748)
Q Consensus       483 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  560 (748)
                      .|++++|+..++...+.. +-+...+..+..++..  .++++.+...+..+.+.........+......+...+.+++|.
T Consensus        86 ~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al  164 (334)
T d1dcea1          86 AALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEEL  164 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHH
Confidence            344677888888877653 3344555555544444  4457888888888887753333333344556777889999999


Q ss_pred             HHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhC
Q 041741          561 QFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHG  637 (748)
Q Consensus       561 ~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  637 (748)
                      ..++.+.+   .+...|+.+..++...|++++|...+++..+.  .|+..   .+...+...+..+++...+......  
T Consensus       165 ~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~---~~~~~~~~l~~~~~a~~~~~~~l~~--  237 (334)
T d1dcea1         165 AFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKEL---ELVQNAFFTDPNDQSAWFYHRWLLG--  237 (334)
T ss_dssp             HHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHHH---HHHHHHHHHCSSCSHHHHHHHHHHS--
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHHH---HHHHHHHHhcchhHHHHHHHHHHHh--
Confidence            99998775   46778999999999999998887766655542  23222   1222334455666777777766422  


Q ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHh
Q 041741          638 VEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLA  715 (748)
Q Consensus       638 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  715 (748)
                      -+++...+..++..+...|+.++|...+.+.. ..| +...+..++..+...|++++|...++++++++|.++..+..|+
T Consensus       238 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L~  317 (334)
T d1dcea1         238 RAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLR  317 (334)
T ss_dssp             CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             CcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHHH
Confidence            22334445567788888899999999988775 334 4567778888899999999999999999999998888888888


Q ss_pred             HHHhh
Q 041741          716 NIYSS  720 (748)
Q Consensus       716 ~~~~~  720 (748)
                      ..+.-
T Consensus       318 ~~~~~  322 (334)
T d1dcea1         318 SKFLL  322 (334)
T ss_dssp             HHHHH
T ss_pred             HHHhH
Confidence            87764

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.81  E-value=3.9e-09  Score=102.31  Aligned_cols=245  Identities=7%  Similarity=-0.104  Sum_probs=166.0

Q ss_pred             CCCchHHHHHHHHHHHCCCCCCHHH-HH---HHHHhhcC-------CCCchhHHHHHHHHHHhCCCCchHHHHHHHHHHH
Q 041741          483 NSLDIEAFMFFKQMRQNEMYPTQFS-FA---TVLSSCAK-------LSSSFQGRQVHAQIEKDGYVNDIFVGSALIEMYC  551 (748)
Q Consensus       483 ~~~~~~a~~~~~~m~~~~~~p~~~~-~~---~l~~~~~~-------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  551 (748)
                      .+..++|+++++.....  .|+..+ |+   .++.....       .|.++.+..+++.+.+.. +-+...+..+..++.
T Consensus        42 ~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~  118 (334)
T d1dcea1          42 GELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLS  118 (334)
T ss_dssp             TCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHH
Confidence            33447888888887754  454432 22   22222222       234566777777776654 345666666666666


Q ss_pred             hcC--CHHHHHHHhhhcCC---CCHHHHH-HHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHH
Q 041741          552 KCG--DIYGARQFFDMMHG---KNTVTWN-EMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVG  625 (748)
Q Consensus       552 ~~g--~~~~A~~~~~~~~~---~~~~~~~-~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A  625 (748)
                      ..+  ++++|...+..+.+   ++...+. .....+...+.++.|+..++++++.+ +-+...|..+...+...|++++|
T Consensus       119 ~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A  197 (334)
T d1dcea1         119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDS  197 (334)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             HhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHH
Confidence            654  47888888887653   3455554 34466677788888888888888764 34556788888888888888777


Q ss_pred             HHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 041741          626 VEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRL  703 (748)
Q Consensus       626 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  703 (748)
                      ...++.....   .|+   .......+...+..+++...+....  .++....+..++..+...++.++|...+.+++..
T Consensus       198 ~~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  271 (334)
T d1dcea1         198 GPQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKELQELEPE  271 (334)
T ss_dssp             SSCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            6655544211   111   1223344555667777777666553  3334555556667777889999999999999999


Q ss_pred             CCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhc
Q 041741          704 DPKNSAPYSLLANIYSSLGRWDDLRAVRELMSEN  737 (748)
Q Consensus       704 ~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  737 (748)
                      +|.+..++..+|.+|...|++++|.++++++.+-
T Consensus       272 ~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         272 NKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             CHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999998664

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.81  E-value=2.4e-07  Score=87.92  Aligned_cols=181  Identities=9%  Similarity=0.007  Sum_probs=142.3

Q ss_pred             CCHHHHHHHhhhcCC----CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHH
Q 041741          554 GDIYGARQFFDMMHG----KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIF  629 (748)
Q Consensus       554 g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~  629 (748)
                      +..++|..+|++..+    .+...|...+......|+++.|..+++++++.........|...+..+.+.|+.+.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            456778888887543    3566788888899999999999999999998532233457888889899999999999999


Q ss_pred             HHhhhhhCCCCChhHHHHHHHH-HHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041741          630 NSMQLDHGVEPILDHYTCMIDC-LGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPK  706 (748)
Q Consensus       630 ~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  706 (748)
                      +++....  +.+...+...+.. +...|+.+.|..+++.+.  .+.++..|..++..+...|++++|..++++++...|.
T Consensus       158 ~~al~~~--~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKAREDA--RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTST--TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHhC--CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            9985322  2234455555544 344689999999999885  4567889999999999999999999999999998776


Q ss_pred             CCc----chHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          707 NSA----PYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       707 ~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      ++.    .+......-...|+.+.+..+++++.+
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            554    566777777888999999999998866

>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=98.78  E-value=1.2e-08  Score=90.41  Aligned_cols=118  Identities=7%  Similarity=-0.108  Sum_probs=67.5

Q ss_pred             CCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHH
Q 041741          604 PDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLL  681 (748)
Q Consensus       604 p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~  681 (748)
                      |+...+...+..+...|++++|+..|+++...  .+.+...|..++.+|.+.|++++|+..+++.. ..| .+..|..++
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            55555556666666666666666666655322  12234455566666666666666666666554 233 355566666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCC
Q 041741          682 SSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGR  723 (748)
Q Consensus       682 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  723 (748)
                      .++...|++++|...++++++++|++...+...+..+...++
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~l~~~~  121 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAK  121 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            666666666666666666666666555555444444444433

>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=98.76  E-value=2.3e-08  Score=78.79  Aligned_cols=89  Identities=15%  Similarity=0.085  Sum_probs=59.2

Q ss_pred             HHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChH
Q 041741          648 MIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWD  725 (748)
Q Consensus       648 l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  725 (748)
                      -+..+.+.|++++|+..|++..  .+.++..|..++.++...|++++|+..++++++++|+++.++..++.++...|+++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHH
Confidence            4556666667777766666653  34456666666666666777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHHh
Q 041741          726 DLRAVRELMSE  736 (748)
Q Consensus       726 ~A~~~~~~~~~  736 (748)
                      +|+..|++..+
T Consensus        89 ~A~~~~~~a~~   99 (117)
T d1elwa_          89 EAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHH
Confidence            77777766544

>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=98.71  E-value=1.7e-08  Score=78.80  Aligned_cols=89  Identities=17%  Similarity=0.027  Sum_probs=81.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCC
Q 041741          646 TCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGR  723 (748)
Q Consensus       646 ~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  723 (748)
                      -.++..+.+.|++++|...+++..  .+.++..|..++.++...|++++|+..++++++++|+++.++..++.+|...|+
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCC
Confidence            356788899999999999999985  444688999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHH
Q 041741          724 WDDLRAVRELM  734 (748)
Q Consensus       724 ~~~A~~~~~~~  734 (748)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999975

>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=98.66  E-value=6.1e-08  Score=76.27  Aligned_cols=106  Identities=13%  Similarity=0.003  Sum_probs=87.2

Q ss_pred             HHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCC
Q 041741          612 ILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHAN  689 (748)
Q Consensus       612 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~  689 (748)
                      -...+...|++++|+..|++....  .+.+...|..++.+|...|++++|+..+++..  .+.++..|..++.++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccC
Confidence            356677888999999998888532  23336678888999999999999999988875  45678889999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCcchHHHhHHHh
Q 041741          690 VRLAKRAAEELFRLDPKNSAPYSLLANIYS  719 (748)
Q Consensus       690 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  719 (748)
                      +++|+..++++++++|+++.++..++.+..
T Consensus        87 ~~~A~~~~~~a~~~~p~~~~~~~~l~~l~~  116 (117)
T d1elwa_          87 FEEAKRTYEEGLKHEANNPQLKEGLQNMEA  116 (117)
T ss_dssp             HHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHhC
Confidence            999999999999999999888888776643

>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=98.62  E-value=5.9e-07  Score=77.79  Aligned_cols=141  Identities=9%  Similarity=-0.042  Sum_probs=100.1

Q ss_pred             HHHHHhcCCHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHH
Q 041741          547 IEMYCKCGDIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGV  626 (748)
Q Consensus       547 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~  626 (748)
                      ...+...|+++.|.+.|..+..+++..|..++.+|...|++++|++.|++.++.+ +.+...|..+..++.+.|++++|+
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHH
Confidence            4556778999999999999888888889999999999999999999999999864 445568888889999999999999


Q ss_pred             HHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041741          627 EIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKDD-PVIWEVLLSSCRLHANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       627 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  705 (748)
                      ..|++.....  +++...      .+...|           +..+.. ..++..+...+...|++++|.+.+++++++.|
T Consensus        91 ~~~~kAl~~~--~~n~~~------~~~~~~-----------~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          91 KDLKEALIQL--RGNQLI------DYKILG-----------LQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHHHHHHTT--TTCSEE------ECGGGT-----------BCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHhC--ccCchH------HHHHhh-----------hhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            9988874211  111000      000000           001111 23445566667778888888888888888777


Q ss_pred             CC
Q 041741          706 KN  707 (748)
Q Consensus       706 ~~  707 (748)
                      +.
T Consensus       152 ~~  153 (192)
T d1hh8a_         152 EP  153 (192)
T ss_dssp             SG
T ss_pred             Cc
Confidence            54

>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=98.62  E-value=2.5e-07  Score=80.24  Aligned_cols=122  Identities=12%  Similarity=-0.015  Sum_probs=96.0

Q ss_pred             HHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCH
Q 041741          613 LTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANV  690 (748)
Q Consensus       613 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~  690 (748)
                      ...+...|+++.|++.|+++     .+|+..++..++.+|...|++++|.+.|++..  .+..+..|..++..+...|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i-----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc-----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccH
Confidence            34456778888888888765     24566777888888888888888888888875  445678888888888889999


Q ss_pred             HHHHHHHHHHHhcCCCCCc----------------chHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          691 RLAKRAAEELFRLDPKNSA----------------PYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       691 ~~a~~~~~~~~~~~p~~~~----------------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      ++|...+++++...|.++.                ++..++.+|...|++++|.+.++.+.+..+
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            9999999998887665542                356789999999999999999998765443

>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=98.61  E-value=2.2e-07  Score=78.03  Aligned_cols=118  Identities=10%  Similarity=-0.063  Sum_probs=93.0

Q ss_pred             HHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHh
Q 041741          610 VAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRL  686 (748)
Q Consensus       610 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~  686 (748)
                      ......|.+.|++++|+..|+++...   .|+ ...|..++.+|...|++++|...+++..  .+.+...|..++.++..
T Consensus        14 ~~~gn~~~~~~~y~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~   90 (159)
T d1a17a_          14 KTQANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHhhhcccc---chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHH
Confidence            33455677888888888888888532   344 6778888899999999999999988875  44567888888999999


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCcchHHHhHHH--hhcCChHHHHHH
Q 041741          687 HANVRLAKRAAEELFRLDPKNSAPYSLLANIY--SSLGRWDDLRAV  730 (748)
Q Consensus       687 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~A~~~  730 (748)
                      .|++++|...+++++.++|+++.++..+..+.  ...+.+++|...
T Consensus        91 ~g~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          91 LGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999999999999998888877664  344567777654

>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=98.58  E-value=3e-07  Score=86.33  Aligned_cols=192  Identities=10%  Similarity=-0.023  Sum_probs=127.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHhhhcCC-----CC----HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCC---CCC--HHH
Q 041741          543 GSALIEMYCKCGDIYGARQFFDMMHG-----KN----TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGV---KPD--DIT  608 (748)
Q Consensus       543 ~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~---~p~--~~~  608 (748)
                      |......|...|++++|.+.|.+..+     .+    ..+|..+..+|.+.|++++|++.+++..+...   .+.  ..+
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            33445677788888888888876642     22    34688888999999999999999987665211   111  235


Q ss_pred             HHHHHHHhc-CCCChHHHHHHHHHhhhhhCCCCC----hhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-C-------H
Q 041741          609 FVAILTACS-HSGLVDVGVEIFNSMQLDHGVEPI----LDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-D-------P  674 (748)
Q Consensus       609 ~~~l~~~~~-~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~-------~  674 (748)
                      +..+...|. ..|++++|++.+++.........+    ..++..++.++...|++++|...++++. ..+ .       .
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            666666664 469999999999887432211111    3457788999999999999999998863 111 1       1


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc-----hHHHhHHHhh--cCChHHHHHHHHHH
Q 041741          675 VIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAP-----YSLLANIYSS--LGRWDDLRAVRELM  734 (748)
Q Consensus       675 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~-----~~~l~~~~~~--~g~~~~A~~~~~~~  734 (748)
                      ..+...+..+...|+++.|...++++.+.+|..+..     +..++.++..  .+.+++|+..|+++
T Consensus       200 ~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         200 DYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            223444556677899999999999999999865443     3445555544  34578888887653

>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=1.1e-07  Score=80.01  Aligned_cols=94  Identities=13%  Similarity=0.022  Sum_probs=85.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcC
Q 041741          645 YTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLG  722 (748)
Q Consensus       645 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  722 (748)
                      +...+..|.+.|++++|...|++..  .+.++..|..++..+...|++++|...++++++++|+++.++..+|.+|...|
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcC
Confidence            3446778899999999999999885  45578899999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHhcC
Q 041741          723 RWDDLRAVRELMSENC  738 (748)
Q Consensus       723 ~~~~A~~~~~~~~~~~  738 (748)
                      ++++|...++++.+..
T Consensus        93 ~~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          93 KFRAALRDYETVVKVK  108 (159)
T ss_dssp             CHHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHcC
Confidence            9999999999987644

>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=98.52  E-value=1.5e-07  Score=83.07  Aligned_cols=97  Identities=8%  Similarity=-0.029  Sum_probs=71.4

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHH
Q 041741          569 KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTC  647 (748)
Q Consensus       569 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~  647 (748)
                      |+...+...+..+.+.|++++|+..|+++++.. +.+...|..+..+|...|++++|+..|+++.   .+.|+ ...|..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al---~l~p~~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRAL---ELDGQSVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSCTTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHH---HhCCCcHHHHHH
Confidence            455666677777888888888888888877753 4455677777788888888888888887774   45565 566777


Q ss_pred             HHHHHHhcCChHHHHHHHhhCC
Q 041741          648 MIDCLGRAGHFHEAEMLIDEMP  669 (748)
Q Consensus       648 l~~~~~~~g~~~~A~~~~~~~~  669 (748)
                      ++.+|.+.|++++|...++++.
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHH
Confidence            8888888888888888777653

>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=98.46  E-value=8.3e-07  Score=75.10  Aligned_cols=135  Identities=15%  Similarity=0.088  Sum_probs=99.9

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHH
Q 041741          572 VTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDC  651 (748)
Q Consensus       572 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  651 (748)
                      ..+...+..+.+.|++++|+..|++.++.  .|..            .+..+.-......+.        ..+|..++.+
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~--~~~~------------~~~~~~~~~~~~~~~--------~~~~~nla~~   71 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSW--LEYE------------SSFSNEEAQKAQALR--------LASHLNLAMC   71 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTC------------CCCCSHHHHHHHHHH--------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhc------------cccchHHHhhhchhH--------HHHHHHHHHH
Confidence            34556677888888888888888887763  1110            000011111111110        2346778999


Q ss_pred             HHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHH
Q 041741          652 LGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLR  728 (748)
Q Consensus       652 ~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  728 (748)
                      |.+.|++++|+..+++..  .+.++..+..++.++...|++++|...++++++++|+|+.+...++.+....+...+..
T Consensus        72 y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~e  150 (170)
T d1p5qa1          72 HLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLARE  150 (170)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998885  44478889999999999999999999999999999999999999999988777666544

>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=98.44  E-value=1.3e-06  Score=81.80  Aligned_cols=171  Identities=8%  Similarity=-0.087  Sum_probs=129.7

Q ss_pred             CHHHHHHHhhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHc----CCCCCH-HHHHHHHHHhcCCCChHHHHHHH
Q 041741          555 DIYGARQFFDMMHGKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS----GVKPDD-ITFVAILTACSHSGLVDVGVEIF  629 (748)
Q Consensus       555 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~  629 (748)
                      ++++|.++|.           .....|...|++++|.+.|+++.+.    +-+++. .+|..+..+|...|++++|++.+
T Consensus        32 ~~~~Aa~~y~-----------~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~  100 (290)
T d1qqea_          32 KFEEAADLCV-----------QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (290)
T ss_dssp             HHHHHHHHHH-----------HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHH-----------HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHH
Confidence            4677776654           4578899999999999999998763    212222 57889999999999999999999


Q ss_pred             HHhhhhhCCCCC----hhHHHHHHHHHHh-cCChHHHHHHHhhCC----CCCC----HhHHHHHHHHHHhcCCHHHHHHH
Q 041741          630 NSMQLDHGVEPI----LDHYTCMIDCLGR-AGHFHEAEMLIDEMP----CKDD----PVIWEVLLSSCRLHANVRLAKRA  696 (748)
Q Consensus       630 ~~~~~~~~~~~~----~~~~~~l~~~~~~-~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~~~~~~a~~~  696 (748)
                      ++......-..+    ...+..++..|.. .|++++|.+.+++..    ...+    ..++..++..+...|++++|...
T Consensus       101 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~  180 (290)
T d1qqea_         101 ENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDI  180 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHH
Confidence            987433222222    3456677777755 699999999998763    1111    34567788889999999999999


Q ss_pred             HHHHHhcCCCCCcc-------hHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          697 AEELFRLDPKNSAP-------YSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       697 ~~~~~~~~p~~~~~-------~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      ++++....|+++..       +...+.++...|+++.|...+++..+
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~  227 (290)
T d1qqea_         181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS  227 (290)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            99999999877643       45667778889999999999997544

>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=98.38  E-value=3.1e-07  Score=72.18  Aligned_cols=108  Identities=15%  Similarity=0.008  Sum_probs=78.3

Q ss_pred             HHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCC---hHHHHHHHhhCC-CCCCH---hHHHHHHH
Q 041741          610 VAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGH---FHEAEMLIDEMP-CKDDP---VIWEVLLS  682 (748)
Q Consensus       610 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~-~~~~~---~~~~~l~~  682 (748)
                      ..++..+...+++++|.+.|++....  -+.+..++..++.++.+.++   +++|+.+++++. ..|.+   ..+..++.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            34566677778888888888877422  13346777788888876544   456888888875 33433   35677888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHh
Q 041741          683 SCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYS  719 (748)
Q Consensus       683 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  719 (748)
                      +|...|++++|+..++++++++|++..+...+..+..
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~~  117 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDK  117 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHHHH
Confidence            8999999999999999999999988777766655443

>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=98.32  E-value=4.2e-07  Score=71.42  Aligned_cols=94  Identities=11%  Similarity=-0.070  Sum_probs=79.8

Q ss_pred             HHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcC---CHHHHHHHHHHHHhcCCCCC--cchHHHhHHH
Q 041741          646 TCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHA---NVRLAKRAAEELFRLDPKNS--APYSLLANIY  718 (748)
Q Consensus       646 ~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~p~~~--~~~~~l~~~~  718 (748)
                      ..+++.+...+++++|.+.|++..  .+.++.++..++.++...+   +.++|+..++++++.+|++.  .++..||.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            467888899999999999999885  5667899999999887654   55679999999999988553  4789999999


Q ss_pred             hhcCChHHHHHHHHHHHhcCC
Q 041741          719 SSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       719 ~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      ...|++++|+++|+++.+-.+
T Consensus        83 ~~~g~~~~A~~~~~~aL~~~P  103 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQTEP  103 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHhhhHHHHHHHHHHHHhCc
Confidence            999999999999999876443

>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=98.30  E-value=1e-06  Score=70.40  Aligned_cols=92  Identities=10%  Similarity=0.023  Sum_probs=76.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcch-------HHHh
Q 041741          645 YTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPY-------SLLA  715 (748)
Q Consensus       645 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~-------~~l~  715 (748)
                      +..++..+.+.|++++|+..|++..  .+.++..+..+..++...|++++|...++++++++|+++..+       ..++
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            4567888999999999999998875  455688888999999999999999999999999999887654       4556


Q ss_pred             HHHhhcCChHHHHHHHHHHHh
Q 041741          716 NIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       716 ~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .++...|++++|++.|++...
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHh
Confidence            667788899999999987654

>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=98.27  E-value=4.2e-06  Score=70.54  Aligned_cols=144  Identities=14%  Similarity=0.023  Sum_probs=102.7

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHH
Q 041741          571 TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMID  650 (748)
Q Consensus       571 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  650 (748)
                      ...+...+..+.+.|++.+|+..|++.+..  .|.          . .....+. ......+        ....|..++.
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~--~~~----------~-~~~~~~~-~~~~~~~--------~~~~~~Nla~   72 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSW--LEM----------E-YGLSEKE-SKASESF--------LLAAFLNLAM   72 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTT----------C-CSCCHHH-HHHHHHH--------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--HHH----------h-hccchhh-hhhcchh--------HHHHHHhHHH
Confidence            345566677788888888888888776542  000          0 0000000 0111111        0234667889


Q ss_pred             HHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChH-HH
Q 041741          651 CLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWD-DL  727 (748)
Q Consensus       651 ~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~-~A  727 (748)
                      +|.+.|++++|+..+++..  .+.+...+..++.++...|++++|...++++++++|+++.+...+..+....+... ..
T Consensus        73 ~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~e~~  152 (168)
T d1kt1a1          73 CYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKAKEHNERD  152 (168)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhHHHHH
Confidence            9999999999999999885  45678888899999999999999999999999999999999999999988777654 34


Q ss_pred             HHHHHHHHh
Q 041741          728 RAVRELMSE  736 (748)
Q Consensus       728 ~~~~~~~~~  736 (748)
                      .+.+..|-+
T Consensus       153 kk~~~~~f~  161 (168)
T d1kt1a1         153 RRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            556666644

>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=98.25  E-value=7.2e-05  Score=68.51  Aligned_cols=179  Identities=11%  Similarity=-0.046  Sum_probs=106.9

Q ss_pred             CCHHHHHHHhhhcCC-CCHHHHHHHHHHHHH----cCChhHHHHHHHHHHHcCCCCCHHHHHHHHH--HhcCCCChHHHH
Q 041741          554 GDIYGARQFFDMMHG-KNTVTWNEMIHGYAQ----NGYGDEAVRLYKDMIASGVKPDDITFVAILT--ACSHSGLVDVGV  626 (748)
Q Consensus       554 g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~--~~~~~~~~~~A~  626 (748)
                      .++..|...+..... .++.....+...+..    .++.+.|...++...+.|.. ..........  ..........+.
T Consensus        52 ~d~~~a~~~~~~a~~~~~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~-~a~~~l~~~~~~~~~~~~~~~~a~  130 (265)
T d1ouva_          52 KNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYA-EGCASLGGIYHDGKVVTRDFKKAV  130 (265)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             hhHHHHHHhhcccccccccchhhccccccccccccchhhHHHHHHHhhhhhhhhh-hHHHhhcccccCCCcccchhHHHH
Confidence            355555555554433 233444444444332    34567777777777776532 2211111111  123344556666


Q ss_pred             HHHHHhhhhhCCCCChhHHHHHHHHHHh----cCChHHHHHHHhhCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHH
Q 041741          627 EIFNSMQLDHGVEPILDHYTCMIDCLGR----AGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRL----HANVRLAKRAAE  698 (748)
Q Consensus       627 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~  698 (748)
                      ..+.... .   ..+...+..++..+..    ..+...+..+++......++.....+...+..    ..|+++|...++
T Consensus       131 ~~~~~~~-~---~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~  206 (265)
T d1ouva_         131 EYFTKAC-D---LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYS  206 (265)
T ss_dssp             HHHHHHH-H---TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHH
T ss_pred             HHhhhhh-c---ccccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHh
Confidence            6665542 1   2344556666666664    44566677777666544566666666666554    468999999999


Q ss_pred             HHHhcCCCCCcchHHHhHHHhh----cCChHHHHHHHHHHHhcCC
Q 041741          699 ELFRLDPKNSAPYSLLANIYSS----LGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       699 ~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  739 (748)
                      ++.+.+  ++.++..|+.+|..    ..+.++|.++|++.-..|.
T Consensus       207 ~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         207 KACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             hhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            988764  56788889998875    3488899999988766554

>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=98.24  E-value=1.9e-06  Score=72.84  Aligned_cols=64  Identities=13%  Similarity=-0.018  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          676 IWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       676 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      ++..+..+|...|++++|+..++++++++|+++.++..+|.+|...|++++|+..|++..+..+
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P  127 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP  127 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            4566777889999999999999999999999999999999999999999999999999876543

>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=98.18  E-value=5.1e-06  Score=68.60  Aligned_cols=128  Identities=11%  Similarity=0.018  Sum_probs=85.9

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHH
Q 041741          572 VTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDC  651 (748)
Q Consensus       572 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  651 (748)
                      ..+...+..+.+.|++.+|+..|++++..  .|..           ..............+        ...++..++.+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~--~~~~-----------~~~~~~~~~~~~~~~--------~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHT-----------EEWDDQILLDKKKNI--------EISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTC-----------TTCCCHHHHHHHHHH--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh--Ccch-----------hhhhhHHHHHhhhhH--------HHHHHhhHHHH
Confidence            35566677788888888888888887763  1110           000000001111111        12356678888


Q ss_pred             HHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhh
Q 041741          652 LGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS  720 (748)
Q Consensus       652 ~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  720 (748)
                      |.+.|++++|+..+++..  .+.+...|..++.++...|++++|...++++++++|+|+.+...+..+..+
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~k  147 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  147 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            888888888888888774  444677888888888888888889999998888888888777777665543

>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=98.12  E-value=3.7e-06  Score=71.06  Aligned_cols=133  Identities=10%  Similarity=0.020  Sum_probs=94.0

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHH
Q 041741          573 TWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDC  651 (748)
Q Consensus       573 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~  651 (748)
                      .+......+...|++++|+..|+++++.  .+...       ..   .....          ...+.| ....+..++.+
T Consensus        29 ~~~~~~~~~~~~~~y~~Ai~~y~~al~~--~~~~~-------~~---~~~~~----------~~~~~~~~~~~~~nla~~   86 (169)
T d1ihga1          29 DLKNIGNTFFKSQNWEMAIKKYTKVLRY--VEGSR-------AA---AEDAD----------GAKLQPVALSCVLNIGAC   86 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHHH-------HH---SCHHH----------HGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--hhhhh-------hh---hhhHH----------HHHhChhhHHHHHHHHHH
Confidence            3455667777888888888888877652  11000       00   00000          001122 24557778899


Q ss_pred             HHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHH
Q 041741          652 LGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDL  727 (748)
Q Consensus       652 ~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  727 (748)
                      +.+.|++++|+..++++.  .+.++..|..++.++...|++++|...++++++++|+++.+...+..+........++
T Consensus        87 ~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l~~~~~~  164 (169)
T d1ihga1          87 KLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDK  164 (169)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998874  3446788888999999999999999999999999999999888888887665554443

>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=98.10  E-value=7.4e-06  Score=67.60  Aligned_cols=64  Identities=11%  Similarity=0.000  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          676 IWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       676 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      ++..++.++...|++++|+..++++++++|+++.++..+|.+|...|++++|+..|++..+-.+
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P  132 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP  132 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            5566788899999999999999999999999999999999999999999999999999776543

>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=98.04  E-value=4.3e-07  Score=92.34  Aligned_cols=146  Identities=14%  Similarity=-0.006  Sum_probs=76.2

Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHH--hcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHH
Q 041741          587 GDEAVRLYKDMIASGVKPDDITFVAILTA--CSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEM  663 (748)
Q Consensus       587 ~~~a~~~~~~m~~~~~~p~~~~~~~l~~~--~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~  663 (748)
                      +..+.+.++...+....++.......+..  ....+.++.++..+++.   .++.|+ ...+..++..+.+.|+.++|..
T Consensus        65 y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~---~~l~~~~~~~~~~lg~~~~~~~~~~~A~~  141 (497)
T d1ya0a1          65 FKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTV---FNVDLPCRVKSSQLGIISNKQTHTSAIVK  141 (497)
T ss_dssp             THHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC---------------------------------
T ss_pred             HHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HCCChhhHHHHHHhHHHHHhCCCHHHHHH
Confidence            44566666666654333333222211111  12334555555554433   244443 4556677788888888888887


Q ss_pred             HHhhCCCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          664 LIDEMPCKDD-PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       664 ~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                      .++... .++ ...+..++..++..|++++|...|+++++++|+++.+|..||.+|...|+..+|..+|.+...
T Consensus       142 ~~~~al-~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~  214 (497)
T d1ya0a1         142 PQSSSC-SYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIA  214 (497)
T ss_dssp             -CCHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHS
T ss_pred             HHHHHh-CCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            766543 222 345666777888888999999999999999998889999999999999999999988887654

>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=5.9e-06  Score=69.77  Aligned_cols=65  Identities=15%  Similarity=0.029  Sum_probs=59.4

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          674 PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       674 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      ...+..+..++...|++++|+..++++++++|+++.++..+|.+|...|++++|+..|+++.+-.
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~  141 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  141 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            44566778889999999999999999999999999999999999999999999999999987743

>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=97.97  E-value=2.1e-05  Score=66.05  Aligned_cols=63  Identities=11%  Similarity=0.009  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          676 IWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       676 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      ++..+..++...|++++|+..++++++++|+++.++..++.+|...|++++|...|+++.+-.
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            455577778999999999999999999999999999999999999999999999999987644

>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=97.94  E-value=1.7e-05  Score=67.01  Aligned_cols=69  Identities=13%  Similarity=0.022  Sum_probs=61.8

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHh-----cCCCCCC
Q 041741          675 VIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSE-----NCIVKDP  743 (748)
Q Consensus       675 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~  743 (748)
                      ..+..++..+...|++++|...++++++.+|.+..++..++.+|...|++++|++.|+++++     -|+.|.|
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~  141 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP  141 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCH
Confidence            45677888899999999999999999999999999999999999999999999999998854     4676554

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.92  E-value=0.0083  Score=55.36  Aligned_cols=246  Identities=14%  Similarity=0.102  Sum_probs=135.7

Q ss_pred             CchhhhhHHHHHhhcCCChhHHHHhhccCCCCCchhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCcchHHHHHHHhc
Q 041741           52 KDIYSWNAILSAQCKSDDLEFAYKLFDEMPERNVVSWNNLISALVRNGLEEKALSVYNKMSNEGFVPTHITLASVFKAST  131 (748)
Q Consensus        52 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  131 (748)
                      ||..--..+...|.+.|.++.|..++..+..     |..++..+.+.++++.|.+++.+.-      +..+|.-+..+|.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d-----~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~l~   80 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN-----FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACV   80 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC-----HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC-----HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHHHH
Confidence            4544555566666677777777777765443     6667777777777777777665431      3446666666665


Q ss_pred             cccCcHHHhHHHHHHHHHCCCCcHhHHHHHHHHHHhcCChhhHHHHHhcCC---CCCeehHHHHHHHHHcCCCHHHHHHH
Q 041741          132 ALLDVEHGRRCHGLVIKIGLDKNIYVANALLSLYAKCGWTKHAVPVFEEMS---EPNEVTFTAMMSGLAKTDRVVEALEM  208 (748)
Q Consensus       132 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~  208 (748)
                      .......+     .+...+...++.....++..|...|.+++...+++...   ..+...++.++..|++.+ .++..+ 
T Consensus        81 ~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~-~~kl~e-  153 (336)
T d1b89a_          81 DGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMRE-  153 (336)
T ss_dssp             HTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHHHH-
T ss_pred             hCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC-hHHHHH-
Confidence            55444332     12222333455556678888888888888888888653   345556777888777754 344333 


Q ss_pred             HHHHHHcCCCCCcccHHHHHHHHhccCCCCCcchhcccccccccccchhHHHHHHHHhcCCCchHHHHHHHHHHHhcCCh
Q 041741          209 FRLMIRKAVSIDSVSLSSVLGVCAREGCGVESDVFAQSDNKFSRNVHGQQVHCLTIKLGFEADLHLSNSLLDMYAKNGDM  288 (748)
Q Consensus       209 ~~~m~~~g~~~~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  288 (748)
                        .+...+   +......++..|...                                +.      +..++-.|.+.|.+
T Consensus       154 --~l~~~s---~~y~~~k~~~~c~~~--------------------------------~l------~~elv~Ly~~~~~~  190 (336)
T d1b89a_         154 --HLELFW---SRVNIPKVLRAAEQA--------------------------------HL------WAELVFLYDKYEEY  190 (336)
T ss_dssp             --HHHHHS---TTSCHHHHHHHHHTT--------------------------------TC------HHHHHHHHHHTTCH
T ss_pred             --HHHhcc---ccCCHHHHHHHHHHc--------------------------------CC------hHHHHHHHHhcCCH
Confidence              333221   122333344444333                                21      23466778888888


Q ss_pred             hHHHHHhccCCCCCcccHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHhcc
Q 041741          289 DSAEVIFSNLPERSVVSWNVMIAGYGQKYQSTKAIELLQRMKSCGFEPDEVTSINMLVACVRSGDIKTGREMFDS  363 (748)
Q Consensus       289 ~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  363 (748)
                      +.|..+.-.-+ +++......+..+.+..+.+...++.....+.  .|  ...+.++......-+.....+.+++
T Consensus       191 ~~A~~~~i~~~-~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p--~~i~~lL~~v~~~~d~~r~V~~~~k  260 (336)
T d1b89a_         191 DNAIITMMNHP-TDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KP--LLLNDLLMVLSPRLDHTRAVNYFSK  260 (336)
T ss_dssp             HHHHHHHHHST-TTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CG--GGHHHHHHHHGGGCCHHHHHHHHHH
T ss_pred             HHHHHHHHHcc-hhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CH--HHHHHHHHHhccCCCHHHHHHHHHh
Confidence            88776654322 23344566677778888887777777766653  23  4456666666666666555555443

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.91  E-value=0.0011  Score=60.25  Aligned_cols=220  Identities=10%  Similarity=-0.068  Sum_probs=116.4

Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcC----CCCchhHHHHHHHHHHhCCCCchHHHHHHHH
Q 041741          473 WNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAK----LSSSFQGRQVHAQIEKDGYVNDIFVGSALIE  548 (748)
Q Consensus       473 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  548 (748)
                      +..+...+...+++++|++.|++..+.|   +...+..|...+..    ..+...+..++......+.   +.....+..
T Consensus         5 ~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~~l~~   78 (265)
T d1ouva_           5 LVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCHLLGN   78 (265)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhhcccc
Confidence            3334444445555555555555555544   22222223333322    3455555555555554442   222222322


Q ss_pred             HHHh----cCCHHHHHHHhhhcCC-CCHHHHHHHHHHHHH----cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhc--
Q 041741          549 MYCK----CGDIYGARQFFDMMHG-KNTVTWNEMIHGYAQ----NGYGDEAVRLYKDMIASGVKPDDITFVAILTACS--  617 (748)
Q Consensus       549 ~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~--  617 (748)
                      .+..    ..+.+.|...++...+ ........+...+..    ......+...+......   .+...+..+...+.  
T Consensus        79 ~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~  155 (265)
T d1ouva_          79 LYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLYDAG  155 (265)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHT
T ss_pred             ccccccccchhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhhhccC
Confidence            2222    3455666666655432 233333333333332    23455566666665553   34444555555553  


Q ss_pred             --CCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHh----cCChHHHHHHHhhCCCCCCHhHHHHHHHHHHh----c
Q 041741          618 --HSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGR----AGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRL----H  687 (748)
Q Consensus       618 --~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~  687 (748)
                        ...+...+...++... +.   .+......++..|..    ..++++|..+|++.....++..+..|...+..    .
T Consensus       156 ~~~~~~~~~~~~~~~~a~-~~---g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~~~a~~~LG~~y~~G~g~~  231 (265)
T d1ouva_         156 RGTPKDLKKALASYDKAC-DL---KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNLGAMQYNGEGVT  231 (265)
T ss_dssp             SSSCCCHHHHHHHHHHHH-HT---TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSS
T ss_pred             CCcccccccchhhhhccc-cc---cccccccchhhhcccCcccccchhhhhhhHhhhhcccCHHHHHHHHHHHHcCCCCc
Confidence              3455666666666652 22   244555566666654    56788888888877534456666667766654    3


Q ss_pred             CCHHHHHHHHHHHHhcCC
Q 041741          688 ANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       688 ~~~~~a~~~~~~~~~~~p  705 (748)
                      .|.++|.+.++++....+
T Consensus       232 ~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         232 RNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             CCSTTHHHHHHHHHHHTC
T ss_pred             cCHHHHHHHHHHHHHCcC
Confidence            478889999999888876

>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=9.3e-06  Score=66.07  Aligned_cols=127  Identities=9%  Similarity=0.054  Sum_probs=71.9

Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCC----------ChHHHHHHHHHhhhhhCCCCC-hhHHHHHH
Q 041741          581 YAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSG----------LVDVGVEIFNSMQLDHGVEPI-LDHYTCMI  649 (748)
Q Consensus       581 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~----------~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~  649 (748)
                      |-+.+.+++|+..+++..+.. |.+...+..+..+|...+          .+++|+..|+++.   .+.|+ ...|..++
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl---~l~P~~~~a~~~lG   82 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEAL---LIDPKKDEAVWCIG   82 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHH---HHCTTCHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHH---HhcchhhHHHhhHH
Confidence            344556677777777777753 334455666665554332          2344555554443   22232 33444444


Q ss_pred             HHHHhcCChHHHHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHH
Q 041741          650 DCLGRAGHFHEAEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRA  729 (748)
Q Consensus       650 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  729 (748)
                      .+|...|++.            ++..         ...+++++|.+.++++++++|+++..+..|+...       +|.+
T Consensus        83 ~~y~~~g~~~------------~~~~---------~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~-------ka~~  134 (145)
T d1zu2a1          83 NAYTSFAFLT------------PDET---------EAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTA-------KAPQ  134 (145)
T ss_dssp             HHHHHHHHHC------------CCHH---------HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-------THHH
T ss_pred             HHHHHcccch------------hhHH---------HHHHhHHHhhhhhhcccccCCCHHHHHHHHHHHH-------HHHH
Confidence            4444333210            0000         0123468899999999999999887777776664       5666


Q ss_pred             HHHHHHhcCC
Q 041741          730 VRELMSENCI  739 (748)
Q Consensus       730 ~~~~~~~~~~  739 (748)
                      .+.++.++|+
T Consensus       135 ~~~e~~k~~~  144 (145)
T d1zu2a1         135 LHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHSSS
T ss_pred             HHHHHHHHhc
Confidence            6777766665

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.85  E-value=3.2e-05  Score=59.56  Aligned_cols=86  Identities=6%  Similarity=-0.011  Sum_probs=41.6

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcC
Q 041741          578 IHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAG  656 (748)
Q Consensus       578 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g  656 (748)
                      +..+.+.|++++|+..|++.+... +-+...|..+..++...|++++|+..+++..   .+.|+ ...+..++.+|...|
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al---~~~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHAR---MLDPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH---HHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhccccccc---ccccccccchHHHHHHHHHCC
Confidence            444455555555555555555532 2233445555555555555555555555543   11222 344445555555555


Q ss_pred             ChHHHHHHHhh
Q 041741          657 HFHEAEMLIDE  667 (748)
Q Consensus       657 ~~~~A~~~~~~  667 (748)
                      ++++|.+.+++
T Consensus        99 ~~~~A~~~l~~  109 (112)
T d1hxia_          99 NANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            55555554443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.85  E-value=0.0028  Score=58.63  Aligned_cols=261  Identities=11%  Similarity=0.028  Sum_probs=136.3

Q ss_pred             HHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchh
Q 041741          444 GLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQ  523 (748)
Q Consensus       444 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~  523 (748)
                      .++..|.+.|.++.|..++..+..     |..++..+.+.+++..|.+.+.+.      -+..+|..+...|........
T Consensus        19 ~i~~~c~~~~lye~A~~lY~~~~d-----~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~~~e~~l   87 (336)
T d1b89a_          19 QVGDRCYDEKMYDAAKLLYNNVSN-----FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRL   87 (336)
T ss_dssp             ----------CTTTHHHHHHHTTC-----HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHhCCC-----HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHhCcHHHH
Confidence            344445555556666655554433     556666677777777777666543      144566666666655443322


Q ss_pred             HHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhhhcC---CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 041741          524 GRQVHAQIEKDGYVNDIFVGSALIEMYCKCGDIYGARQFFDMMH---GKNTVTWNEMIHGYAQNGYGDEAVRLYKDMIAS  600 (748)
Q Consensus       524 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  600 (748)
                      +     .+........+.....++..|...|.+++...+++...   ..+...++.++..|++.+ .++.++.++...  
T Consensus        88 a-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s--  159 (336)
T d1b89a_          88 A-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMREHLELFW--  159 (336)
T ss_dssp             H-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHHHHHHHHHS--
T ss_pred             H-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC-hHHHHHHHHhcc--
Confidence            1     12222334455556677888888888888888888654   346666777777777754 334333333321  


Q ss_pred             CCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhh--------CCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCC
Q 041741          601 GVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDH--------GVEPILDHYTCMIDCLGRAGHFHEAEMLIDEMPCKD  672 (748)
Q Consensus       601 ~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  672 (748)
                       -..|.   ..++..|...+.++++.-++.++. ..        ...++.......++.+.+.++.+...+.+.-.. ..
T Consensus       160 -~~y~~---~k~~~~c~~~~l~~elv~Ly~~~~-~~~~A~~~~i~~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL-~~  233 (336)
T d1b89a_         160 -SRVNI---PKVLRAAEQAHLWAELVFLYDKYE-EYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYL-EF  233 (336)
T ss_dssp             -TTSCH---HHHHHHHHTTTCHHHHHHHHHHTT-CHHHHHHHHHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHHH-HH
T ss_pred             -ccCCH---HHHHHHHHHcCChHHHHHHHHhcC-CHHHHHHHHHHcchhhhhHHHHHHHHHccCChHHHHHHHHHHH-Hc
Confidence             12222   233455555555555555554431 10        122333334445666667777665554443322 11


Q ss_pred             CHhHHHHHHHHHHh-------------cCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHH
Q 041741          673 DPVIWEVLLSSCRL-------------HANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVR  731 (748)
Q Consensus       673 ~~~~~~~l~~~~~~-------------~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  731 (748)
                      .|.....++.....             .++.......++....  -++..+...|..+|...+|++.-+...
T Consensus       234 ~p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~--~n~~~vn~al~~lyie~~d~~~l~~~i  303 (336)
T d1b89a_         234 KPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQN--HNNKSVNESLNNLFITEEDYQALRTSI  303 (336)
T ss_dssp             CGGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHT--TCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHH--cChHHHHHHHHHHHhCcchhHHHHHHH
Confidence            23444444444444             4444444444444332  335578999999999999976544433

>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=97.79  E-value=2.5e-05  Score=57.87  Aligned_cols=76  Identities=11%  Similarity=0.109  Sum_probs=59.6

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhhCC--------CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHH
Q 041741          643 DHYTCMIDCLGRAGHFHEAEMLIDEMP--------CKD-DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSL  713 (748)
Q Consensus       643 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  713 (748)
                      +..-.++..+.+.|++++|...+++..        ..+ ...++..++.++.+.|++++|...++++++++|+++.++..
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~N   85 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGN   85 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHH
Confidence            344567788888888888888877652        112 25678889999999999999999999999999999888888


Q ss_pred             HhHHH
Q 041741          714 LANIY  718 (748)
Q Consensus       714 l~~~~  718 (748)
                      ++...
T Consensus        86 l~~~~   90 (95)
T d1tjca_          86 LKYFE   90 (95)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            75543

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.76  E-value=9.4e-05  Score=58.47  Aligned_cols=93  Identities=9%  Similarity=-0.009  Sum_probs=49.5

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-----hhHHHHH
Q 041741          574 WNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-----LDHYTCM  648 (748)
Q Consensus       574 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-----~~~~~~l  648 (748)
                      +..++..+...|++++|+..|++.++.+ +.+...+..+..+|...|++++|+..++++.....-.+.     ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            3345566666666666666666666653 334455666666666666666666666665321111111     1233344


Q ss_pred             HHHHHhcCChHHHHHHHhh
Q 041741          649 IDCLGRAGHFHEAEMLIDE  667 (748)
Q Consensus       649 ~~~~~~~g~~~~A~~~~~~  667 (748)
                      +..+...+++++|...+++
T Consensus        86 g~~~~~~~~~~~A~~~~~k  104 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNK  104 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHH
Confidence            4444445555555555443

>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=97.69  E-value=1.3e-05  Score=65.24  Aligned_cols=85  Identities=15%  Similarity=0.058  Sum_probs=60.4

Q ss_pred             HhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHHh----------cCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhh
Q 041741          653 GRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCRL----------HANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS  720 (748)
Q Consensus       653 ~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~----------~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  720 (748)
                      .+.+.+++|...++...  .+.++..+..++.++..          .+.+++|+..++++++++|+++.++..+|.+|..
T Consensus         8 ~r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~   87 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTS   87 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHH
Confidence            34455666666666553  33345555555555442          3456889999999999999999999999999988


Q ss_pred             cCC-----------hHHHHHHHHHHHhc
Q 041741          721 LGR-----------WDDLRAVRELMSEN  737 (748)
Q Consensus       721 ~g~-----------~~~A~~~~~~~~~~  737 (748)
                      .|+           +++|.+.|+++.+-
T Consensus        88 ~g~~~~~~~~~~~~~~~A~~~~~kal~l  115 (145)
T d1zu2a1          88 FAFLTPDETEAKHNFDLATQFFQQAVDE  115 (145)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccchhhHHHHHHhHHHhhhhhhccccc
Confidence            764           57788888876553

>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=97.62  E-value=7e-05  Score=61.80  Aligned_cols=88  Identities=15%  Similarity=0.017  Sum_probs=62.7

Q ss_pred             HHHHHhcCChHHHHHHHhhCC----CCC----------CHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC------
Q 041741          649 IDCLGRAGHFHEAEMLIDEMP----CKD----------DPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS------  708 (748)
Q Consensus       649 ~~~~~~~g~~~~A~~~~~~~~----~~~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~------  708 (748)
                      +..+.+.|++++|+..|++..    ..|          ....+..+..++...|++++|...+++++++.|+..      
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            444555566666666665542    111          124566777788888999999999888887654321      


Q ss_pred             -----cchHHHhHHHhhcCChHHHHHHHHHHHh
Q 041741          709 -----APYSLLANIYSSLGRWDDLRAVRELMSE  736 (748)
Q Consensus       709 -----~~~~~l~~~~~~~g~~~~A~~~~~~~~~  736 (748)
                           .++..+|.+|...|++++|...|+++.+
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                 2578899999999999999999998765

>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=97.60  E-value=2.7e-05  Score=70.35  Aligned_cols=129  Identities=10%  Similarity=-0.018  Sum_probs=91.2

Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCC-hhHHHHHHHHHHhcCChH
Q 041741          581 YAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPI-LDHYTCMIDCLGRAGHFH  659 (748)
Q Consensus       581 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~  659 (748)
                      ..+.|++++|+..+++.++.. +-|...+..++..++..|++++|...++...   ...|+ ...+..+...+...+..+
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~---~l~P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSI---KLFPEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH---HHCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH---HhCCCcHHHHHHHHHHHHhccccH
Confidence            456789999999999999863 5566788899999999999999999999885   33555 344555566665556555


Q ss_pred             HHHHHHhhCC--CCCC-HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHH
Q 041741          660 EAEMLIDEMP--CKDD-PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSL  713 (748)
Q Consensus       660 ~A~~~~~~~~--~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  713 (748)
                      ++..-.....  ..|+ ...+...+..+...|+.++|.+.++++.+..|+.+..+..
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~~~  138 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLAND  138 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEETT
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCccccc
Confidence            5544433321  2232 2233334556778899999999999999999988766543

>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=97.52  E-value=0.00012  Score=53.94  Aligned_cols=66  Identities=12%  Similarity=-0.078  Sum_probs=55.7

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-------cchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          674 PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNS-------APYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       674 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      +.....++..+...|++++|...+++++++.|+++       .++..||.+|.+.|++++|+.+++++.+..+
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P   77 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDP   77 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCc
Confidence            34455778889999999999999999999876543       3588999999999999999999999877543

>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=97.27  E-value=0.00063  Score=55.77  Aligned_cols=67  Identities=10%  Similarity=-0.051  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhCC--------CCCC-----HhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcc
Q 041741          644 HYTCMIDCLGRAGHFHEAEMLIDEMP--------CKDD-----PVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAP  710 (748)
Q Consensus       644 ~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  710 (748)
                      .|..++.+|...|++++|...+++..        ..++     ...+..++.++...|++++|...+++++++.|+....
T Consensus        57 ~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~~~  136 (156)
T d2hr2a1          57 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE  136 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHhhch
Confidence            45566777777777777776665542        1121     2245667788999999999999999999987765443

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.27  E-value=0.0023  Score=53.41  Aligned_cols=74  Identities=9%  Similarity=0.085  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhh----hhhCCCCChhHH
Q 041741          571 TVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQ----LDHGVEPILDHY  645 (748)
Q Consensus       571 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~~~~  645 (748)
                      ...+..++..+...|++++|+..++++++.. +-+...|..++.+|...|+.++|+..|+++.    .+.|+.|...+-
T Consensus        67 ~~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~  144 (179)
T d2ff4a2          67 VLAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  144 (179)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHH
Confidence            3467778889999999999999999999863 5566789999999999999999999999873    246899987653

>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=97.20  E-value=9.6e-05  Score=66.64  Aligned_cols=120  Identities=10%  Similarity=-0.006  Sum_probs=86.9

Q ss_pred             hcCCCChHHHHHHHHHhhhhhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHhhCC-CCC-CHhHHHHHHHHHHhcCCHHH
Q 041741          616 CSHSGLVDVGVEIFNSMQLDHGVEP-ILDHYTCMIDCLGRAGHFHEAEMLIDEMP-CKD-DPVIWEVLLSSCRLHANVRL  692 (748)
Q Consensus       616 ~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~  692 (748)
                      ....|++++|+..+++..   ...| +...+..++.+|+..|++++|.+.++... ..| ....+..+...+...+..++
T Consensus         6 aL~~G~l~eAl~~l~~al---~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAI---KASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHH---HTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHH---HHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHH
Confidence            457799999999999985   3344 47888999999999999999999999885 445 45556556666655554444


Q ss_pred             HHHHHHHHHh-cCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcC
Q 041741          693 AKRAAEELFR-LDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENC  738 (748)
Q Consensus       693 a~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  738 (748)
                      +......... .+|++...+...+.++...|+.++|.+.++++.+..
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            3333222112 234444566777888999999999999999987744

>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=97.15  E-value=0.13  Score=50.03  Aligned_cols=54  Identities=7%  Similarity=-0.151  Sum_probs=28.9

Q ss_pred             HHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCC
Q 041741          446 IGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNE  500 (748)
Q Consensus       446 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  500 (748)
                      +..+.+.++++.....+..-+ .++..-.....+....|+..+|...+..+-..|
T Consensus        79 l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~  132 (450)
T d1qsaa1          79 VNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG  132 (450)
T ss_dssp             HHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS
T ss_pred             HHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Confidence            444555666665555443221 133333455566666777777766666555443

>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=96.91  E-value=0.0005  Score=69.07  Aligned_cols=127  Identities=8%  Similarity=-0.092  Sum_probs=53.5

Q ss_pred             cCCHHHHHHHhhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHH
Q 041741          553 CGDIYGARQFFDMMHG---KNTVTWNEMIHGYAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIF  629 (748)
Q Consensus       553 ~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~  629 (748)
                      .+.++.|...+....+   ++...+..+...+.+.|+.+.|...+++....  .| ..++..++..+...|++++|+..|
T Consensus        99 ~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~~-~~~~~~LG~l~~~~~~~~~A~~~y  175 (497)
T d1ya0a1          99 SGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--IC-QHCLVHLGDIARYRNQTSQAESYY  175 (497)
T ss_dssp             HHHHHHHHHHHTC-------------------------------CCHHHHH--HH-HHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--CH-HHHHHHHHHHHHHcccHHHHHHHH
Confidence            3445555555544332   23444555556666666666666655554432  11 134555566666666666666666


Q ss_pred             HHhhhhhCCCCC-hhHHHHHHHHHHhcCChHHHHHHHhhCC--CCCCHhHHHHHHHHHH
Q 041741          630 NSMQLDHGVEPI-LDHYTCMIDCLGRAGHFHEAEMLIDEMP--CKDDPVIWEVLLSSCR  685 (748)
Q Consensus       630 ~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  685 (748)
                      ++..   .+.|+ ...|..++.++...|+..+|...|.+..  .+|.+..+..|...+.
T Consensus       176 ~~A~---~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         176 RHAA---QLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALS  231 (497)
T ss_dssp             HHHH---HHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHH
T ss_pred             HHHH---HHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence            6653   22344 3456666666666666666666665543  3445555555555443

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.08  E-value=0.005  Score=46.33  Aligned_cols=75  Identities=13%  Similarity=0.077  Sum_probs=50.9

Q ss_pred             CCChhHHHHHHHHHHhcC---ChHHHHHHHhhCC-CCC-CH-hHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchH
Q 041741          639 EPILDHYTCMIDCLGRAG---HFHEAEMLIDEMP-CKD-DP-VIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYS  712 (748)
Q Consensus       639 ~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~-~~~-~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  712 (748)
                      .|++.+--..+.++.+..   +.++++.+++++. ..| +. ..+..+.-++.+.|++++|...++++++++|+|..+..
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA~~  111 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGA  111 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHHHH
Confidence            355566666777777654   4457777777764 223 33 56666777788888888888888888888887755543


Q ss_pred             H
Q 041741          713 L  713 (748)
Q Consensus       713 ~  713 (748)
                      .
T Consensus       112 L  112 (124)
T d2pqrb1         112 L  112 (124)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=95.69  E-value=0.25  Score=36.37  Aligned_cols=141  Identities=10%  Similarity=0.110  Sum_probs=91.1

Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHH
Q 041741          581 YAQNGYGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHE  660 (748)
Q Consensus       581 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  660 (748)
                      +...|..++..+++.+....   .+..-|+-++--....-+-+..+..++..-+-+.+.|= .....++.++.+.+..  
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C-~Nlk~vv~C~~~~n~~--   85 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKC-QNLKSVVECGVINNTL--   85 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGC-SCTHHHHHHHHHTTCC--
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchhh-hcHHHHHHHHHHhcch--
Confidence            45678888888888888773   34444555554445555666667777666333333321 1234455555554432  


Q ss_pred             HHHHHhhCCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHHHhcCCC
Q 041741          661 AEMLIDEMPCKDDPVIWEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELMSENCIV  740 (748)
Q Consensus       661 A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  740 (748)
                                   .......+.....+|.-++-...+..+++.+.-+|..+.-++.+|.+.|+..+|-+++.++=++|++
T Consensus        86 -------------se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          86 -------------NEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             -------------CHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             -------------HHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence                         2233344556667788888788888877765557888888889999999988888888888777764

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.40  E-value=0.042  Score=42.82  Aligned_cols=49  Identities=10%  Similarity=-0.029  Sum_probs=30.2

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhh----cCChHHHHHHHHHHHhcC
Q 041741          688 ANVRLAKRAAEELFRLDPKNSAPYSLLANIYSS----LGRWDDLRAVRELMSENC  738 (748)
Q Consensus       688 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  738 (748)
                      .|.++|.+.++++.+.  .++.+...|+.+|..    ..|.++|.++|++.-+.|
T Consensus        73 ~d~~~A~~~~~~aa~~--g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          73 KDLRKAAQYYSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             CCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             hhhHHHHHHHhhhhcc--CcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            3566666666666553  245566666666655    346667777777665544

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.18  E-value=0.065  Score=40.09  Aligned_cols=69  Identities=9%  Similarity=-0.017  Sum_probs=53.3

Q ss_pred             CCCHhHHHHHHHHHHhcC---CHHHHHHHHHHHHhcCCCCC-cchHHHhHHHhhcCChHHHHHHHHHHHhcCC
Q 041741          671 KDDPVIWEVLLSSCRLHA---NVRLAKRAAEELFRLDPKNS-APYSLLANIYSSLGRWDDLRAVRELMSENCI  739 (748)
Q Consensus       671 ~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  739 (748)
                      .++..+...+++++.++.   +.++|+..++.+++.+|.+. ..++.|+-+|++.|++++|+++++.+.+..+
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP  104 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHER  104 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            355666667777776654   56788889999888888664 6888999999999999999999988766443

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=94.73  E-value=0.22  Score=38.40  Aligned_cols=111  Identities=10%  Similarity=-0.024  Sum_probs=74.0

Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHh----cCChHHH
Q 041741          586 YGDEAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGR----AGHFHEA  661 (748)
Q Consensus       586 ~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A  661 (748)
                      |+++|++.|++..+.| .|..  ...|  +.....+.++|+.++++. .+.+   ++.....|+..|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g-~~~a--~~~l--~~~~~~~~~~a~~~~~~a-a~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELN-EMFG--CLSL--VSNSQINKQKLFQYLSKA-CELN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTH--HHHH--HTCTTSCHHHHHHHHHHH-HHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCC-Chhh--hhhh--ccccccCHHHHHHHHhhh-hccc---chhhhhhHHHhhhhccccchhhHHH
Confidence            5678888888888876 3332  2222  234556788888888877 3433   34445566666654    4577889


Q ss_pred             HHHHhhCCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCC
Q 041741          662 EMLIDEMPCKDDPVIWEVLLSSCRL----HANVRLAKRAAEELFRLDP  705 (748)
Q Consensus       662 ~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p  705 (748)
                      .+++++.....++.....|...|..    ..|.++|.+.++++.+...
T Consensus        79 ~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          79 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            9998887644456666666666554    4588999999999887654

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=94.24  E-value=0.68  Score=34.00  Aligned_cols=140  Identities=10%  Similarity=-0.039  Sum_probs=84.1

Q ss_pred             HccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCCchhHHHHHHHHHHHhcCChHHHH
Q 041741          380 SQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASHIDNYVASGLIGIYSKCQRNELAE  459 (748)
Q Consensus       380 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  459 (748)
                      .-.|..++..+++.+...+   .+..-++.++--....-+.+...+.++.+-+   -.|.          ..+++.....
T Consensus        13 ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~---~FDl----------s~C~Nlk~vv   76 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFDL----------DKCQNLKSVV   76 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSCG----------GGCSCTHHHH
T ss_pred             HHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhh---hcCc----------hhhhcHHHHH
Confidence            4467777777777777664   3444555555444444444444444433322   1111          1233333333


Q ss_pred             HHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhcCCCCchhHHHHHHHHHHhCCC
Q 041741          460 RVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCAKLSSSFQGRQVHAQIEKDGYV  537 (748)
Q Consensus       460 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  537 (748)
                      ..+-.+.. +...++.-++.+..+|+-+.-.++++.+.+.+ +|++.....+..+|-+.|+..++.+++.+.-+.|..
T Consensus        77 ~C~~~~n~-~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          77 ECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcc-hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            33332222 33445566777888888888888888876643 677778888888888888888888888888777753

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=93.84  E-value=3  Score=39.89  Aligned_cols=411  Identities=12%  Similarity=0.022  Sum_probs=190.0

Q ss_pred             HHHHhcCChhHHHHHhccCCCCCcccHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCCChh-hHHHHHHHHHhcCCHHH
Q 041741          280 DMYAKNGDMDSAEVIFSNLPERSVVSWNVMIAGYGQ--KYQSTKAIELLQRMKSCGFEPDEV-TSINMLVACVRSGDIKT  356 (748)
Q Consensus       280 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~  356 (748)
                      ....+.|+...+.++...+.+-....|-..-..-..  .....++..+++   +..-.|-.. .-...+..+.+.++++.
T Consensus        14 ~~a~~~~~~~~~~~~~~~L~dypL~pYl~~~~l~~~~~~~~~~~i~~Fl~---~~p~~P~~~~lr~~~l~~L~~~~~w~~   90 (450)
T d1qsaa1          14 KQAWDNRQMDVVEQMMPGLKDYPLYPYLEYRQITDDLMNQPAVTVTNFVR---ANPTLPPARTLQSRFVNELARREDWRG   90 (450)
T ss_dssp             HHHHHTTCHHHHHHHSGGGTTSTTHHHHHHHHHHHTGGGCCHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHCCCHHHHHHHHhhhcCCCCHHHHHHHHHHhccccCCHHHHHHHHH---HCCCChhHHHHHHHHHHHHHhccCHHH
Confidence            445678999999999888854223333322222222  334444444443   332222221 22334567778888888


Q ss_pred             HHHHhccCCCCCcchHHHHHHHHHccCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHhhccCChHHHHHHHHHHHhhcCC
Q 041741          357 GREMFDSMPSPSVSSWNAMLSSYSQSENHKEAIKLFREMQFRGVKPDRTTLAIILSSCAAMGILESGKQVHAASLKTASH  436 (748)
Q Consensus       357 a~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  436 (748)
                      ....+...+ .+...-.....+....|+.+.|...+..+-..|. ..+.....++..+..                .|. 
T Consensus        91 ~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~-~~p~~c~~l~~~~~~----------------~~~-  151 (450)
T d1qsaa1          91 LLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGK-SQPNACDKLFSVWRA----------------SGK-  151 (450)
T ss_dssp             HHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSS-CCCTHHHHHHHHHHH----------------TTC-
T ss_pred             HHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC-CCchHHHHHHHHHHh----------------cCC-
Confidence            777665422 3444445667788889999999888877655542 122222223322222                222 


Q ss_pred             chhHHHHHHHHHHHhcCChHHHHHHHhhCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHhhc
Q 041741          437 IDNYVASGLIGIYSKCQRNELAERVFHRIPELDIVCWNSMIAGLSLNSLDIEAFMFFKQMRQNEMYPTQFSFATVLSSCA  516 (748)
Q Consensus       437 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l~~~~~  516 (748)
                      .+...+-.-+......|+...|..+...+...........+.....   +..+.....   ..  .++......+..++.
T Consensus       152 lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~---p~~~~~~~~---~~--~~~~~~~~~~~~~l~  223 (450)
T d1qsaa1         152 QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANN---PNTVLTFAR---TT--GATDFTRQMAAVAFA  223 (450)
T ss_dssp             SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHHHH---HS--CCCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhC---hHhHHHHHh---cC--CCChhhhHHHHHHHH
Confidence            2233333334445555666666666665554333333333333221   111111111   11  122222222222222


Q ss_pred             C--CCCchhHHHHHHHHHHhCCCCchHHH---HHHHHHHHhcCCHHHHHHHhhhcC--CCCHHHHHHHHHHHHHcCChhH
Q 041741          517 K--LSSSFQGRQVHAQIEKDGYVNDIFVG---SALIEMYCKCGDIYGARQFFDMMH--GKNTVTWNEMIHGYAQNGYGDE  589 (748)
Q Consensus       517 ~--~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~  589 (748)
                      +  ..+++.+..++...............   ..+.......+..+.+...+....  ..+.....-.+......+++..
T Consensus       224 rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~~~~al~~~~~~~  303 (450)
T d1qsaa1         224 SVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIERRVRMALGTGDRRG  303 (450)
T ss_dssp             HHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHhccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHHHHHHHHHcCChHH
Confidence            1  23455555555555443222111111   111111122344455554444332  1233322333334445566666


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHHHHHHhcCChHHHHHH-HhhC
Q 041741          590 AVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMIDCLGRAGHFHEAEML-IDEM  668 (748)
Q Consensus       590 a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~  668 (748)
                      +...++.|... ..-...-.-=+.+++...|+.+.|..+|..+.   . .++  .|..|+..-  .|..-   .+ ....
T Consensus       304 ~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a---~-~~~--fYG~LAa~~--Lg~~~---~~~~~~~  371 (450)
T d1qsaa1         304 LNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLM---Q-QRG--FYPMVAAQR--IGEEY---ELKIDKA  371 (450)
T ss_dssp             HHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHH---T-SCS--HHHHHHHHH--TTCCC---CCCCCCC
T ss_pred             HHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHh---c-CCC--hHHHHHHHH--cCCCC---CCCcCCC
Confidence            66666655332 11112222344556666677777777666652   1 232  233333221  12100   00 0000


Q ss_pred             CCCCCHh-H---HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCcchHHHhHHHhhcCChHHHHHHHHHH
Q 041741          669 PCKDDPV-I---WEVLLSSCRLHANVRLAKRAAEELFRLDPKNSAPYSLLANIYSSLGRWDDLRAVRELM  734 (748)
Q Consensus       669 ~~~~~~~-~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  734 (748)
                      ...+... .   -...+..+...|+...|...+..+.+..  ++.-...++.+..+.|.++.|+....+.
T Consensus       372 ~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         372 PQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             CSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             CccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHHHHHHHHH
Confidence            0011100 0   1122334556788888888777766432  4456667778888888888888776653

>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=80.15  E-value=3.5  Score=28.57  Aligned_cols=59  Identities=20%  Similarity=0.308  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCChHHHHHHHHHhhhhhCCCCChhHHHHHH
Q 041741          589 EAVRLYKDMIASGVKPDDITFVAILTACSHSGLVDVGVEIFNSMQLDHGVEPILDHYTCMI  649 (748)
Q Consensus       589 ~a~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  649 (748)
                      ++.+-++.+....+.|++....+.+++|-+.+++..|+++++....+.+  ++...|..++
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yil   82 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVI   82 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHH
Confidence            4556666677777788888888888888888888888888887743333  3344555444

>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=80.06  E-value=3.8  Score=28.36  Aligned_cols=63  Identities=13%  Similarity=0.054  Sum_probs=45.8

Q ss_pred             ChhHHHHHHHHHHhCCCCCCcchHHHHHHHhccccCcHHHhHHHHHHHHHCCCCcHhHHHHHHH
Q 041741          100 LEEKALSVYNKMSNEGFVPTHITLASVFKASTALLDVEHGRRCHGLVIKIGLDKNIYVANALLS  163 (748)
Q Consensus       100 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  163 (748)
                      +.-++.+-++.+......|++....+.+++|.+.+|+..|.++++..+.... ++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~-~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG-PHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT-TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc-CcHHHHHHHHH
Confidence            4445667777777778888888888888888888888888888888775542 23445555543